REVIEW | doi:10.20944/preprints202107.0044.v3
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Mycobacteria; small RNAs; sncRNAs; RNA processing.
Online: 19 October 2021 (13:23:01 CEST)
Tuberculosis (TB) is an infectious disease caused by Mycobacterium tuberculosis (Mtb), with 10.4 million new cases per year reported in the human population. Recent studies on the Mtb transcriptome have revealed the abundance of noncoding RNAs expressed at various phases of mycobacteria growth, in culture, in infected mammalian cells and in patients. Among these noncoding RNAs are both small RNAs (sRNAs) between 50-350 nts in length and smaller RNAs (sncRNA) <50 nts. In this review, we provide an up-to-date synopsis of the identification, designation, and function of these Mtb-encoded sRNAs and sncRNAs. The methodological advances including RNA sequencing strategies, small RNA antagonists and locked nucleic acid sequence specific RNA probes advancing the studies on these small RNA are described. Initial insights into the regulation of the small RNA expression and putative processing enzymes required for their synthesis and function are discussed. There are many open questions remaining about the biological and pathogenic roles of these small non-coding RNAs, and potential research directions needed to define the role of these mycobacterial noncoding RNAs summarized.
REVIEW | doi:10.20944/preprints202206.0005.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: cancer; gene regulation; small nucleolar RNA (snoRNA); small nucleolar derived RNA (sdRNA); microRNA (miRNA); RNA; snoRNA; sdRNA; miRNA; genetics
Online: 1 June 2022 (05:58:58 CEST)
In the past decade, RNA fragments derived from full length small nucleolar RNAs (snoRNAs) have been shown to be specifically excised and functional. These sno-derived RNAs (sdRNAs) have been implicated as gene regulators in a multitude of cancers, controlling a variety of genes post-transcriptionally via association with the RNA-induced silencing complex (RISC). In this review, we have summarized the literature connecting sdRNAs to cancer gene regulation. SdRNAs possess miRNA-like functions, and are able to fill the role of tumor-suppressor or tumor-promoter in a tissue context-dependent manner. Indeed, there are many miRNAs that are actually derived from snoRNA transcripts, meaning that they are truly sdRNAs and as such are included in this review. As sdRNAs are frequently discarded from ncRNA analyses, we emphasize that sdRNAs are functionally relevant gene regulators and likely represent an overlooked subclass of miRNAs. Based on the evidence provided by the papers reviewed here, we propose that sdRNAs deserve more extensive study to better understand their underlying biology and to identify previously overlooked biomarkers and therapeutic targets for a multitude of human cancers.
REVIEW | doi:10.20944/preprints201810.0596.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: biogenesis; microRNAs; ribosomal RNA-derived fragment (rRF); ribosomes; small ribosomal RNA (srRNA); ribosomal DNA (rDNA); small RNAs
Online: 25 October 2018 (05:59:58 CEST)
The advent of RNA-sequencing (RNA-Seq) technologies has markedly improved our knowledge and expanded the compendium of small non-coding RNAs, most of which derive from the processing of longer RNA precursors. In this review article, we will discuss about the biogenesis and function of small non-coding RNAs derived from eukaryotic ribosomal RNA (rRNA), called rRNA fragments (rRFs), and their potential role(s) as regulator of gene expression. This relatively new class of ncRNAs remained poorly investigated and underappreciated until recently, due mainly to the a priori exclusion of rRNA sequences—because of their overabundance—from RNA-Seq datasets. The situation surrounding rRFs resembles that of microRNAs (miRNAs), which used to be readily discarded from further analyses, for more than five decades, because we could not believe that RNA of such a short length could bear biological significance. As if we had not yet learned our lesson not to restrain our investigative, scientific mind from challenging widely accepted beliefs or dogmas, and from looking for the hidden treasures in the most unexpected places.
ARTICLE | doi:10.20944/preprints202304.0855.v1
Subject: Biology And Life Sciences, Life Sciences Keywords: transfer RNA-derived small RNAs; pathological cardiac hypertrophy; small RNA sequencing; biomarkers
Online: 24 April 2023 (11:01:16 CEST)
Background: It remains unclear whether transfer RNA-derived small RNAs (tsRNAs) play a role in pathological cardiac hypertrophy (PCH). We aimed to clarify the expression profile of tsRNAs and disclose their relationship to the clinical phenotype of PCH and the putative role. Methods: Small RNA sequencing was performed in the plasma of PCH patients and healthy volunteers. In a larger sample size and angiotensin Ⅱ (Ang II)-stimulated H9c2 cells, the data were validated by real-time qPCR. The atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) were examined in Ang II-stimulated H9c2 cells. The role of tsRNAs in the pathogenesis of PCH was explored by bioinformatics analysis. Results: A total of 4185 differentially expressed tsRNAs were identified, of which 4 and 5 tsRNAs were observed to be significantly differentially upregulated and downregulated expressed. Of the 5 down-regulated tsRNAs, 4 of them were verified to be significantly down-regulated in the larger sample group, among which tRF-30-3JVIJMRPFQ5D, tRF-16-R29P4PE, tRF-21-NB8PLML3E, and tRF-21-SWRYVMMV0 had areas under the curve to diagnose concentric hypertrophy. The 4 down-regulated tsRNAs were negatively correlated with left ventricular posterior wall dimensions in PCH patients (r=-0.4227; r=-0.4517; r=-0.5567; r=-0.4223). The levels of ANP and BNP as well as cell size were decreased in Ang II-stimulated H9c2 cells with 21-NB8PLML3E mimic transfection. Bioinformatics analysis revealed that the target genes of tRF-21-NB8PLML3E were mainly enriched in the metabolic pathway and involved in the regulation of ribosomes. Conclusion: The plasma tsRNAs tRF-21-NB8PLML3E might be considered biomarkers in patients with PCH with early screening potential.
ARTICLE | doi:10.20944/preprints202101.0227.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: tRNAs; tRNA-modifying enzyme; TRMT2A; methyltransferase; tRNA hypomethylation; tRNA-derived small RNAs; tRNA-derived stress-induced RNAs; angiogenin.
Online: 12 January 2021 (15:17:29 CET)
Transfer RNA (tRNA) molecules contain various post-transcriptional modifications that are crucial for tRNA stability, translation efficiency, and fidelity. Besides their canonical roles in translation, tRNAs also originate tRNA-derived small RNAs (tsRNAs), a class of small non-coding RNAs with regulatory functions ranging from translation regulation to gene expression control and cellular stress response. Recent evidence indicates that tsRNAs are also modified, however, the impact of tRNA epitranscriptome deregulation on tsRNAs generation is only now beginning to be uncovered. The 5-methyluridine (m5U) modification at position 54 of cytosolic tRNAs is one of the most common and conserved tRNA modifications among species. The tRNA methyltransferase TRMT2A catalyzes this modification, but its biological role remains mostly unexplored. Here, we show that TRMT2A knockdown in human cells induces m5U54 tRNA hypomodification, resulting in angiogenin (ANG) dependent tsRNA formation. More specifically, m5U54 hypomodification is followed by ANG overexpression and tRNA cleavage near the anticodon, resulting in accumulation of 5’tRNA-derived stress-induced RNAs (5’tiRNAs), in particular 5’tiRNA-GlyGCC and 5’tiRNA-GluCTC. Additionally, transcriptomic analysis confirms that down-regulation of TRMT2A and consequently m5U54 hypomodification impacts the cellular stress response and RNA stability, which is often correlated with tsRNA generation. Accordingly, exposure to oxidative stress conditions induces TRMT2A down-regulation and tsRNA formation in mammalian cells. These results establish a link between tRNA demethylation and ANG-dependent tsRNAs formation and unravel m5U54 as a tRNA cleavage protective mark.
REVIEW | doi:10.20944/preprints201711.0015.v1
Subject: Biology And Life Sciences, Plant Sciences Keywords: RGSV; movement proteins; gene silencing; transgenic mechanism; virus-induced small interfering RNA; RNA silencing pathway; antiviral plant defenses
Online: 2 November 2017 (03:05:04 CET)
Rice grassy stunt virus (RGSV) a member of Tenuivirus family, is very potent and destructive which effects rice crop in many countries, particularly China. Non coding RNAs have important functions in development and epigenetic regulation of gene expression in numerous organsisms. There is three type of small non coding RNAs have been found in eukaryotes, which are small interferring RNAs (siRNAs), microRNAs (miRNAs) and piwi interacting RNAs (piRNAs). Small RNAs (sRNAs) origination is from the infecting virus which is known as virus-derived small interfering RNAs (vsiRNAs), has responsibility for RNA silencing in plants. Virus-induced gene silencing (VIGS) is mainly dependent on RNA silencing (RNAi). Interestingly, RNA silencing happens in plants during viral infections. RNAi technique showed significant results in Nephotettix cincticeps. RNAi technique demonstrated the gene silencing of planthopper Nilaparvata lugens. The proteins P5, pcf4, Dnj, psn5, and pn6 act as potential movement proteins and serve as silencing suppressors for RGSV. VsiRNAs originate from dsRNA molecules which require Dicer-like (DCL) proteins, RNA dependent RNA polymerase (RdRP) proteins, and Argonaute (AGO) proteins. RdRP uses ssRNA for perfect RNA amplification process and can also be used for DCL dependent secondary vsiRNA formation. VSRs interfere with the movement of signals during silencing mechanism. Moreover, intercellular movement of viruses is facilitated by virus-encoded movement protein. RNAi is found in many eukaryotes which are related to transcriptional or post-transcriptional regulation by gene suppression. Transcription is bidirectional in ssDNA viruses which are originated from dsRNA molecules. In this review, we highlighted the biology of Rice grassy stunt virus and its insect vector and its silencing suppressors. This work will be helpful for plant virologists to understand the whole biogenesis mechanism for rice viruses especially RGSV.
ARTICLE | doi:10.20944/preprints201810.0576.v1
Subject: Business, Economics And Management, Finance Keywords: Micro Small and Medium Enterprises, Transaction costs, Small businesses, Credit accessibility
Online: 24 October 2018 (12:05:42 CEST)
This study investigated the roles of transactions cost in MSMEs access to finance. This was done by investigating the impact of transactions cost on access to credit from both MSMEs and financial institutions (commercial banks and microfinance banks). From the MSMEs’ side, borrowing experience, decision lag, firm size and borrowers’ distance to the loan office were investigated. On the financial institution’s side, the costs of information gathering, loan administration, monitoring and loan enforcement were investigated. We used the questionnaire survey method, in-depth interviews and case studies, as well as the annual financial statements of the banks. We identified interest rate and collateral value as constraints to access to finance for MSMEs. We also found financial institutions’ attitude to MSMEs access to credit was not friendly. Financial institutions need to do more to bring down transaction cost of lending. This hopefully can be achieved by investing more in agent banking which would lower operating costs, as well as spreading risk, and ultimately increase credit intermediation to small businesses.
ARTICLE | doi:10.20944/preprints202212.0177.v2
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: sRNA analysis; small RNA; microRNA; piRNA; tRNA-derived small RNA; RNA-seq; small RNA fragments; benchmarking; differential expression analysis
Online: 10 February 2023 (11:26:06 CET)
Expression analysis of small noncoding RNA (sRNA), including microRNA, piwi-interacting RNA, small rRNA-derived RNA, and tRNA-derived small RNA, is a novel and quickly developing field. Despite a range of proposed approaches, selecting and adapting a particular pipeline for transcriptomic analysis of sRNA remains a challenge. This paper focuses on the identification of the optimal pipeline configurations for each step of human sRNA analysis, including reads trimming, filtering, mapping, transcript abundance quantification and differential expression analysis. Based on our study, we suggest the following parameters for analysis of human sRNA in relation to categorical analyses with two groups of biosamples: (1) trimming with the lower length bound = 15 and the upper length bound = \(Read\ length - 40\% Adapter\ length\); (2) mapping on a reference genome with bowtie aligner with one mismatch allowed (-v 1 parameter); (3) filtering by mean threshold > 5; and (4) analyzing differential expression with DESeq2 with adjusted p-value < 0.05 or limma with p-value < 0.05 if there is very little signal and few transcripts.
ARTICLE | doi:10.20944/preprints202206.0057.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Small RNAs; Jararhagin; Venom
Online: 6 June 2022 (03:56:53 CEST)
Small RNAs (sRNA) and microRNAs (miRNAs) are small endogenous noncoding single-stranded RNAs that regulate gene expression in eukaryotes. Experiments in mice and humans have revealed that a typical small RNA can affect the expression of a wide range of genes, implying that small RNAs function as global regulators. Here, we used small RNA deep sequencing to investigate at how jararhagin, a metalloproteinase toxin produced from the venom of Bothrops jararaca, affected mmu-miRs expression in mice 2 h and 24 h after injection. The findings revealed that seven mmu-miRs were substantially differentially expressed (p-value (p (Corr) cut-off 0.05, FC 2) at 2h after jararhagin exposure, and that the majority of them were upregulated when compared to PBS. In contrast to these findings, a comparison of Jar 24h vs PBS 24hrs demonstrated that the majority of identified mmu-miRs were downregulated. Furthermore, the studies demonstrated that mmu-miR can target the expression of several genes involved in the MAPK signaling pathway. The steady antithetical regulation of mmu-miRs may correlates with the expression of genes that trigger apoptosis via MAPK in the early stages, and this effect intensifies with time. The findings expand our understanding of the effects of jararhagin on local tissue lesions at the molecular level.
ARTICLE | doi:10.20944/preprints201810.0368.v1
Subject: Biology And Life Sciences, Biophysics Keywords: Metalloenzymes; Spectroscopy; Small Molecules
Online: 16 October 2018 (16:54:25 CEST)
[NiFe]-hydrogenases are gas-processing metalloenzymes that catalyze the conversion of dihydrogen (H2) to protons and electrons in a broad range of microorganisms. Within the framework of green chemistry, the molecular proceedings of biological hydrogen turnover inspired the design of novel catalytic compounds for H2 generation. The bidirectional “O2-sensitive” [NiFe]-hydrogenase from Escherichia coli HYD-2 has recently been crystallized; however, a systematic infrared characterization in the presence of natural reactants is not available yet. In this study, we analyze HYD-2 from E. coli by in situ ATR FTIR spectroscopy under quantitative gas control. We provide an experimental assignment of all catalytically relevant redox intermediates alongside the O2- and CO-inhibited cofactor species. Furthermore, the reactivity and mutual competition between H2, O2, and CO was probed in real time, which lays the foundation for a comparison with other enzymes, e.g., “O2-tolerant” [NiFe]-hydrogenases. Surprisingly, only Ni-B was observed in the presence of O2 with no indications for the “unready” Ni-A state. The presented work proves the capabilities of in situ ATR FTIR spectroscopy as an efficient and powerful technique for the analysis of biological macromolecules and enzymatic small molecule catalysis.
ARTICLE | doi:10.20944/preprints202102.0068.v1
Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: cost-effectiveness; pembrolizumab; etoposide-platinum; extensive-stage small-cell lung cancer; small cell lung cancer.
Online: 1 February 2021 (18:10:59 CET)
Background: The phase III KEYNOTE-604 study confirmed the benefit of pembrolizumab combined with chemotherapy in the first-line treatment of extensive-stage small-cell lung cancer(ES-SCLC). Intergrated the clinical benefits of pembrolizumab and its high cost into account, this study aim to assess the cost-effectiveness of adding pembrolizumab to standard first-line etoposide-platinum (EP) for patients with ES-SCLC from the the US payer perspective. Methods: A Markov model was developed to compared the costs and quality-adjusted life-years (QALYs) of pembrolizumab plus EP and placebo plus EP over a 10-year time horizon. Clinical efficacy, treatment utilization and safety data were pooled from the KEYNOTE-604 trial. Utilities were obtained from published resources. Costs were mainly collected from Medicare in 2020. Sensitivity analyses were performed to examined the robustness of our model. Results: Adding pembrolizumab to standard first-line EP, resulted in better effectiveness than the use of EP alone for ES-SCLC by 0.22 QALYs. Pembrolizumab plus EP was dominated economically by placebo plus EP, leading to an incremental cost-effectiveness ratio(ICER) of $334,373/ QALY. Deterministic sensitivity analyses indicated that the uncertainty in model parameters exerts no substantial effect on our results. Probability sensitivity analysis indicated that probabilities for pembrolizumab plus EP being cost-effective within a wide rang of willingness to pay were modest. Conclusion: From the US payer perspective, the first-line treatment for ES-SCLC with pembrolizumab plus EP was not cost-effective compare with placebo plus EP. Although pembrolizumab combination chemotherapy was beneficial to the survival of ES-SCLC, price reduction may be the necessary measure to improve its cost-effectiveness.
REVIEW | doi:10.20944/preprints201910.0365.v1
Subject: Medicine And Pharmacology, Pharmacology And Toxicology Keywords: pharmacological chaperones; mucopolysaccharidoses; mps; small molecules
Online: 31 October 2019 (09:33:43 CET)
The mucopolysaccharidoses (MPS) are a group of 11 lysosomal storage diseases (LSDs) produced by mutations in the enzymes involved in the lysosomal catabolism of glycosaminoglycans. Most of the mutations affecting these enzymes may lead to changes in processing, folding, glycosylation, pH stability, protein aggregation, and defective transport to the lysosomes. The use of small molecules, called pharmacological chaperones (PCs), that can restore the folding, trafficking and biological activity of mutated enzymes has been extensively explored in LSDs as a therapeutic alternative. PCs have the advantage of wide tissue distribution, potential oral administration, lower production cost, and fewer issues of immunogenicity. In this paper, we will review the advances in the identification and characterization of PCs for the MPS. These molecules, mainly based in molecules mimicking the enzyme substrates, have been described for MPS II, IVA, and IVB, showing a mutation-dependent enhancement of the mutated enzymes. Although the results show the potential of this strategy, further studies should focus in the development of disease-specific cellular models that allow a proper screening and evaluation of the identified PCs. In addition, in vivo evaluation, both pre-clinical and clinical, should be performed, before they can become a real therapeutic strategy for the treatment of MPS patients.
REVIEW | doi:10.20944/preprints202009.0146.v1
Subject: Medicine And Pharmacology, Pharmacology And Toxicology Keywords: homocysteine; small vessel disease; neuroinflammation; neurodegneration; endothelium
Online: 6 September 2020 (15:53:11 CEST)
Homocysteine (Hcy) is a sulfur-containing amino acid that is generated during methionine metabolism. Hyperhomocysteinemia (HHcy) is typically defined as levels >15 micro mols/L. Elevated plasma levels of Hcy can be caused by the deficiency of either vitamin B12 or folate. The active role of homocysteine is quite ambivalent: many studies detected its potential impact on neurological events; others try to identify it as one of the possible risk factors of cardiovascular events, but with a complementary and secondary role. HHcy has been reported in many neurologic disorders, including cognitive impairment and stroke, independent of long-recognized factors such as hyperlipidemia, hypertension, diabetes mellitus, and smoking. Nowadays, homocysteine could be considered as a possible link between a common vascular risk factor and potential alterations in degenerative neuronal disorders. HHcy-induced oxidative stress, endothelial dysfunction, inflammation, smooth muscle cell proliferation, and endoplasmic reticulum stress; all these aspects have been considered to play an essential role in the pathogenesis of several diseases, including atherosclerosis, major stroke, and vascular dementia. Specific models of astrocytes impairment in HHcy-mice, which mimic small vessel disease, have been developed with a three-step investigation (at 6, 10, 14 weeks of B6, B9, and B12 detrimental diet in wild type HHcy mouse). These studies found out that after ten weeks on a diet (at the most after 14 weeks), end-feet disruption occurs. This phenomenon is concomitant to reduced vascular labeling for aquaporin -4-water channels, lower protein/mRNA levels for Kir4.1, and BK potassium channels, associated with a higher expression of MMP-9. The most exciting finding is that microglial activation in this mice model was evident since the precocious time of observation (6-week time) and precedes astrocytic changes. Our research aims to review the possible role of HHcy in neurodegenerative disease and small-vessel disease and to understand its pathogenic impact.
ARTICLE | doi:10.20944/preprints202006.0303.v1
Subject: Biology And Life Sciences, Aquatic Science Keywords: Livelihoods; Sustainability; Vulnerability; Small-scale Fishers; Bangladesh
Online: 24 June 2020 (14:34:34 CEST)
Small-scale fishers are considered as one of the most vulnerable communities in Bangladesh but very few studies focused on the livelihood sustainability and vulnerabilities of this professional group. A fieldwork in lower Padma and upper Meghna hilsa sanctuaries identifies different livelihood characters and associated vulnerabilities of the fishers. A conceptual framework known as Sustainable Livelihood Approaches (SLA) has been introduced to analyses the qualitative and quantitative data. The insights of the livelihood strategies provide on small-scale fishers and fisheries management have been explained and explored. Fishers are found solely dependent on fishing, economically insolvent and neglected. In addition, some socio-economic abstractions such as low income, credit insolvency, lack of substitute earning flexibility make them more vulnerable. A number of effective suggestions are elicited from fishers’ perceptions, the implementation of which is crucial to ensure livelihood sustainability of the small-scale fishers.
ARTICLE | doi:10.20944/preprints201702.0085.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: alfalfa; drought; microRNA; small RNA; differential expression
Online: 23 February 2017 (09:50:07 CET)
Alfalfa, an important legume forage, is an ideal crop for sustainable agriculture and a potential bioenergy plant. Drought, one of the most common environmental stresses, substantially affects plants’ growth, development and productivity. MicroRNAs (miRNAs) are newly discovered gene expression regulators that have been linked to several plant stress responses. To elucidate the role of miRNAs in drought stress regulation of alfalfa, a high-throughput sequencing approach was used to analyze 12 small RNA libraries comprising of 4 samples, each with 3 biological replicates. We identified 348 known miRNAs, belonging to 80 miRNA families, from the 12 libraries and 281 novel miRNAs using Mireap software. 18 known miRNAs in roots and 12 known miRNAs in leaves were screened out as drought-responsive miRNAs. Except for miR319d and miR157a which were upregulated under drought stress, the expression pattern of drought-responsive miRNAs were different between roots and leaves in alfalfa. This is the first study discovering miR157a, miR1507, miR3512, miR3630, miR5213, miR5294, miR5368 and miR6173 are drought-responsive miRNAs. Target transcripts of drought-responsive miRNAs were computationally predicted. All 447 target genes for the known miRNAs were predicted using an online tool. This study provides a significant insight on understanding drought-responsive mechanisms of alfalfa.
ARTICLE | doi:10.20944/preprints202304.0124.v1
Subject: Engineering, Electrical And Electronic Engineering Keywords: YOLOv8; small size targets; target detection; feature fusion
Online: 7 April 2023 (11:35:23 CEST)
Traditional camera sensors rely on human eyes for observation. However, the human eye 1 is prone to fatigue when observing targets of different sizes for a long time in complex scenes, and 2 human cognition is limited, which often leads to judgment errors and greatly reduces the efficiency. 3 Target recognition technology is an important technology to judge the target category in camera 4 sensor. In order to solve this problem, a small size target detection algorithm for special scenarios was 5 proposed by this paper. Its advantage is that this algorithm not only has higher precision for small 6 size target detection, but also can ensure that the detection accuracy of each size is not lower than the 7 existing algorithm. In this paper, a new down-sampling method was proposed, which could better 8 preserve the context feature information. The feature fusion network was improved to effectively 9 combine shallow information and deep information. A new network structure was proposed to 10 effectively improve the detection accuracy of the model. In terms of accuracy, it is better than: YOLOX, 11 YOLOXR, YOLOv3, scaled YOLOv5, YOLOv7-Tiny and YOLOv8.Three authoritative public data sets 12 were used in this experiment: a) On Visdron data sets (small size targets), DC-YOLOv8 is 2.5% more 13 accurate than YOLOv8. b) On Tinyperson data sets (minimal size targets), DC-YOLOv8 is 1% more 14 accurate than YOLOv8. c) On PASCAL VOC2007 data sets (Normal size target), DC-YOLOv8 is 0.5% 15 more accurate than YOLOv8.
CASE REPORT | doi:10.20944/preprints202301.0310.v1
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: small RNA; HTLV-1; ATLL; massive parallel sequencing
Online: 17 January 2023 (11:06:37 CET)
Small RNAs (sRNA) are epigenetic regulators of essential biological processes that have been linked to the onset and progression of leukemia, including acute adult T-cell leukemia-lymphoma (ATLL) caused by the retrovirus Human T-lymphotropic virus type 1. Here, we describe the sRNA profile of a 30-year-old female with ATLL at diagnosis and after maintenance therapy, with the goal of correlating their expression levels with response to therapy.
ARTICLE | doi:10.20944/preprints202211.0073.v1
Subject: Computer Science And Mathematics, Geometry And Topology Keywords: Esakia duality; small space; spectral space; Heyting algebra
Online: 3 November 2022 (08:39:44 CET)
We develop the theory of Heyting small spaces and prove a new version of Esakia duality for such spaces. To do this, we notice that spectral spaces may be seen as sober small spaces with all smops compact and introduce the method of the standard spectralification. This helps to understand open continuous definable mappings between definable spaces over o-minimal structures.
ARTICLE | doi:10.20944/preprints202208.0306.v1
Subject: Engineering, Industrial And Manufacturing Engineering Keywords: simulated value stream mapping; small and medium enterprise
Online: 17 August 2022 (08:19:22 CEST)
The accumulation of process waste in the production line causes fluctuations, bottlenecks, and increased inventory in workstations disrupting process flow. In this paper, the aim is the use a simulated value stream mapping (SVSM) as a lean assessment tool for decision-making in the continuous improvement process to influence and provide consideration and consistency on productivity improvement in the production system. The proposed methodology applied discrete event simulation for production process operations improvement to eliminate non-value adding times and provides good quality products at the lowest cost and highest efficiency. The results are the analysis of the current state of the production system in a South African truck manufacturing industry small and medium enterprise (SMEs) as a potential solution for the production system future state. The identified non-value adding times in the 6 most critical workstations was eliminated by SVSM which resulted in a productivity improvement of 4%, most importantly bringing the productivity to 95% and total cycle time improvement to 451 for small units and 466 for large units. The results proposed combined VSM and Simulation techniques which enhance the LEAN application by DES to increase productivity and performance improvement to remain competitive in the global economy.
REVIEW | doi:10.20944/preprints202101.0425.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Goat; Sheep; Small Ruminants; Animal Models; Regenerative Medicine.
Online: 21 January 2021 (15:01:17 CET)
Medical and translational scientific research requires the use of animal models as an initial approach to the study of new therapies and treatments, but when the objective is an exploration of translational potentialities, classical models fail to adequately mimic problems in humans. Among the larger animal models that have been explored more intensely in recent decades, small ruminants, namely sheep and goats, have emerged as excellent options. The main advantages associated to the use of these animals in research works are related to their anatomy and dimensions very similar to those of humans in most physiological systems, in addition to their low maintenance and feeding costs, tendency to be docile, long life expectancies and few ethical complications raised in society. The most obvious disadvantages are the significant differences in some systems such as the gastrointestinal, and the reduced amount of data that limits the comparison between works and the validation of the characterization essays. Despite everything, recently these species have been increasingly used as animal models for diseases in different systems, and the results obtained open doors for their more frequent and advantageous use in the future. The purpose of this review is to summarize the general principles related to the use of small ruminants as animal models, with focus on regenerative medicine, to group the most relevant works and results published recently and to highlight the potentials for the near future in medical research.
ARTICLE | doi:10.20944/preprints202012.0311.v1
Subject: Biology And Life Sciences, Anatomy And Physiology Keywords: resource integration; network analysis; sustainability; small-scale farm
Online: 14 December 2020 (09:26:08 CET)
Shrinking farm size and fragile farm resources pose a significant challenge to the sustainability of small-scale farms. Efficient resource utilization in small-scale farms is crucial to achieving farm sustainability through endogenous mechanisms. However, the precise mechanisms to integrate physical resources to achieve farm sustainability are not very clear yet. By capturing the interaction among farm resources as a network phenomenon, we identify the discrete resource interactions (RIs) in different types of small-scale farms of Indian Sundarbans, which are associated with higher farm sustainability. Thirty-two linkages, 11 reciprocal linkages, 22 triads, and three ‘core elements’ that occurred and cooccurred on highly sustainable farms are found to be critical in achieving farm sustainability. Using the properties of resource interaction networks as explanators of farm sustainability, we anticipate that sustainability in small-scale farms can be achieved by strategically creating new RIs on the farm. However, there may be limitations to such achievement depending on the nature of RI and type of farm. The analytical approach helps to understand the structural basis of sustainability in small-scale farms, and this approach can be used to achieve farm sustainability through the strategic integration of existing farm resources in the smallholder systems.
ARTICLE | doi:10.20944/preprints202011.0071.v1
Subject: Environmental And Earth Sciences, Atmospheric Science And Meteorology Keywords: chlorophyll-a; downwelling; IOD; small pelagic fish; upwelling
Online: 2 November 2020 (19:45:51 CET)
Although researchers have investigated widely the impact of IOD phases on human lives, only a few have examined such impacts on fisheries. In this study, we analyzed the influence of negative (positive) of IOD on a chlorophyll a (Chl-a) concentration as an indicator of phytoplankton biomass and small pelagic fish production in the eastern Indian Ocean (EIO) off Java. We also conducted field surveys in the EIO off Palabuhanratu Bay at the peak (October) and the end (December) of the 2019 positive IOD phase. Our findings show that the Chl-a concentration had a strong and robust association with the 2016 (2019) negative (positive) IOD phases. The negative (positive) anomalous Chl-a concentration in the EIO off Java associated with the negative (positive) IOD phase induced strong downwelling (upwelling), leading to the preponderant decrease (increasing) of small pelagic fish production in the EIO off Java.
REVIEW | doi:10.20944/preprints202011.0005.v1
Subject: Chemistry And Materials Science, Medicinal Chemistry Keywords: aminoacyl-tRNA synthetase, small molecule inhibitors, human diseases
Online: 2 November 2020 (09:09:37 CET)
Aminoacyl-tRNA synthetases (ARSs) are essential enzymes for translating amino acids for protein synthesis. Their function in pathogen-derived infectious diseases has been well established, which has led to development of small molecule therapeutics. The applicability of ARS inhibitors for other human diseases such as fibrosis has recently been explored in the clinical setting. There are active studies to find small molecule therapeutics for cancers. Studies on central nervous system (CNS) disorders are burgeoning as well. In this regard, we present a concise analysis of the recent development of ARS inhibitors based on small molecules from the discovery research stage to clinical studies as well as a recent patent analysis from the medicinal chemistry point of view.
BRIEF REPORT | doi:10.20944/preprints202001.0292.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: circadian rhythms; small molecules; luciferase reporters; period estimations
Online: 25 January 2020 (00:33:40 CET)
We present a summary of our protocol for employment of small-molecule circadian rhythm modulators. The abilities of compounds to affect oscillations have received significant attention. We outline assessments of circadian changes using indirubin-3’-oxime (IO), 5-iodo-indirubin-3’-oxime (5I-IO), and 5-sulfonic acid-indirubin-3’-oxime (5SA-IO), analyzing effects on Bmal1 and Per2 oscillations and oncogenic features.
ARTICLE | doi:10.20944/preprints201911.0173.v1
Subject: Environmental And Earth Sciences, Environmental Science Keywords: coral reef; Landsat; population; remote sensing; small islands
Online: 15 November 2019 (04:14:59 CET)
In general, remote sensing has proven to be a powerful tool in the overall understanding of natural and anthropogenic phenomena. Satellites have become useful tools for tasks such as characterization, monitoring, and the continuous prospecting of natural resources. This research aims to analyze spatial dynamic and destructive on coral reefs area and correlation between live coral reduction and population on small islands. Landsat MSS, TM, ETM, and OLI-TIRS are used to spatial analyze of coral reef dynamics from 1972 to 2016. The image processing includes gap-filling, atmospheric correction, geometric correction, image composite (true color), water column correction, unsupervised classification, reclassification, accuracy assessment. The statistical analysis identifies the relationship between dynamic population data with a reduction of live coral, namely Principal Component Analysis (PCA) and Multiple Regression Analysis. The effect of the population shows a positive correlation with the reduction in the area of live coral, although it is significant. The fact is the practice of coral destruction on an island; it is usually not only caused or carried out by residents who live on the island but also carried out by other residents of different islands.
ARTICLE | doi:10.20944/preprints201910.0093.v1
Subject: Computer Science And Mathematics, Probability And Statistics Keywords: fia; forest inventory; small area estimation; survey weight
Online: 9 October 2019 (07:38:07 CEST)
We propose a new estimator for creating expansion factors for survey plots in the USDA Forest Inventory and Analysis program. This is a regularized version of the raking estimator widely used in sample surveys. The regularized raking method differs from other predictive modeling methods for integrating survey and ancillary data in that it produces a single set of expansion factors that can have general purpose use to produce small area estimates and wall-to-wall maps of any plot characteristic. This method also differs from other more widely used survey techniques, such of GREG estimation, in that it is guaranteed to produce positive expansion factors. We extend the previous method here to include cross-validation, and provide a comparison to expansion factors between the regularized raking and ridge GREG survey calibration.
ARTICLE | doi:10.20944/preprints201908.0065.v2
Subject: Environmental And Earth Sciences, Environmental Science Keywords: small towns; mapping; urban sanitation; access; SDG; Tanzania
Online: 26 August 2019 (09:08:09 CEST)
Sustainable Development Goal (SDG) 6.2 sets an ambitious target of leaving no one without adequate sanitation by 2030. The key concern is the lack of local human and financial capital to fund the collection of reliable information to monitor progress towards the goal. As a result, national and local records may be telling a different story of the proportion of safely managed sanitation that counts towards achieving the SDGs. This paper unveils such inconsistency in sanitation data generated by urban authorities and proposes a simple approach for collecting reliable and verifiable information on access to safely managed sanitation. The paper is based on a study conducted in Babati Town Council in Tanzania. Using a smartphone-based survey tool, city health officers were trained to map 17,383 housing units in the town. A housing unit may comprise of two or more households. The findings show that 5% practice open defecation, while 82% of the housing units have some forms of sanitation. Despite the extensive coverage, only 31% of the faecal sludge generated is safely contained, while 64% is not. This study demonstrates the possibility of using simple survey tools to collect reliable data for monitoring progress towards safely managed sanitation in the towns of global south.
ARTICLE | doi:10.20944/preprints202305.2103.v1
Subject: Environmental And Earth Sciences, Environmental Science Keywords: Cameroon; mining; Small Scale mining; Sustainable development; Betare Oya
Online: 30 May 2023 (10:00:47 CEST)
Considering the differences between the European and African continents concerning the management of the mining production sector, we decided to carry out this study with the main objective of demonstrating that, in Africa, mining can positively change the quality of life of the populations where it develops and, at the same time, it is possible to respect the environment, which is our main wealth. To achieve these objectives, it is necessary to present the mining activity of the continent, emphasizing both the negative aspects and its strong points. The most important thing is to make a good diagnosis of the situation, which will allow us to cure our "patient", that is, African mining production.
ARTICLE | doi:10.20944/preprints202305.0100.v1
Subject: Computer Science And Mathematics, Computer Vision And Graphics Keywords: Infrared small targets; Counter-drones; Progressive fusion; Lightweight network
Online: 3 May 2023 (05:49:13 CEST)
The rampant misuse of drones poses a serious threat to national security and human life. Currently, the CNN method has been widely used in drone detection. However, there is a challenge that traditional CNN cannot cope with, which is small drone targets often have reduced amplitude or even lost features in infrared images. This paper proposes a Progressive Feature Fusion Network (PFFNet) that gradually increases the response amplitude of the target in the deep network. The Feature Selection Model (FSM) is designed to improve the utilisation of the output coding graph and enhance the feature representation of the target in the network. A lightweight segmentation head is also designed to achieve progressive feature fusion with multi-layer outputs. Experimental results show that the proposed algorithm can achieve low duration and high accuracy in drone target detection. On the public dataset, the IoU is improved by 2.53% and the detection time is reduced by 81.03%.
ARTICLE | doi:10.20944/preprints202212.0401.v1
Subject: Medicine And Pharmacology, Pathology And Pathobiology Keywords: small RNA; HTLV-1; HAM/ TSP; massive parallel sequencing
Online: 21 December 2022 (11:46:09 CET)
Human T-lymphotropic virus type 1 (HTLV-1)–associated myelopathy/tropical spastic paraparesis (HAM/TSP) is a slowly progressive spinal cord disorder with no effective treatment. There is much of interest in developing potential biomarkers for predicting the pathogenesis of HAM/TSP disorder. This study used Illumina massive parallel sequencing (MPS) technology to assess the cellular global noncoding RNAome expression profile in HAM/TSP patients (n = 10), asymptomatic HTLV-1 infected carriers (ASP, n = 8), and a second group of healthy controls (n = 5). Using various bioinformatics tools, the sRNA MPS reads were aligned, annotated, and profiled. There were 251 known and 50 potential novel sRNAs among the 402 detected sRNAs in the HAM and ASP groups versus the HC group. Sixty-eight known sRNAs were found to be significantly different between the ASP and HAM groups. In HAM vs ASP subjects, 88 mature miRNAs were downregulated. Three of these miRs (hsa-miR-185-5p, 32-5p, and 192-5p) have the potential to be used as biomarkers for predicting the pathogenesis of HAM/TSP. The top seven deregulated miRS target genes were linked to a variety of biological processes and molecular functions. Relevant reactome pathways to our findings provide a rich source of data and an opportunity to further understand sRNA regulation and function in HTLV-1 pathophysiology.
ARTICLE | doi:10.20944/preprints202209.0411.v1
Subject: Social Sciences, Geography, Planning And Development Keywords: small urban green areas; timeseries; GEOBIA; NDVI; MSAVI2; Planet
Online: 27 September 2022 (03:59:34 CEST)
The importance of small urban green areas has increased in the context of rapid urbanization and densification of the urban tissue. The analysis of these areas through remote sensing has been limited due to the low spatial resolution of freely available satellite images. We propose a timeseries analysis on 3 m resolution Planet images, using GEOBIA and vegetation indices, with the aim of extracting and assessing the quality of small urban green areas in two different climatic and biogeographical regions – temperate (Bucharest, Romania) and mediterranean (Athens, Greece). Our results have shown high accuracy (over 91%) regarding the extraction of small urban green areas in both cities, across all analysed images. The timeseries analysis showed consistency in location for around 55% of the identified surfaces throughout the entire period. The vegetation indices registered higher values in the temperate region, due to the vegetation characteristics and the planning of the two cities. For the same reasons, the increase in vegetation density and quality, as a result of the distance from the city centre and the decrease in the density of built-up areas is more obvious in Athens. The proposed method provides valuable insights in the distribution and quality of small urban green areas at city level and can represent the ground basis for many analyses, currently limited by poor spatial resolution.
REVIEW | doi:10.20944/preprints202107.0641.v1
Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: packing density; product density; small porous particles; corrugated particles
Online: 29 July 2021 (10:18:51 CEST)
This manuscript critically reviews the design and delivery of spray-dried particles for the achievement of high total lung doses (TLD) with a portable dry powder inhaler. We introduce a new metric termed the product density, which is simply the TLD of a drug divided by the volume of the receptacle it is contained within. The product density is given by the product of three terms: the packing density (the mass of powder divided by the volume of the receptacle), the drug loading (the mass of drug divided by the mass of powder), and the aerosol performance (the TLD divided by the mass of drug). This manuscript discusses strategies for maximizing each of these terms. Spray drying at low drying rates with small amounts of a shell-forming excipient (low Peclet Number) leads to formation of higher density particles with high packing densities. This enables ultrahigh TLD (>100 mg of drug) to be achieved from a single receptacle. Emptying of powder from capsules is directly proportional to the mass of powder in the receptacle, requiring an inhaled volume of about 1 L for fill masses between 40 and 50 mg and up to 3.2 L for a fill mass of 150 mg.
Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: Non–Small Cell Lung Cancer; cisplatin; chemoresistance; molecular mechanisms
Online: 14 July 2021 (11:25:13 CEST)
Cancer cells utilize a number of mechanisms to increase their survival and progression as well as their resistance to anticancer therapy: deregulation of growth regulatory pathways by acquiring grow factor independence, immune system suppression, reducing the expression of antigens activating T lymphocyte cells (mimicry), induction of anti-apoptotic signals to counter the action of drugs, activation of several DNA repair mechanisms and driving the active efflux of drugs from the cell cytoplasm and epigenetic regulation by microRNAs (miRNAs). Due to the fact that it is commonly diagnosed late, lung cancer remains a major malignancy with a low five-year survival rate; when diagnosed, the cancer is often highly advanced and the cancer cells may have acquired drug resistance. This review summarizes the main mechanisms involved in cisplatin resistance and in interactions between cisplatin-resistant cancer cells and the tumor microenvironment. It also analyses changes in the gene expression profile of cisplatin sensitive vs. cisplatin resistant non–small cell lung cancer (NSCLC) cellular model using the GSE108214 Gene Expression Omnibus database. It describes a protein-protein interaction network that indicates highly-dysregulated TP53, MDM2 and CDKN1A genes as they encodes the top networking proteins that may be involved in cisplatin tolerance, these all being upregulated in cisplatin-resistant cells. Furthermore, it illustrates the multifactorial nature of cisplatin resistance by examining the diversity of dysregulated pathways present in cisplatin-resistant NSCLC cells based on KEGG pathway analysis.
ARTICLE | doi:10.20944/preprints202105.0577.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Melanoma patients; Small Extracellular Vesicles; Proteomics; Fatty acids; Biomarkers
Online: 24 May 2021 (15:07:09 CEST)
The early detection of cutaneous melanoma, a potentially lethal cancer with rising incidence, is key to increase survival and therapeutic adjustment. Especially in stages II-IV biomarkers are urgently needed for adjuvant therapy purposes after resection and for treatment of metastatic patients. We here investigated if fatty acid (FA) and protein composition of small extracellular vesicles (sEV) deriving from plasma of 0-I, II, and III-IV stage melanoma patients (n=38) could reflect disease stage and thus function as biomarker. The subpopulation of sEV expressing CD81 (CD81sEV) was isolated by an ad hoc immune affinity technique from microvesicle-depleted plasma. Biological macromolecules were investigated by gas chromatography and mass spectrometry in CD81sEV. A higher content of FA and a decrease in Saturation Index (C18:0/C18:1), already detectable in early stages, distinguished patients’ from healthy donor CD81sEV. Proteomics (identifier PXD024434) detected an exclusive and significant increase of CD14, PON1, PON3 and APOA5 in stage II and a significant decrease of Rap1b in stage III-IV CD81sEV. The FA and proteomic stage dependent CD81sEV signature strengthens the potential of circulating sEV studies in providing discriminatory information for early diagnosis, prediction of metastatic behavior and follow up of melanoma patients.
ARTICLE | doi:10.20944/preprints202103.0179.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: RNA interference; dsRNA delivery; small RNA production; dsRNA formulation
Online: 5 March 2021 (10:01:04 CET)
Plant pathogenic fungi are the largest group of disease-causing agents on crop plants and represent a persistent and significant threat to agriculture worldwide. Conventional approaches based on the use of pesticides raise social concern for the impact on the environment and human health and alternative control methods are urgently needed. The rapid improvement and extensive implementation of RNAi technology for various model and non-model organisms has provided the initial framework to adapt this post-transcriptional gene silencing technology for the management of fungal pathogens. In this review, we describe exogenous RNAi involved in plant pathogenic fungi and discuss small RNA production, formulation, and RNAi delivery methods. We explore some challenges with possible solutions. Furthermore, exogenous RNAi holds great potential for RNAi-mediated plant pathogenic fungal disease control.
ARTICLE | doi:10.20944/preprints202006.0033.v1
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: Nicotine; carcinogenesis; growth; toxicity; Carcinoma; Non-Small-Cell Lung
Online: 4 June 2020 (12:14:49 CEST)
Nicotine exposure may affect NSCLC is associated with lung cancer in humans. Whether nicotine exhibits carcinogenesis promoted activities in tumor growth still unknown. Nicotine is known to have dichotomous effects on cancer biology, acting like a pro- or anti-carcinogenesis agent. There are different functions between adenocarcinoma and squamous NSCLC cancer cells. Excess generation of nicotine may inhibit mitochondrial metabolism, protein modification, and DNA cleavage. Materials and Methods: We used the H520 NSCLC line obtained from human lung epithelial cells to detected nicotine growth and toxicity using MTT assay and western blotting. The concentration of nicotine stimulated cell growth to correspond to low concentration, while high concentration was cytotoxic. Results: According to MTT assay results, at 1.0 μM nicotine has significantly enhanced the H520 cell viability (%). Nicotine induced lung cancer carcinogenesis through mechanisms of α7nAchR, EGFR, HDAC2/4/5, Cyclin D/Cyclin E, Bcl-2, p-Akt, and inflammatory proteins of NF-KappaB and COX2 increases at 1.0 μM. Apoptosis proteins were decreases at 1.0 μM nicotine by p21, p27, c-jun, and p38α using western blotting. Nicotine stimulates tumor growth is mediated through α7nicotinic-acetylcholine receptors (α7nAChR), possibly involving inflammation. On the other hand, at high nicotine concentrations (> 1.0 μM) with consistent cytotoxic effects and appeared to be due to direct cell kill. Nicotine can prevent apoptosis induced by NSCLC. Conclusion: Therefore, the effects on chemotherapeutics by NSCLC malignant cell lines, nicotine in concentrations as low as 1.0 μM decreased. These mechanisms are responsible for the genotoxic effects caused by nicotine. This leads to downstream effects on decreased apoptosis, increased cell proliferation and transformation. The malignant NSCLC cells respond to the treatment with nicotine in lung cancer, the nicotine-mediated induction of growth may provide one of its links to α7nAchR or EGFR.
ARTICLE | doi:10.20944/preprints202002.0428.v1
Subject: Engineering, Civil Engineering Keywords: small hydropower plant; river flow; seasonal forecast; energy production
Online: 28 February 2020 (12:15:43 CET)
The operation feasibility of small hydropower plants in mountainous sites is subjected to the run-of-river flow which is also depending on a high variability in precipitation and snow cover. Moreover, the management of this kind of systems has to be performed with some particular operation conditions of the plant (e.g. turbine minimum and maximum discharge) but also some environmental flow requirements. In this context, a technological climate service is conceived in tight connection with end users, perfectly answering the needs of the management of small hydropower systems in a pilot area, and providing forecast of river streamflow together with other operation data. This paper presents an overview of the service but also a set of lessons learnt related to features, requirements and considerations to bear in mind from the point of view of climate services developers. In addition, the outcomes give insight into how this kind of services could change the traditional management (normally based on the past experience), providing a probability range of future river flow based on future weather scenarios according to the range of future weather possibilities. This highlights the utility of the co-generation process to implement climate services for water and energy fields but also that seasonal climate forecast could improve the business as usual of this kind of facilities.
ARTICLE | doi:10.20944/preprints201801.0281.v1
Subject: Arts And Humanities, Humanities Keywords: migrants; sense of belonging; small town; stranger; South Sudanese
Online: 30 January 2018 (10:35:53 CET)
Australian regional areas are now receiving significant numbers of migrants from the African continent. Predominantly Anglo-Saxon communities perceive these ‘newcomers’ as physically and culturally different. Asking, however, how African migrants themselves construct relationships with local communities and build a sense of belonging in regional and rural areas is a very different question. This paper explores South Sudanese migrants’experiences conceptualising their sense of belonging in a small county town: Castlemaine, Victoria. Focus group discussions show that even with the welcoming atmosphere and support from the local community, South Sudanese migrants are still attracted to metropolitan environments that have greater diversity, feeling more at home in such settings. Using the theoretical background of a stranger, this paper argues the cities allow strangers be un-noticed letting them feel at ‘home’. Findings from the study show settings with greater diversity encourage negotiating difference openly and easing power imbalances among different groups.Finally, the locality of Castlemaine, within easy commuting distance to metropolitan Melbourne and suburbs, is considered in relation to hypermobility reducing the capacity to construct ‘bridging capital’ within such local communities.
ARTICLE | doi:10.20944/preprints201709.0048.v1
Subject: Environmental And Earth Sciences, Environmental Science Keywords: microbial contamination; bacteria; contamination sources; small watershed; Tibetan Plateau
Online: 12 September 2017 (16:01:26 CEST)
Microbial contamination is now more common than chemical contamination in Tibet, and water-borne microbes can cause a number of diseases that threaten public health. Thus, in order to clarify the spatiotemporal distribution of bacteria in small watersheds for which there is no data in Tibet, we set up four sampling points along an upstream-downstream transect of the Xincang River Basin. We collected 239 water samples in 2014 and 2015, and evaluated their total constituent numbers of bacteria (TB) and coliforms (TC). The results of this study show that the microbial contamination of the Xincang River Basin is mild-to-moderate in terms of TB and TC contents, and that these concentrations vary significantly in different seasons. Results show that in summer TB and TC concentrations in the downstream section of this river were highest and that microbial contamination was most serious. Data also demonstrate that precipitation is the most important factor underlying increases in TB and TC concentrations during the summer months; both these variables are significantly correlated with precipitation, while animal husbandry and domestic sewage are the main sources of microbial contamination overall. The results of this study are likely to reflect the basic characteristics of small watersheds for which there is no data to some extent, and are thus of significant practical importance for protecting their ecological environments and promoting sustainable development.
ARTICLE | doi:10.20944/preprints202306.0171.v1
Subject: Computer Science And Mathematics, Geometry And Topology Keywords: tame topology; Esakia duality; locally small space; up-spectral space
Online: 2 June 2023 (09:40:30 CEST)
We develop the theory of Heyting locally small spaces, including Stone-like dualities such as a new version of Esakia duality and a system of concrete isomorphisms and equivalences. In such a way, we continue building tame topology, realising Grothendieck's ideas. We use up-spectral spaces and define the standard up-spectralification of a Kolmogorov locally small space. This research gives more understanding of locally definable spaces over structures with topologies.
ARTICLE | doi:10.20944/preprints202305.0170.v1
Subject: Biology And Life Sciences, Biophysics Keywords: FOF1-ATP synthase; chloroplasts; dimers; small-angle scattering; membrane proteins
Online: 4 May 2023 (03:21:52 CEST)
F-type ATP synthases play a key role in oxidative and photophosphorylation processes producing adenosine triphosphate (ATP) for most biochemical reactions in living organisms. In contrast to the mitochondrial FOF1-ATP synthases those of chloroplasts are known to be mostly monomers with approx. 15% fraction of oligomers interacting presumably non-specifically in a thylakoid membrane. To shed light to the nature of this difference we studied interactions of the chloroplast ATP synthases using small-angle X-ray scattering (SAXS) method. Here, we report evidence of I-shaped dimerization of solubilized FOF1-ATP synthases from spinach chloroplasts at different salinity. The structural data were obtained by SAXS and showed dimerization in response to changes in ionic strength. The best model describing SAXS data was two ATP-synthases connected through F1/F1’ parts, presumably via their δ-subunits, forming dimers with the “I” shape. Such I-shaped dimers might possibly connect the neighboring lamellae in thylakoid stacks assuming that the FOF1 monomers comprising such dimers are embedded in different thylakoid membranes. If this type of dimerization exists in nature, it might be one of the pathways of inhibition of chloroplast FOF1-ATP synthase for preventing of ATP hydrolysis in dark, when salinity in plant chloroplasts is rising. Together with a redox switch inserted into a γ-subunit of chloroplast FOF1 and lateral oligomerization, an I-shaped dimerization might comprise a subtle regulatory process of ATP synthesis and stabilize the structure of thylakoid stacks in chloroplasts.
ARTICLE | doi:10.20944/preprints202301.0355.v1
Subject: Biology And Life Sciences, Aquatic Science Keywords: Davao Gulf; fisheries management; small-scale fisheries; tuna fisheries; traceability
Online: 19 January 2023 (09:49:02 CET)
Traceability is the ability to determine the path of a product from purchase to consumption to determine when and where it originated. This paper aimed to determine the factors that influence fishers’ decision-making to participate in tuna traceability program, it also explores the determinants of fish catch for small-scale fishers and the feasibility of implementing tuna traceability in the Davao Gulf, Philippines. The result of the interview showed that the significant factors that highly affected the decision-making of fishers in implementating tuna traceability program: boat capacity, fishing hours and communication of fishers (P≤0.05). Household size, years in community, fishing hours, volume of fish sold, and the fishers' communication in the fishing ground (P≤0.05) were other factors that determined the daily catch of the fishers. The results of this study showed that fishers from the Davao Gulf were willing to be part of traceability program that would sustain and increase the value of their fish catch. Moreover, communication was shown to be critically needed in such programs adjusting it for the fish catch to remain fresh or of good quality. Our study will help in deterring and mitigating illegal, unregulated and unreported fishing (IUU) through fish catch traceability.
ARTICLE | doi:10.20944/preprints202105.0600.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: heparan sulfate; glycosaminoglycan; carbohydrate biosynthesis; azido sugar; small molecule inhibitor
Online: 25 May 2021 (10:17:59 CEST)
The glycosaminoglycan, heparan sulphate (HS), orchestrates many developmental processes. Yet its biological role has not yet fully been elucidated. Small molecule chemical inhibitors can be used to perturb HS function and these compounds pro-vide cheap alternatives to genetic manipulation methods. However, existing chemical inhibition methods for HS also interfere with chondroitin sulphate (CS), complicating data interpretation of HS function. Herein, a simple method for the selective inhibition of HS biosynthesis is described. Using endogenous metabolic sugar pathways, Ac4GalNAz produces UDP-GlcNAz, which can target HS synthesis. Cell treatment with Ac4GalNAz resulted in defective chain elongation of the polymer and decreased HS expression. Conversely, no adverse effect on CS production was observed. The inhibition was transient and dose-dependent, affording rescue of HS expression after removal of the unnatural azido sugar. The utility of inhibition is demonstrated in cell culture and in whole or-ganisms, demonstrating that this small molecule can be used as a tool for HS inhibition in biological systems.
ARTICLE | doi:10.20944/preprints202104.0155.v1
Subject: Business, Economics And Management, Accounting And Taxation Keywords: Sustainability; Processes; Small boats; Catch handling; Standardisation of operations; Efficiency.
Online: 5 April 2021 (16:44:28 CEST)
Small boat fishers are often the lifeblood of remote coastal communities in Iceland, contributing to employment, jobs and economic prosperity. This study conducts exploratory but highly practical research into the efficiency of onboard catch handling practices by Icelandic small boat fishers using fish handling tools called automatic jigging machines. Using applied research methods, this study researches whether standardisation of operations could be applied to make catch handling practices on small boats more time and resource efficient, leading to reduced waste, a consistently higher quality product, and potential increases in economic efficiency and sustainability. Thematic analysis, value stream mapping, flow analysis and Kaizen ideology were adopted to identify gaps and continuous improvement opportunities to standardise processes, leading to exemplary performance. Eight core recommendations are identified, seven of which are classed as straight-forward, ‘do now’ measures according to a Kaizen Priority Matrix. These include human and technological interventions in the areas of safety, organisational arrangements, hygiene, fish handling and bleeding, and cooling. Questionnaire responses reveal four main themes of importance to the sub-sector: changes in recent decades; the importance of small boat fishers; education and improvement; and the particularities of the sub-industry. The latter include the perception of a ‘race against time’ to land the catch, an issue that sometimes contributes to sub-optimal catch handling practices. Although this study has decidedly practical connotations for small boat fishers, its outcomes are also likely to be of interest to academics, particularly those focused on the organisational management of natural resources and general applications of the project management methodology and applied research methods as a means of solving practical problems in everyday life.
REVIEW | doi:10.20944/preprints202102.0496.v1
Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: non-coding; leukemia; B-cell; RNA-sequencing; small RNA-sequencing
Online: 22 February 2021 (16:33:30 CET)
Non-coding RNAs (ncRNAs) comprise a diverse class of non-protein coding transcripts that regulate critical cellular processes associated with cancer. Advances in RNA-sequencing (RNA-Seq) have led to the characterization of non-coding RNA expression across different types of human cancers. Through comprehensive RNA-Seq profiling, a growing number of studies demonstrate that ncRNAs, including long non-coding RNA (lncRNAs) and microRNAs (miRNA), play central roles in progenitor B-cell Acute Lymphoblastic Leukemia (B-ALL) pathogenesis. Furthermore, due to their central roles in cellular homeostasis and their potential as biomarkers, the study of ncRNAs continues to provide new insight into the molecular mechanisms of B-ALL. This article reviews the ncRNA signatures reported for all B-ALL subtypes, focusing on technological developments in transcriptome profiling and recently discovered examples of ncRNAs with biologic and therapeutic relevance in B-ALL.
ARTICLE | doi:10.20944/preprints202101.0167.v1
Subject: Social Sciences, Tourism, Leisure, Sport And Hospitality Keywords: Island nations, Tourism, Small Island Nations, economic development, tropical islands
Online: 8 January 2021 (14:29:52 CET)
In the past few decades, the tourism sector has emerged as a significant economic activity in island nations, particularly in tropical regions. However, most of the tropical islands face similar constraints. National and international tourists visit the SIDS including A & N Islands and contribute to the GDP to significant share. The Covid-19 outbreaks in SIDs including A & N islands shows that number of people infected were less as compared to metros or big cities. However, tourism activities completely stopped due to lockdown resulting in decreasing tourist’s arrival, declined GDP and per capita income of SIDs to greater extent. The information gathered from various sources, mass media and net analysed and interpreted in this chapter. Due to Covid-19 tourist’s arrival declined which has serious consequences on the livelihood of islander. Our analysis revealed A&N Islands deficit in energy available at from different sources by 18.26%. However, they are surplus in protein. The burden of high expenditure coupled with poor infrastructure makes them more vulnerable in the circumstance of pandemic outbreaks. This outbreak has created the question of survival due to loss of jobs, halted economic activates, psychological, health unrest and livelihood threats among the depending people of these Island nations. Therefore, government interventions and subsidized package is very much essential to revive the tourism industry.
ARTICLE | doi:10.20944/preprints202010.0477.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Exportin-1; Eriodictyol; Juglans mandshurica; Non-small cell lung cancer
Online: 23 October 2020 (10:19:32 CEST)
Exportin-1, the ubiquitous nuclear protein transporter, is widely confirmed as an active chemotherapeutic target in non-small cell lung cancer condition while Juglans mandshurica is a well-studied anticancer plant in some lung cancer cell lines. We intend to find novel exportin-1 inhibitor from Juglans mandshurica with better potential tolerability and pharmaco-dynamo-kinetic properties than the current selective inhibitors of nuclear export in non-small cell lung cancer treatment. Osiris property explorer DataWarrior, Glide standard precision docking, quantum mechanics polarized ligand docking, MMGBSA binding free energy calculations, Jaguar density functional theory analysis, and the online web-based SwissADME were employed respectively in this study to filter the retrieved compounds based on tolerability, toxicity, and Lipinsky’s rule of five violation potential, determine their druggability, establish relative stability of the lead compound in water solvation model, and evaluates druglikeness, lead-likeness, as well as synthetic accessibility of the lead compound. This study reveals eriodictyol as having higher binding free energy (-40 kcal/mol) than that of standard (-39.56 kcal/mol) in exportin-1 active site, better synthetic accessibility score (3.15 versus 3.29), high GI absorption, non-blood brain barrier permeant, lacks Brenk and PAINS alert, obeying Lipinski’s, Ghose’s, Veber’s, Egan’s, and Muegge’s rule of druglikeness and lead-likeness as well as non-cytotoxic to HepG2 cells. We therefore found eriodictyol as a lead-like, non-toxic exportin-1 inhibitor with good predictive stability and pharmacokinetic potential and thus provided data for further validation of eriodictyol as a candidate exportin-1 inhibitor in both preclinical and clinical studies involving lung cancer therapy.
ARTICLE | doi:10.20944/preprints202003.0146.v1
Subject: Environmental And Earth Sciences, Soil Science Keywords: conventional agriculture; land degradation; small-holders; multinomial logistic regression; Nepal
Online: 9 March 2020 (01:24:35 CET)
Land degradation is a critical issue globally putting our future generations at risk. The decrease in farm productivity over the years is evidence of land degradation severity in Nepal. Among the many strategies in place, agroforestry, which is an integrated tree-based farming, is widely recommended to address this productivity issue. This paper thoroughly examines what influences the choice of agroforestry adoption by farmers and what discourages the adoption. For this, a total of 288 households were surveyed using a structured questionnaire. Two agroforestry practices were compared with conventional agriculture with the help of the Multinomial Logistic Regression (MNL) model. The likelihood of adoption was found to be influenced by gender; the male-headed households were more likely to adopt the tree-based farming practice. Having a source of off-farm income was positively associated with the adoption decision of farmers. Area of farmland was found being the major constraint to agroforestry adoption for smallholder farmers. Some other variables that affected positively included livestock herd size, provision of extension service, home-to- forest distance, farmers’ group membership and awareness of farmers about environmental benefits of agroforestry. Irrigation was another adoption constraint that the study area farmers were faced with. The households with means of transport and with larger family (household) size were found to be reluctant towards agroforestry adoption. A collective farming practice could be a strategy to engage the smallholder farmers in agroforestry.
ARTICLE | doi:10.20944/preprints201911.0185.v1
Subject: Environmental And Earth Sciences, Environmental Science Keywords: rainfall-runoff; multiple temporal scales; non-linearity; small catchments; Mediterranean
Online: 15 November 2019 (16:56:57 CET)
Mediterranean catchments are characterized by significant spatial and temporal hydrological variability caused by the interaction of natural as well human-induced abiotic and biotic factors. This study investigates the (non-)linearity rainfall-runoff relationship at multiple temporal scales in representative small Mediterranean catchments (i.e., < 10 km2) to achieve a better understanding of the hydrological response. Rainfall-runoff relationship was evaluated in 44 catchments at annual and event –203 events in 12 of these 44 catchments– scales. A linear rainfall-runoff relation was observed at annual scale with higher scatter in pervious than impervious catchments. Larger scattering was observed at event scale, although pervious lithology and agricultural land use promoted significant rainfall-runoff linear relations in winter and spring. These relationships were particularly analysed during five hydrological years in Es Fangar catchment (3.35 km2; Mallorca, Spain) as a temporal downscaling to assess intra-annual variability in which antecedent wetness conditions played a significant role in runoff generation.
ARTICLE | doi:10.20944/preprints201909.0328.v1
Subject: Chemistry And Materials Science, Polymers And Plastics Keywords: proton exchange membranes; semi-crystalline polymers; small-angle neutron scattering
Online: 29 September 2019 (06:25:39 CEST)
Membranes based on sulfonated synditoactic polystyrene were thoroughly characterized by contrast variation SANS over a wide Q-range in dry and hydrated states. The film samples were prepared by solid-state sulfonation that allowed a uniform sulfonation of only the amorphous phase while preserving the crystallinity of the membrane. The samples were loaded with different guest molecules in either the amorphous (fullerenes) or the crystalline (toluene) regions, in order to vary the neutron contrast or to reproduce the conditions enabling an increased resistance of the membranes to chemical decomposition. The use of uni-axially deformed film samples and contrast variation with different H2O/D2O mixtures allowed for the identification and characterization of different structural levels with sizes between nm and μm, which form and evolve in the membrane morphology in dry and hydrated states and produce scattering features on different detection sectors and at different detection distances after the sample, depending on their size and orientation.
ARTICLE | doi:10.20944/preprints201903.0254.v1
Subject: Physical Sciences, Chemical Physics Keywords: metabolomics; sphingomyelins; plasma; cerebral small vessel disease; neurodegeneration; brain atropy
Online: 28 March 2019 (05:27:23 CET)
Background: Plasma metabolites are associated with cognitive and physical function in the elderly. Because cerebral small vessel disease (SVD) and neurodegeneration are common causes of cognitive and physical function decline, the primary objective of this study was to investigate the associations of six plasma metabolites (two plasma phosphatidylcholines [PCs]: PC aa C36:5 and PC aa 36:6 and four sphingomyelins [SMs]: SM C26:0, SM [OH] C22:1, SM [OH] C22:2, SM [OH] C24:1) with magnetic resonance imaging (MRI) features of cerebral SVD and neurodegeneration in older adults. Methods: This study included 238 older adults in the Atherosclerosis Risk in Communities study at the fifth exam. Multiple linear regression was used to assess the association of each metabolite (log-transformed) in separate models with MRI measures except lacunar infarcts, for which binary logistic regression was used. Results: Higher concentrations of plasma PC aa C36:5 had adverse associations with MRI features of cerebral SVD (odds ratio of 1.69 [95% confidence interval: 1.01, 2.83] with lacunar infarct, and beta of 0.16 log [cm3] [0.02, 0.30] with log [White Matter Hyperintensities (WMH) volume]) while higher concentrations of 3 plasma SM (OH)s were associated with higher total brain volume (beta of 12.0 cm3 [5.5, 18.6], 11.8 cm3 [5.0, 18.6], and 7.3 cm3 [1.2, 13.5] for SM [OH] C22:1, SM [OH] C22:2, and SM [OH] C24:1, respectively). Conclusions: This study identified associations between certain plasma metabolites and brain MRI measures of SVD and neurodegeneration in older adults, particularly higher SM (OH) concentrations with higher total brain volume.
ARTICLE | doi:10.20944/preprints201809.0022.v1
Subject: Medicine And Pharmacology, Other Keywords: pressure drop; CFD; Casson fluid; blood; hematocrit; small-vessel; microfluidics
Online: 3 September 2018 (10:58:39 CEST)
The aim of this study is to provide the scientists with a straightforward correlation that can be applied for predicting the Fanning friction factor and consequently the pressure drop during blood flow in small caliber vessels. Due to the small diameter of the conduit, the Reynolds numbers are low and thus the flow is laminar. The study has been conducted using CFD simulations validated with relevant experimental data acquired using an appropriate experimental set-up. The experiments concern pressure drop measurement during the flow of a blood analogue that follows the Casson model, i.e. an aqueous glycerol solution that contains a small amount of xanthan gum and exhibits similar behavior to blood, in a smooth, stainless steel microtube (L=5.6cm and D=400 μm). The interpretation of the resulting numerical data led to the proposal of a simplified model that incorporates the effect of the flow rate, the hematocrit value (35-55%) and the vessel diameter (300-1800 μm) and predicts with better than ±10% the Fanning friction factor and consequently the pressure drop during laminar blood flow in small caliber vessels.
ARTICLE | doi:10.20944/preprints202306.0281.v1
Subject: Computer Science And Mathematics, Computer Vision And Graphics Keywords: Infrared dim small targets; Object detection; Adaptive Fusion Attention Module; ISVD
Online: 5 June 2023 (08:47:09 CEST)
Infrared detection plays an important role in the military, aerospace, and other fields, which has the advantages of all-weather, high stealth, and strong anti-interference. However, infrared dim small target detection suffers from complex backgrounds, low signal-to-noise ratio, blurred targets with small area percentages, and other challenges. In this paper, we proposed a multiscale YOLOv5-AFAM algorithm to realize high-accuracy and real-time detection. Aiming at the problem of target intra-class feature difference and inter-class feature similarity, the Adaptive Fusion Attention Module - AFAM was proposed to generate feature maps that are calculated to weigh the features in the network and make the network focus on small targets. This paper proposed a multiscale fusion structure to solve the problem of small and variable detection scales in infrared vehicle targets. In addition, the downsampling layer is improved by combining Maxpool and convolutional downsampling to reduce the number of model parameters and retain the texture information. For multiple scenarios, we constructed an infrared dim and small vehicle target detection dataset, ISVD. The multiscale YOLOv5-AFAM was conducted on the ISVD dataset, compared to YOLOv7, mAP@0.5 achieves a small improvement while the parameters are only 17.98% of it. By contrast with the YOLOv5s model, mAP@0.5 was improved by 4.3% with a 6.6% reduction in the parameters. Experiments results demonstrate that the multiscale YOLOv5-AFAM has a higher detection accuracy and detection speed on infrared dim and small vehicles.
ARTICLE | doi:10.20944/preprints202304.0878.v1
Subject: Chemistry And Materials Science, Physical Chemistry Keywords: hydroxystearic acid; stearic acid; self-assembly; mixtures; Small Angle Neutron Scattering
Online: 25 April 2023 (03:55:21 CEST)
We describe the behavior of mixtures of stearic acid (SA) and its hydroxylated counterpart 12-hydroxystearic acid (12-HSA) in aqueous mixtures at room temperature, as function of the 12-HSA/(fatty acid) mole ratio R. The morphologies of the self-assembled aggregates are obtained by a multi-structural approach that combines confocal and cryo-TEM microscopies with Small-Angle Neutron Scattering (SANS) and Wide-Angle X-Rays Scattering (WAXS) measurements, coupled with rheology measurements. Fatty acids are solubilized by an excess of ethanolamine counterions, so that their heads are negatively charged. The behavior is driven by the competition between mixing entropy and enthalpic effects. A clear trend towards partitioning between the two types of fatty acids is observed, presumably driven by the favorable formation of a H-bond network between hydroxyl OH function on the 12th carbon. For all R, the self-assembled structures are locally lamellar, with bilayers composed of crystallized and strongly interdigitated fatty acids. At high R, multi-lamellar tubes are formed, similarly as for pure aqueous solutions of 12-HSA. The doping by a low amount of SA molecules only slightly modify the dimensions of the tubes (radius and length), and slightly decreases the bilayers rigidity. The solutions have a gel-like behavior originating from entanglements between tubes and show a yield stress. At intermediate R, a partial local partitioning occurs between the two types of fatty acids. The tubes coexist in solution with helical ribbons. The two structures possibly merge to form very long snaky objects with straight and curved parts. The rigidity of the bilayers and the rheological behavior of the solutions are very similar to those of the high R case. At low R, local partitioning also occurs, and the architecture of the self-assemblies associates the two morphologies of the pure fatty acids systems, respectively 2-D planar bilayers for SA and the tubes describe above for the 12-HSA molecules: they are facetted objects with planar domains enriched in SA molecules, capped with curved domains enriched in 12-HSA molecules. The rigidity of the bilayers is strongly increased, as well their storage modulus, compared to systems with larger R. The solutions remain however viscous fluids in this regime of low R.
ARTICLE | doi:10.20944/preprints202304.0874.v1
Subject: Engineering, Energy And Fuel Technology Keywords: Pump-as-turbine; performance; flow characteristics; rotational speed; small hydro-power
Online: 25 April 2023 (03:47:35 CEST)
Small hydro-power systems seem to be the best solution for energy generation through the use of pump as turbine (PAT) due to its low cost and lesser environmental hazards associated with it. Recently, PAT applications are gaining global attention in energy generation but its operation is not fully understood. The performance and flow behavior is affected by several operational conditions. This study seeks to investigate the effects of rotational speed on flow behavior and performance of a PAT. Rotational speed is an important physical parameter that affects the operation of a PAT. A selected centrifugal pump model of four blades and splitters was used for the study. Numerical simulations were carried out using k-ε turbulence model to solve the three-dimensional (3D) equations in both pump and PAT modes. The outcomes were then validated using experimental results in the pump mode to obtain overview flow physiognomies. The results predicted that the efficiency increases as the rotational speed increases in the pump mode whereas in turbine mode, higher rotational speed cannot convert hydraulic energy into mechanical energy. Thus, a rotational speed of 1500 rpm performed the highest efficiency of 69.8% at QBEP among the other rotational speeds selected. Moreover, the head performance in the turbine mode increases as the flow rate increases. This research provides useful information which will help improve PAT performance as well as selecting PAT for small hydro-power site.
ARTICLE | doi:10.20944/preprints202304.0285.v1
Subject: Medicine And Pharmacology, Epidemiology And Infectious Diseases Keywords: Small mammals; Reservoirs; Pathogenic agents; Transmission; Low diversity; Relative abundance; Mali
Online: 13 April 2023 (03:21:47 CEST)
Small rodents and insectivores are potential reservoirs of many pathogens transmissible to humans such as bacteria, parasites and viruses responsible for epidemics in sub-Saharan Africa, particularly in West Africa. Few studies on small mammal species in the Kolikoro and Sikasso regions are available, hence the interest in investigating the different species of small rodents and insectivores, and their role in the transmission of pathogens to humans. The study aims to identify commensal small mammal species circulating in Faladjè and Bougouni areas, and likely to represent major risks of epidemic disease emergence. Sessions of trapping were carried out in December 2016 in Faladjè and Bougouni with wire mesh traps type “Besançon tous services” (BTS) baited with peanut butter and/or onion. All animals captured were identified morphologically. Out of 123 small rodents and insectivores captured in 674 trap nights, 75 (60.97%) were from Faladjè and 48 (39.02%) from Bougouni, Of these, six species of small rodents belong to the family Muridae (Mastomys erythroleucus, Mastomys natalensis, Rattus rattus, Praomys daltoni, Gerbilliscus gambianus, Taterillus gracilis) and two species of insectivores associated with the genus Crocidura spp. belong to the family Soricidae and Erinaceidae (Crocidura cf olivieri and Atelerix cf albiventris) respectively. There is low specific diversity within these two stands, but the variation in relative abundance is significant (binomial test, p = 0.018 ˂ 0.05) between the Faladjè and Bougouni stands of small mammals. Mastomys erythroleucus was the most dominant species (57.33%, 43/75) in the Faladjè settlement and R. rattus dominated (37.5%,18/48) that of Bougouni. These two species of small mammals are potentially involved in the transmission of bacteria, parasites and pathogenic viruses to humans.
REVIEW | doi:10.20944/preprints202302.0391.v1
Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: small ORF encoded polypeptides (SEPs); riboproteogenomics; bacterial pathogens; protein tagging; proteomics
Online: 23 February 2023 (01:25:52 CET)
The ever-growing repertoire of genomic techniques continues to expand our understanding of true diversity and richness of prokaryotic genomes. Riboproteogenomics laid the foundation for dynamic studies of previously overlooked genomic elements. Most strikingly, bacterial genomes were revealed to harbour robust repertoires of small open reading frames (sORFs) encoding a diverse and broadly expressed range of small proteins, or sORF-encoded polypeptides (SEPs). In recent years, continuous efforts led to great improvements in annotation and characterization of such proteins, yet many challenges remain to fully understand the pervasive nature of small proteins and their impact on bacterial biology. In this work we review recent developments in the dynamic field of bacterial genome reannotation, catalogue important biological roles carried out by small proteins and identify challenges obstructing the way to full understanding of these elusive proteins.
ARTICLE | doi:10.20944/preprints202212.0278.v1
Subject: Chemistry And Materials Science, Physical Chemistry Keywords: NMR; shift spectra; wavelet packet transform; automated small molecule mixture analysis
Online: 15 December 2022 (09:00:55 CET)
Resolving small molecule mixtures by nuclear magnetic resonance (NMR) spectroscopy has been of great interest for a long time for its precision, reproducibility and efficiency. However, spectral analyses for such mixtures are often highly challenging due to overlapping resonance lines and limited chemical shift windows. The existing experimental and theoretical methods to produce shift NMR spectra in dealing with the problem have limited applicability owing to sensitivity issues, inconsistency and / or requirement of prior knowledge. Recently, we have resolved the problem by decoupling multiplet structures in NMR spectra by the wavelet packet transform (WPT) technique. In this work, we developed a scheme for deploying the method in generating highly resolved WPT NMR spectra and predicting the composition of the corresponding molecular mixtures from their 1H NMR spectra in an automated fashion. The four-step spectral analysis scheme consists of calculating WPT spectrum, peak matching with a WPT shift NMR library, followed by two optimization steps in producing the predicted molecular composition of a mixture. The robustness of the method was tested on an augmented dataset of 1000 molecular mixtures, each containing 3 to 7 molecules. The method successfully predicted the constituent molecules with a median true positive rate of 1.0 against the varying compositions, while a median false positive rate of 0.04 was obtained. The approach can be scaled easily for much larger datasets.
REVIEW | doi:10.20944/preprints202211.0189.v1
Subject: Chemistry And Materials Science, Polymers And Plastics Keywords: plastics; energy; small-scale mechanical recycling; environment; extrusion; PET; PE; PP
Online: 10 November 2022 (04:11:23 CET)
Mechanical recycling of solid plastic wastes on a small-scale level can be accomplished with the correct approaches. Thermoplastics are mostly considered for mechanical recycling because of their physical properties and ease of reprocessing. This paper reviews the mechanical reprocessing techniques of selected thermoplastics (polyethylene terephthalate and polyolefins) since they constitute a significant proportion of plastics used commercially. Furthermore, necessary considerations for effective operation of small-scale plants, including energy requirements of machinery and optimisation in order to improve efficiency and product quality, are discussed. A clearer understanding and addressing of the process-related challenges will lead to successful establishment and management of small-scale mechanical recycling facilities to benefit communities. Efficient small-scale mechanical reprocessing establishments have become essential in reducing the environmental impacts of solid plastic wastes and for energy conservation.
ARTICLE | doi:10.20944/preprints202209.0056.v1
Subject: Chemistry And Materials Science, Polymers And Plastics Keywords: Injection moulding; Crystallisation; Flow; Small-angle X-ray Scattering; isotactic polypropylene
Online: 5 September 2022 (10:01:27 CEST)
We describe the design and fabrication of an industrial injection moulding system which can be mounted and used on the NCD-SWEET Small-angle X-Ray Scattering Beamline at ALBA. We show how highly useful time-resolved data can be obtained using this system. We are able to evaluate the fraction of material in the mould cavity and identify the first material to solidify and how this varies with the injection tem-perature. The design follows current industrial practice and provides opportunities to collect time-resolved data at several points within the mould cavity so we can build up a 4D perspective of the morphology and its temporal development. The quantitative data obtained will prove invaluable for the optimisation of the next generation of in-jection moulding techniques. This preliminary work used results from the injection moulding of a general purpose isotactic polypropylene.
ARTICLE | doi:10.20944/preprints202206.0360.v1
Subject: Business, Economics And Management, Business And Management Keywords: tourism and related; SMEs; small particulate matters; association rules; data mining
Online: 27 June 2022 (10:24:27 CEST)
In northern Thailand, the problem of small particulate matter happens every year, with the pri-mary source being agricultural weed burning and wildfire. The tourism industry is strongly impacted and has been the spotlight for the past few years. Thus, the study aims to investigate the effect of small particulate matter on tourism and related SMEs in Chiang Mai, Thailand. The data was collected from 286 entrepreneurs in the tourism and related SMEs sectors. The data was analyzed using data mining and association rule techniques. The study revealed that small particulate matter has a considerable impact on customer factors, especially the number of customers has decreased. Operational factors and prod-uct/service factors are also affected by the dust in the form of adjustments to keep the business running and the protection of the health of employees and customers. Certainly, financial factors are affected by the small particulate matter situation, both lower revenues and higher costs.
ARTICLE | doi:10.20944/preprints202202.0232.v1
Subject: Biology And Life Sciences, Insect Science Keywords: Small RNA sequencing; miRNAs; Target prediction; Chemosensory-associated genes; Apolygus lucorum
Online: 18 February 2022 (10:01:58 CET)
MicroRNAs (miRNAs) are a class of small non-coding RNAs, which function as regulators of gene expression and contribute in numerous physiological processes. However, little is known referring to miRNAs function in insect chemosensation. In the current study, nine small RNA libraries were constructed and sequenced from the antennae of nymphs, adult males and females of Apolygus lucorum. In total, 399 miRNAs were identified including 275 known and 124 novel miRNAs. Known miRNAs were classified into 71 families, amongst which, 23 families were insect-specific. Expression profile analysis showed that miR-7-5p_1 was the most abundant miRNAs in the antennae of A. lucorum. Altogether, 69708 target genes related to biogenesis, membrane and binding activities were predicted for 399 miRNAs. Particularly, 15 miRNAs were found to target 16 olfactory genes. These miRNAs could be involved in regulation of olfactory-associated genes ex-pression. Comparing the antennae of nymphs, adult males and females, 94 miRNAs were found to be differentially expressed. The expression levels of some differentially expressed miRNAs measured by qPCR were consistent with sequencing results. This study provides a global miRNAs transcriptome in the antennae of A. lucorum and valuable information for further investigation on miRNA-mRNA interactions, especially the functions of miRNAs in regulating chemosensation.
ARTICLE | doi:10.20944/preprints202106.0565.v1
Subject: Biology And Life Sciences, Virology Keywords: HIV-1 transcription; HIV-1 Tat; TAR RNA; small molecule inhibitors
Online: 23 June 2021 (11:04:21 CEST)
HIV-1 Tat protein interacts with TAR RNA and recruits CDK9/cyclin T1 and other host factors to induce HIV-1 transcription. Thus Tat-TAR RNA interaction, which is unique for HIV-1, represents an attractive target for anti-HIV-1 therapeutics. To target Tat-TAR RNA interaction, we used a crystal structure of TAR RNA with acetylpromazine bound to the bulge of TAR RNA, to dock compounds from Enamine database containing 1.6 million individual compounds. Docking identified 173 compounds that were analyzed for the inhibition of HIV-1 infection. Top ten inhibitory compounds with IC50 ≤ 6 µM were selected and the three least toxic compounds, T6780107 (IC50=2.97 μM), T0516-4834 (IC50=0.2 μM) and T5628834 (IC50=3.46 μM), were further tested for HIV-1 transcription inhibition. Only T0516-4834 compound showed selective inhibition of Tat-induced HIV-1 transcription, whereas T6780107 compound inhibited equally basal and Tat-induced transcription and T5628834 compound only inhibited basal HIV-1 transcription. The T0516-4834 compound also showed strongest inhibition of HIV-1 gag RNA expression and p24 production in CEM T cells infected with HIV-1 IIIB. Of the three compounds, only the T0516-4834 compound disrupted Tat-TAR RNA interaction indicating that it might target TAR RNA. Also, of the three tested compounds, T5628834 but not T6780107 or T0516-4834 disrupted Tat-CDK9/cyclin T1 interaction. Taken together, our study identified novel compound T0516-4834 that disrupted Tat-TAR RNA interaction and inhibited Tat-induced transcription and HIV-1 infection suggesting that this compound might serve as a new lead for anti-HIV-1 therapeutics.
ARTICLE | doi:10.20944/preprints202104.0087.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Myelodysplastic syndrome; Positron Emission Tomography; [18F]fluoro-thymidine; small animal imaging
Online: 5 April 2021 (10:14:33 CEST)
Higher-risk myelodysplastic syndrome (HR-MDS) has a poor prognosis in the absence of efficient therapy. The evaluation of new therapies in animal models of HR-MDS is hampered by the absence of accurate in vivo biomarkers of the disease. In this study we compared [18F]Fluoro-desoxyglucose Positron Emission Tomography (FDG-PET) and [18F]Fluoro-thymidine (FLT)-PET imaging for disease follow-up in a triple transgenic MMTVtTA/TetoBCL-2/MRP8NRASD12 mouse model of HR-MDS. Normal control FVB/N mice (G1,n=9) and HR-MDS mice (G2,n=12) underwent both FDG- and FLT-PET procedures at 2-day intervals, on a dedicated small animal device. Blood cell counting, BCL-2 and Mac-1hi/Gr-1lo expression measurements in blood were performed before each PET procedure. Visually, PET images of G2 mice demonstrated homogeneous FDG uptake in the whole skeleton similar to that observed in G1 mice, and abnormal FLT hot spots in bone marrow not observed in G1 mice. The intensity of FLT hot spots in bone marrow was higher in 3-months old G2 mice than in 2-months old G2 mice, concordant with a higher percentage of cells expressing Mac-1hi/Gr-1lo and lower platelets counts. We conclude that FLT-PET/CT imaging is a more valuable surrogate non-invasive quantitative marker of HR-MDS bone marrow involvement than FDG-PET/CT in our mouse model of HR-MDS.
COMMUNICATION | doi:10.20944/preprints202103.0698.v1
Subject: Social Sciences, Anthropology Keywords: Small gatherings cancellation; Cognitive linguistics; Corpus analysis; Semantic frame; Covid-19.
Online: 29 March 2021 (14:41:29 CEST)
In an insightful article published in Nature human behavior on November 2020, the effectiveness of 46 “non-pharmaceutical interventions” (NPI) regarding Covid-19 pandemic have been compared1. One of these 46 categories, the one which is ranked as the most effective measure, is named “small gatherings cancelation”. In the discussion section of that article, the authors introduce a list of what they probably assume to be representative examples of this category, namely, “closures of shops”, “closure of restaurants,” “mandatory home–working”, “gathering of 50 people or less” and so on. The name that the authors have given to this category could give rise to confusions and misunderstandings. We used corpus analysis to show that “small gathering” is commonly used to denote a planned or spontaneous “event”, and consequently does not convey what the authors intend this term to cover as its most representative instances i.e., Simultaneous presence of people (crowd) in shops or offices. Furthermore, taking a top-down approach, we focused on the information which was provided in reference material like CDC and WHO documents. The analysis showed that “small gatherings” is encoded in those sources to denote “events” and “small gatherings cancelation” is used to denote cancelling preplanned events. In conclusion, neither unspecialized language nor official/institutional discourse uses “small gathering” the way that the authors of the aforementioned article use it i.e., to refer to simultaneous presence of people (crowd) in shops or offices. Therefore, when language users come across this phrase, if they do not read the entire article, the only semantic frame that is evoked in their mind would be that of a festive or social “event” rather than of crowded shops or offices; this misunderstanding is cognitively justified and consequently changing this terminology is recommended.
ARTICLE | doi:10.20944/preprints202103.0520.v1
Subject: Engineering, Automotive Engineering Keywords: Intuitive learning; Dynamic response; Small-scale model; Image-recognition; Shaking table
Online: 22 March 2021 (11:21:47 CET)
In the last years, more and more studies highlight the advantages of complementing traditional master classes with additional activities that improve students´ learning experience. This combination of teaching techniques is specially advised in the field of structural engineering, where intuition of the structural response it is of vital importance to understand the studied concepts. This paper deals with the introduction of a new (and more encouraging) educational tool to introduce intuitively students in the dynamic response of structures excited with an educational shaking table. Most of the educational structural health monitoring systems use sensors to determine the dynamic response of the structure. The proposed tool is based on a radically different approach, as it is based on low-cost image-recognition techniques. In fact, it only requires the use an amateur camera, a black background and a computer. In this study, the effects of both the camera location and the image quality are also evaluated. Finally, to validate the applicability of the proposed methodology, the dynamic response of small-scale buildings with different typologies is analyzed. In addition, a series of surveys were conducted in order to evaluate the activity based on student´s satisfaction and the actual acquisition and strengthening of knowledge.
ARTICLE | doi:10.20944/preprints202101.0061.v1
Subject: Physical Sciences, Acoustics Keywords: limits; adaptation; small island developing states; impacts; sustainable development; policy-making
Online: 4 January 2021 (16:26:11 CET)
Small Island States (SIDS) are among the nations most exposed to climate change (CC) and are characterised by a high degree of vulnerability. Their special nature means there is a need for more studies focused on the limits to CC adaptation on such fragile nations, particularly in respect of their problems and constraints. This paper addressed a perceived need for research into the limitations of adaptation on SIDS, focusing on the many restrictions which are unique to them. The main research question raised by this study was that how and to what extent the challenges by human activities (e.g., agriculture and tourism) posed to coastlines of SIDS could be addressed. This paper identified and described the adaptation limits they have, by using a review of the literature and an analysis of case studies from a sample of five SIDS in the Caribbean and Pacific regions (Barbados, Trinidad and Tobago, Cook Islands, Fiji, Solomon Islands, and Tonga). The findings of this research showed that an adaptable SIDS is characterised by awareness of various values, appreciation and understanding of a diversity of impacts and vulnerabilities, and acceptance of certain losses through change. The implications of this paper are two-fold. It explains why island nations continue to suffer from the impacts of CC, and suggest some of the means via which adequate policies may support SIDS in their efforts to cope with the threats associated with a changing climate. This study concluded that, despite the technological and ecological limits (hard limits) affecting natural systems, adaptation to CC is not only limited by such complex forces, but also by societal factors (soft limits) that could potentially be overcome by more adequate adaptation strategies.
ARTICLE | doi:10.20944/preprints202011.0560.v1
Subject: Biology And Life Sciences, Anatomy And Physiology Keywords: HCMV; protein-protein interactions; small molecules; ppUL44; PAP; pUL54; antivirals; screening
Online: 23 November 2020 (08:29:23 CET)
Human cytomegalovirus (HCMV) is a leading cause of severe diseases in immunocompromised individuals, including AIDS and transplanted patients, and in congenitally infected newborns. The utility of available drugs is limited by poor bioavailability, toxicity, and emergence of resistant strains. Therefore, it is crucial to identify new targets of therapeutic intervention. Among the latter, viral protein-protein interactions are becoming increasingly attractive. Since dimerization of HCMV DNA polymerase processivity factor ppUL44 plays an essential role in the viral life cycle being required for oriLyt-dependent DNA replication, we performed an in silico screening and selected 18 small molecules (SMs) potentially interfering with ppUL44 homodimerization. Antiviral assays using recombinant HCMV TB40-UL83-YFP in the presence of the selected SMs led to the identification of four active compounds. The most active one, B3, also efficiently inhibited AD169 in plaque reduction assays and impaired replication of an AD169-GFP reporter virus and its ganciclovir-resistant counterpart to a similar extent. As assessed by Western blotting experiments, treatment of infected cells with B3 specifically reduced viral gene expression starting from 48 h post infection, consistent with activity on viral DNA synthesis. Therefore, inhibition of ppUL44 dimerization could represent a new class of HCMV inhibitors, complementary to those targeting the DNA polymerase catalytic subunit or the viral terminase complex.
REVIEW | doi:10.20944/preprints202007.0478.v2
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Bioinformatics; Drug Design; Small Organic Molecule; Target identification; Web-based Server
Online: 25 July 2020 (17:50:30 CEST)
Drug design is used for different applications of bioinformatics tools analyze DNA, genome, and sequence target region of a small organic molecule in order to understand the molecules of disease. Bioinformatics tools are identified a newly wide research field and minimize future risks through web servers and data mining. Clinical sample test performed with the bioinformatics tools as the biomedical detective. A particular structure and configuration of protein obliging in Drug design concluded Bioinformatics. This review bioinformatics tools and webserver will discuss functions of small organic molecules according to clinical pharmacology.
REVIEW | doi:10.20944/preprints202004.0236.v1
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: non-small cell lung cancer; locally advanced; COVID; SARS-CoV-2
Online: 15 April 2020 (09:50:21 CEST)
Importance: The COVID-19 pandemic is currently accelerating. Patients with locally advanced non-small cell lung cancer (LA-NSCLC) may require treatment in locations where resources are limited and the prevalence of infection is high. Patients with LA-NSCLC frequently present with comorbidities that increase the risk for severe morbidity and mortality from COVID-19. These risks may be further increased by treatments for LA-NSCLC. Observation: We present expert thoracic oncology multidisciplinary (radiation oncology, medical oncology, surgical oncology) consensus of alternative strategies for the treatment of LA-NSCLC during a pandemic. The overarching goals of these approaches are to reduce the number of visits to a healthcare facility, reduce the risk of SARS-CoV-2 exposure, and attenuate the immunocompromising effects of lung cancer therapies. Patients with resectable disease can be treated with definitive non-operative management if surgical resources are limited or the risks of perioperative care are high. Non-operative options include chemotherapy, chemoimmunotherapy, and radiation therapy with sequential schedules. The order of treatments may be based on patient factors and clinical resources. Whenever radiation therapy is delivered without concurrent chemotherapy, hypofractionated schedules are appropriate. For patients who are confirmed to have COVID-19, usually cancer therapies may be withheld until symptoms have resolved with negative viral test results. Conclusions and Relevance: The risk of severe treatment-related morbidity and mortality is significantly elevated for patients undergoing treatment for LA-NSCLC during the COVID-19 pandemic. Adapting alternative treatment strategies as quickly as possible may save lives and should be implemented through communication with the multidisciplinary cancer team.
ARTICLE | doi:10.20944/preprints201911.0277.v1
Subject: Social Sciences, Geography, Planning And Development Keywords: urban diversity; commercial landscape; small retail unit; mon-and-pop store
Online: 24 November 2019 (13:21:12 CET)
After globalization, South Korea’s retail landscape has been saturated with large-scale, corporate type retails. However, recently new commercial districts composed of small retail units are returning and bringing about a change. This study sought to take note of this phenomenon and identify its features and meanings from the perspective of urban ecology. A density-distribution analysis was conducted to investigate how they were forms, and an analysis of traces on the Internet and an analysis on the types of businesses were done to identify sociocultural characteristics. Results showed that they had similar type of locations and growth patterns, that they harmoniously congregated in a form of smaller-individual stores, and that their use of similar names for their stores had an impact of branding their entire districts. It was also noted that a shared culture through social networking services served as a growth boost for their unfavorable location. The spontaneous formation of such commercial districts can be an outcome of an urban ecological process geared toward blank niches burgeoning in the current retail structure of Korea. The causes and conditions found in the cases reveal meaningful policy implications for cities facing the same urban crisis diversity.
ARTICLE | doi:10.20944/preprints201907.0279.v1
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: beta adrenoblocker; anticancer; non-small cell lung cancer; clonogenic; apoptosis; necrosis
Online: 25 July 2019 (06:20:58 CEST)
Beta adrenoblockers is a large class of drugs mainly used to manage abnormal heart rhythms. Over the last couples of decades, the anticancer effects of these compounds has been extensively studied. There is much evidence about their activity in non-small cell lung, pancreatic, breast, colorectal, prostate and ovarian cancer. However, the mechanism of beta blockers anticancer activity is still not known, and more detailed studies are needed. The aim of our study was to evaluate the anticancer activity of beta adrenoblockers in non-small cell lung cancer cell lines A549 and H1299. In order to find the relationship with their selectivity to beta adrenoreceptors, in our study we used selective (atenolol, betaxolol, esmolol, metoprolol) and non-selective (pindolol, propranolol and timolol) beta blockers. The effect on cell viability was evaluated by MTT assay and the activity on cell ability to form colonies was tested by clonogenic assay. The type of cell death was evaluated by cell double staining with Hoechst 33342 and Propidium iodide. The most active adrenoblockers against both tested cancer cell lines were propranolol and betaxolol. They completely inhibited lung cancer cell colony formation at 90% of EC50 (half maximal effective concentration) value. Most tested compounds induced cell death through apoptosis and necrosis. In A549 cell lines apoptosis was mainly induced while in H1299 cell line compounds induced both apoptosis and necrosis. There was no correlation established between beta adrenoblocker anticancer activity and their selectivity to beta adrenoreceptors.
ARTICLE | doi:10.20944/preprints201812.0136.v1
Subject: Environmental And Earth Sciences, Remote Sensing Keywords: Land subsidence; InSAR; Small baseline interferometry; Mann-Kendall mutation test; Fishnet
Online: 11 December 2018 (16:49:47 CET)
Since the 1970s, land subsidence has been developing rapidly in the Beijing Plain, the systematic study of its evolution mechanism is of great significance to the sustainable development of the regional economy. First, based on ENVISAT ASAT and RADARSAT2 data, the land subsidence data in Beijing Plain were obtained using permanent interferometer technology. Second, based on the GIS platform and using fishing net tools, vector data of ground settlement with different resolutions were obtained. Through a series of tests, a scale of 960 metres was selected as the research unit, and the subsidence rate of the grid was obtained from 2004 to 2015. Finally, based on the Mann-Kendall mutation test method, a trend analysis of land subsidence changes in various grids was carried out. The results showed that single-year mutation mainly distributed in the middle and lower parts of the Yongding River alluvial fan and the Chaobai River alluvial fan, mainly occurring in 2015, 2005 and 2013, respectively. The upper and middle alluvial fan of the Chaobai River, the vicinity of the emergency water source and the edge velocity of the groundwater funnel have undergone several sudden changes. Combined with hydrogeology, basic geological conditions and the impact of the South-to-North Water transfer project, we analysed the causes of the mutations in the grid. The research results can provide a basis for the study and prevention of land subsidence in this area and help to further explore the trend characteristics of land subsidence in this area.
COMMUNICATION | doi:10.20944/preprints201805.0055.v1
Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: antioxidant system; cell wall integrity; chemosensitization; end point; fungi; small molecule
Online: 3 May 2018 (08:32:40 CEST)
Filamentous fungi such as Aspergillus spp. are opportunistic pathogens, which cause highly invasive infections, especially in immunocompromised individuals. Control of such fungal pathogens is increasingly problematic due to the small number of effective drugs available for treatment. Moreover, the increased incidence of fungal resistance to antifungal agents makes this problem a global human health issue. The cell wall integrity system of fungi is the target of antimycotic drugs echinocandins, such as caspofungin (CAS). However, echinocandins cannot completely inhibit the growth of filamentous fungal pathogens, which results in survival/escape of fungi during treatment. Chemosensitization was developed as an alternative intervention strategy, where co-application of CAS with the intervention catalyst octyl gallate (OG; chemosensitizer) greatly enhanced CAS efficacy, thus achieved ≥ 99.9% elimination of filamentous fungi in vitro. Based on hypersensitive responses of Aspergillus antioxidant mutants to OG, it is hypothesized that, besides destabilizing cell wall integrity, the redox-active characteristic of OG may further debilitate fungal antioxidant system.
ARTICLE | doi:10.20944/preprints201801.0284.v1
Subject: Environmental And Earth Sciences, Environmental Science Keywords: different sampling scales; spatial distribution; stony desertification characteristics; Karst; small watershed
Online: 30 January 2018 (13:19:46 CET)
In this paper, the spatial distribution of stony desertification characteristics and its influencing factors in Karst areas in different sampling scales are studied using a grid sampling method based on geographic information system (GIS) technology and geo-statistics, with the rock bareness rate obtained through sampling with 150m × 150m grids in the Houzhai River Basin being taken as the original data and five grid scales (300m × 300m, 450m × 450m, 600m × 600m, 750m × 750m, and 900m × 900m) as the subsample sets. The results show that the rock bareness rate does not vary much from one sampling scale to another while average values of the five sub-samples all fluctuate around the average value of the entire set. As the sampling scale is expanding, the maximum value and the average value of rock bareness rate are decreasing gradually, with a gradual increase in the coefficient of variability. In the scale of 150m × 150m, the areas of minor stony desertification, medium stony desertification, and major stony desertification in the Houzhai River Basin are 7.81 km2, 4.50 km2, and 1.87 km2, respectively. The spatial variability of stony desertification on small scales is influenced by many factors, and that on medium scales is jointly influenced by gradient, rock contents, and rock bareness rate. On large scales, the spatial variability of stony desertification is mainly influenced by soil thickness and rock bareness rate.
REVIEW | doi:10.20944/preprints201801.0232.v1
Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: small non-coding RNAs; gene regulation; archaea; stress response; regulatory networks
Online: 25 January 2018 (03:57:55 CET)
Small non-coding RNAs (sRNAs) are ubiquitously found in the three domains of life playing large-scale roles in gene regulation, transposable element silencing, and defense against foreign elements. While a substantial body of experimental work has been done to uncover function of sRNAs in Bacteria and Eukarya, the functional roles of sRNAs in Archaea are still poorly understood. Recently, high throughput studies using RNA-sequencing revealed that sRNAs are broadly expressed in the Archaea, comprising thousands of transcripts within the transcriptome during non-challenged and stressed conditions. Antisense sRNAs, which overlap a portion of a gene on the opposite strand (cis-acting), are the most abundantly expressed non-coding RNAs and they can be classified based on their binding patterns to mRNAs (3’ UTR, 5’ UTR, CDS-binding). These antisense sRNAs target many genes and pathways, suggesting extensive roles in gene regulation. Intergenic sRNAs are less abundantly expressed and their targets are difficult to find because of a lack of complete overlap between sRNAs and target mRNAs (trans-acting). While many sRNAs have been validated experimentally, a regulatory role has only been reported for very few of them. Further work is needed to elucidate sRNA-RNA binding mechanisms, the molecular determinants of sRNA-mediated regulation, whether protein components are involved, and how sRNAs integrate with complex regulatory networks.
ARTICLE | doi:10.20944/preprints201704.0072.v1
Subject: Engineering, Mechanical Engineering Keywords: ultra-low head turbines; cost correlations; Darrieus; Savonius; small hydro energy
Online: 13 April 2017 (06:06:08 CEST)
In small-scale hydropower scheme, the most important component is electro-mechanical equipment. Since cost contribution of this component is high because hydrokinetic projects require negligible civil works. Turbine and alternator contribute major fraction of the hydrokinetic projects. Thus, there is a requirement to estimates the electromechanical equipment cost for the hydrokinetic hydropower scheme. The present paper investigates design parameters of the hydrokinetic turbines and intends to develop cost correlation which depends on most critical parameters of hydropower sites such as velocity and power capacity. In this present work, three zero head turbines are considered including straight blade Darrieus, two Stage Savonius, and Gorlov Helical. The size and cost of major components have been calculated based on material, manufacturing, research and design, and assembly costs. Based on cost and site parameters, cost correlation has been developed. The obtained cost has been validated with available zero head turbines in the market and installed projects. A techno-economic analysis has been carried out to select economical hydrokinetic turbine for river and canal application.
ARTICLE | doi:10.20944/preprints201703.0076.v1
Subject: Biology And Life Sciences, Toxicology Keywords: mercury; exposure assessment; human health; artisanal and small-scale gold mining
Online: 14 March 2017 (08:40:59 CET)
Artisanal and small-scale gold mining (ASGM) has been an important source of income for communities in the Madre de Dios River Basin in Peru for hundreds of years. However, in recent decades, the scale of ASGM activities in the region has increased dramatically, and exposures to a variety of occupational and environmental hazards related to ASGM, including mercury, are becoming more widespread. The aims of our study were to: (1) examine patterns in the total hair mercury level of human participants in several communities in the region and compare these results to the 2.2 µg/g total hair mercury level equivalent to the World Health Organization (WHO) Expert Committee of Food Additives (JECFA)’s Provisional Tolerable Weekly Intake (PTWI); and (2), to measure the mercury levels of paco (Piaractus brachypomus) fish raised in local aquaculture ponds, in order to compare these levels to the EPA Fish Tissue Residue Criterion of 0.3 µg Hg/g fish (wet weight). We collected hair samples from 80 participants in four communities (one control and three where ASGM activities occurred) in the region, and collected 111 samples from fish raised in 24 local aquaculture farms. We then analyzed the samples for total mercury. Total mercury levels in hair were statistically significantly higher in the mining communities than in the control community, and increased with increasing distance away from the Madre de Dios headwaters (as the crow flies), did not differ by sex, and frequently exceeded the reference level. Regression analyses indicated that higher hair mercury levels were associated with residence in ASGM communities. The analysis of paco fish samples found no samples that exceeded the EPA tissue residue criterion. Collectively, these results align with other recent studies showing that ASGM activities are associated with elevated human mercury exposure. The fish farmed through the relatively new process of aquaculture in ASGM areas appeared to have little potential to contribute to human mercury exposure. More research is needed on human health risks associated with ASGM to discern occupational, residential, and nutritional exposure, especially through tracking temporal changes in mercury levels as fish ponds age, and assessing levels in different farmed fish species. Additionally, research is needed to definitively determine that elevated mercury levels in humans and fish result from the elemental mercury from mining, rather than from a different source, such as the mercury released from soil erosion during deforestation events from mining or other activities.
ARTICLE | doi:10.20944/preprints201702.0062.v1
Subject: Engineering, Mechanical Engineering Keywords: acoustic emission; crack initiation; small crack growth; structural integrity; bayesian estimation
Online: 16 February 2017 (09:43:59 CET)
One of the major concerns in structural health management (SHM) is the early detection of a growing crack. Using this, future damage due to crack propagation can be mitigated or eliminated by implementing proper repair and maintenance. Acoustic Emission (AE) is a non-destructive testing (NDT) method with potential applications for locating and monitoring fatigue cracks. The research presented in this paper focuses on SHM using AE. A novel AE signal analysis approach was proposed in order to detect crack initiation and assess small crack lengths. Experimental investigation indicated that initiation of a crack could be identified through the statistical analysis of the resulting features of the AE signals. A probabilistic AE-based model for small fatigue crack sizing was developed and the uncertainties of the model were estimated. In addition, a probabilistic model validation approach was implemented to confirm accurate estimation of the results. The outcome of this research can be used to evaluate the integrity of structures under fatigue loading. The proposed approach can also be applied as an approach to manage health and assess prognosis of structures.
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: Neuroendocrine Neoplasms; NOTCH; cancer driven genes; mutational mechanism; germline mutations.; small cell lung carcinoma; pancreatic NET; small bowel NET; medullary thyroid carcinoma; malignant castration-resistant prostatic cells
Online: 23 July 2019 (10:34:50 CEST)
Neuroendocrine neoplasms (NENs) comprise a heterogeneous group of rare malignancies mainly originated from hormones secreting cells, which are widespread in human tissues. The identification of mutations in ATRX/DAXX genes in sporadic NENs, as well as the high burden of mutations scattered throughout MEN-1 gene in both sporadic and inherited syndromes, provided new insights into the molecular biology of tumour development. Other molecular mechanisms, such as the NOTCH signaling pathway, have shown to play an important role in the pathogenesis of NENs. NOTCH receptors are expressed on neuroendocrine cells and generally, act as tumour suppressor proteins, but in some contexts can function as oncogenes. The biological heterogeneity of NENs suggests that to fully understand the roles and the potential therapeutic implications of gene mutations and NOTCH signaling in NENs, a comprehensive analysis of genetic alterations, NOTCH expression patterns and their potential roles across all NEN subtypes is required.
REVIEW | doi:10.20944/preprints202305.1507.v1
Subject: Medicine And Pharmacology, Medicine And Pharmacology Keywords: Radionuclide therapy; nuclear medicine; radiopharmaceutical; antibody; peptide; small molecule inhibitor; tumor; microenvironment
Online: 22 May 2023 (10:51:48 CEST)
Targeted radionuclide therapy is become increasingly prominent as a nuclear medicine subspe-cialty. For many decades, treatment with radionuclides has been mainly restricted to the use of iodine-131 in thyroid disorders. Currently, radiopharmaceuticals, consisting of a radionuclide coupled to a vector that binds to a desired biological target with high specificity, are being de-veloped. The objective is to be as selective as possible at the tumor level, while limiting the dose received at the healthy tissue level. In recent years, a better understanding of molecular mecha-nisms of cancer, as well as the appearance of innovative targeting agents (antibodies, peptides, small molecules) and the availability of new radioisotopes, have enabled considerable advances in the field of vectorized internal radiotherapy with a better therapeutic efficacy, radiation safety and personalized treatments. For instance, targeting the tumor microenvironment, instead of the cancer cells, now appears as particularly attractive. Several radiopharmaceuticals for therapeutic targeting have shown clinical value in severals types of tumors and have been or will soon be approved and authorized for clinical use.
ARTICLE | doi:10.20944/preprints202205.0406.v1
Subject: Engineering, Energy And Fuel Technology Keywords: nuclear energy; renewable energy; fossil energy; small modular reactors; resilience; hybrid energy
Online: 31 May 2022 (03:13:28 CEST)
Small modular reactors (SMR) (<300 MW) offer a potentially attractive nuclear energy option for the middle-east region (MER). Currently, the MER uses a significant amount of fossil fuel to process heat applications such as water desalination and in petroleum refineries and chemical plants, besides generating electricity. SMR technologies represent an opportunity to meet future energy demand in the MER. This paper discusses issues related to the future development and use of SMR technology in nuclear-renewable hybrid energy systems for application in the middle east. SMRs have also been examined as part of a resilient hybrid energy system that combines nuclear energy with renewable energy and traditional fossil energy to produce chemicals, fuels, and electricity. This paper presents the results of a techno-economic analysis of a Nuclear-Renewable-Conventional Hybrid Energy System. The paper concludes that SMR technology will be an essential feature of future hybrid energy systems for the MER.
ARTICLE | doi:10.20944/preprints202202.0127.v1
Subject: Chemistry And Materials Science, Physical Chemistry Keywords: chaotropic effect; hydrophobic effect; polyoxometalates; polymeric surfactants; small angle scattering; salt effects
Online: 9 February 2022 (08:47:29 CET)
Low charge density nanometric ions were recently shown to bind strongly to neutral hydrated matter in aqueous solution. This phenomenon, called (super-)chaotropic effect, arises from the partial dehydration of both, the nano-ion and the solute, leading to a high gain in enthalpy. Here, we investigate the chaotropic effect of the polyoxometalate α-PW12O403- on the triblock copolymer P84: (EO)19(PO)43(EO)19 with (EO)19 the polyethoxylated and (PO)43 the polypropoxylated chains. The combination of phase diagrams, spectroscopic (nuclear magnetic resonance) and scattering (small angle neutron/X-ray scattering) techniques reveals that (i) below the micellization temperature of P84, PW12O403- exclusively binds to the propylene oxide moiety of P84 unimers and (ii) above the micellization temperature, PW12O403- mostly adsorbs on the ethylene oxide micellar corona. The preferential binding of the PW12O403- to the PPO chain over the PEO chains suggests that the binding is driven by the chaotropic effect and reinforced by the hydrophobic effect. At higher temperatures, the copolymer micellization leads to the displacement of PW12O403- from the PPO chain to the PEO chains. This study deepens the understanding of the subtle interplay between the chaotropic and hydrophobic effects in complex salt-organic matter solutions.
REVIEW | doi:10.20944/preprints202112.0482.v1
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: non-small-cell lung cancer; immune checkpoint inhibitor; Bayesian meta-analysis; Review
Online: 30 December 2021 (12:13:58 CET)
We performed Bayesian network meta-analysis (NMA) to suggest frontline treatments for patients with high PD-L1 expression (at least 50%). A total of 5,237 patients from 22 studies were included in this NMA. In terms of progression-free survival, immune checkpoint inhibitors (ICIs) plus bevacizumab plus chemotherapy had the highest surface under the cumulative ranking curve (SUCRA) value (98.1%), followed by ICI plus chemotherapy (82.9%). In terms of overall survival (OS), dual immunotherapy plus chemotherapy had the highest SUCRA value (79.1%), followed by ICI plus bevacizumab plus chemotherapy (73.4%). However, there was no significant difference of survival outcomes among treatment regimens combined with immunotherapy. Moreover, ICI plus chemotherapy failed to reveal a significant OS superiority to ICI monotherapy (hazard ratio = 0.978, 95% credible internal: 0.771-1.259). In conclusion, this NMA indicates that ICI plus chemotherapy with/without bevacizumab might to be the best options in terms of OS for NSCLC with high PD-L1 expression. Considering there was no significant difference of survival outcomes among treatment regimens incorporating immunotherapy and ICI plus chemotherapy failed to show significant survival benefits over ICI monotherapy, however, ICI monotherapy may be reasonable as first-line treatment for advanced NSCLC with high PD-L1 expression and no targetable aberrations.
ARTICLE | doi:10.20944/preprints202103.0682.v1
Subject: Environmental And Earth Sciences, Environmental Science Keywords: semi-arid hydrology, small-scale storage, checkdams, tanks, farm bunds, Cauvery, GWAVA
Online: 29 March 2021 (11:22:07 CEST)
Recently, there has been renewed interest in the performance, functionality, and sustainability of traditional small-scale storage interventions (check dams, farm bunds and tanks) used across India for the improvement of local water security. The Central Groundwater Board of India is en-couraging the construction of such interventions for the alleviation of water scarcity. It is of critical importance to understand the hydrological effect of these interventions at basin scales to maximise their effectiveness. The quantification of small-scale interventions in hydrological modelling is often neglected, especially in large-scale modelling exercises. A bespoke version of the GWAVA model was developed to assess the impact of interventions on the water balance of the Cauvery Basin and two smaller sub-catchments. Model results demonstrate that farm bunds appear to have a negligible effect on the estimated average annual simulated streamflow at the outlets of the two sub-catchments and the basin whereas tanks and check dams have a more significant effect. In-terventions generally were found to increase evaporation losses across the catchment. The model adaption used in this study provides a step-change in the conceptualisation and quantification of the consequences of small-scale storage interventions in large- or basin-scale hydrological models.
ARTICLE | doi:10.20944/preprints202004.0111.v1
Subject: Environmental And Earth Sciences, Environmental Science Keywords: water quality retrieval; illegal discharges identify; small waterbodies; Sentinel-2; machine learning
Online: 8 April 2020 (03:51:33 CEST)
Water quality retrieval for small urban waterbodies by remote sensing get used to be difficult due to coarse spatial resolution of the remote sensing imagery. The recently launched Sentinel-2 produces imagery with a spatial resolution of 10 m. It provides an opportunity to solve the problem of retrieving water quality for small waterbodies. Additionally, many water management issues also require fine resolution of imagery, e.g. illegal discharge to an urban waterbody. Since illegal discharges are an important issue for urban water management, chemical oxygen demand (COD), total phosphorous (TP), and total nitrogen (TN) were chosen as the target parameters for water quality retrieval in this study. COD, TP and TN, however, are non-optically active parameters. There were limited studies in the past to retrieve these parameters in comparison with optically active parameters, e.g. Chlorophyll-A etc. This study compared three machine learning models, namely Random Forest (RF), Support Vector Regression (SVR), and Neural Networks (NN), to investigate the opportunity to retrieve the above non-optically active parameters. Results showed that R2 of TP, TN, and COD by NN, RF and SVR were 0.94, 0.88, and 0.86, respectively. The performances of water quality retrieval for these non-optically active parameters were significantly improved by the optimized machine learning models. These models hence solved the problem to use remote sensing data to retrieve these non-optically active water quality parameters and provided a new monitoring strategy for small waterbodies. Water quality mapping obtained by Sentinel-2 imagery provided a full spatial coverage of the water quality characterization for the entire water surface. Compared with water samples collecting and testing, it greatly reduced labor cost, reagents cost, and waste treatment cost. It also may help identify illegal discharges to urban waterbodies. The method developed in this research provides a new practical and efficient water quality monitoring strategy in managing water with consideration of environmental sustainability.
ARTICLE | doi:10.20944/preprints201809.0094.v1
Subject: Business, Economics And Management, Marketing Keywords: Small-scale bean farmers, marketing arrangements, formal and informal marketing, intensification models
Online: 5 September 2018 (11:30:25 CEST)
This case study assessed marketing arrangements used by small scale farmers in the Lake Basin and Lower Eastern bean corridors of Kenya to determine which markets work for rural producers and what changes are needed to produce and supply sufficient quantities for trade. Using exploratory research, data was collected through focus group discussions with six farmer groups representing a total of 1255 bean farmers and key informant interviews with extension staff. The results indicated that 94% of the farmers produced beans before identifying buyers with only 6% participating in group marketing. Though spot-market transactions with brokers and traders provided ready cash for the farmers, formal buyers were perceived to be more reliable but difficult to find and, operated stringent requirements which were a barrier to entry. A theory of change to integrate smallholders into formal markets to sustainably produce and supply sufficient volumes for trade should entail a transformation agenda at four levels of the value chain: intensification of production through pure stand models with greater use of certified high yielding varieties; stable price guarantees; a market-driven research and extension service and; an enabling political, policy and business environment in the bean value chain. Further research is needed to pilot these changes in a case control study.
ARTICLE | doi:10.20944/preprints201807.0449.v1
Subject: Environmental And Earth Sciences, Environmental Science Keywords: groundwater; sustainability assessment; small islands; Caribbean islands; sustainability assessment indicators; water management
Online: 24 July 2018 (08:12:19 CEST)
Groundwater is an important resource for many countries and its scarcity is a major concern in small territories, especially in the islands where the constant extraction is creating a high risk of public calamity. This issue has been increasing because of the anthropogenic activities and the climate change and it has called the attention of scientists and stakeholders in order to assess the sustainability of the water management system, and therefore, to establish strategies for a more sustainable water use. San Andres island was taking as case study and a description of the water balance was carried out in order to understand the management system. Then, a water system sustainability assessment was performed with indicators such as water security, water quality, drinking water, sanitation, infrastructure, climate robustness, biodiversity, attractiveness, and governance, according to the City Blueprint Methodology. The result for the 24 evaluated indicators was a score of 3.2, whose interpretation is “an unsustainable water management”. The qualitative assessment was the base to propose water security, water quality, and governance strategies to improve the water management in the island. The assessment and its discussions are relevant for the water management in small islands across the world whose economy is based on the tourism and whose water security is at a high risk.
ARTICLE | doi:10.20944/preprints201804.0242.v1
Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Non-small cell lung cancer; Lambertianic acid; Apoptosis; TRAIL; XIAP; NF-B
Online: 18 April 2018 (15:25:10 CEST)
Lambertianic acid (LA) is a biologically active compound from the leaves of Pinus koraiensis. In the present study, apoptotic mechanisms of LA plus TNF-related apoptosis-inducing ligand (TRAIL) were elucidated in non-small cell lung cancer cells (NSCLCs). Cytotoxicity assay, flow cytometry, immunoprecipitation and Western blotting were performed. Here, combined treatment of LA and TRAIL increased cytotoxicity, sub-G1 population and cleaved poly (ADP-ribose) polymerase (PARP) and caspase3/8/9 in A549 and H1299 cells compared to LA or TRAIL alone. Furthermore, combined treatment of LA and TRAIL significantly decreased anti-apoptotic proteins such as B-cell lymphoma 2 (Bcl-2), Fas-like inhibitor protein (FLIP) and X-linked inhibitor of apoptosis protein (XIAP) and enhanced the activation of pro-apoptotic proteins Bid compared to LA or TRAIL alone. In addition, combined treatment of LA and TRAIL upregulated the expression of Death receptor 4 (DR4) and downregulated phosphorylation of nuclear factor kappa-light-chain-enhancer of activated B cells (p-NF-B), inhibitory protein of kB family (p-IB) and FLIP in A549 and H1299 cells along with disrupted binding of XIAP with caspase3 or NF-B. Overall, these findings suggest that lambertianic acid enhances TRAIL-induced apoptosis via inhibition of XIAP/NF-B in TRAIL resistant NSCLCs.
TECHNICAL NOTE | doi:10.20944/preprints201711.0122.v1
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: computer aided diagnosis; topological relations; TNM system; non-small Cells; lung cancer
Online: 20 November 2017 (07:57:32 CET)
Computers and artificial intelligence affect every field of life nowadays. In medical image interpretation automatic decision making using algorithms are used increasingly in every sub-field and computer aided diagnosis (CAD) is one of the main tools available to medical science today. CAD systems are used as an augmented option for both the medical practitioner and the patients, with image analysis and interpretation being of primary importance. In particular, spatial relations are used in knowledge representation, and these relations can be used for effective medical image interpretation. In this paper, we put forth an algorithm for defining non-small cells lungs cancer (NSCLC) stages in lungs images interpretation using topological spatial relations. We show an application case study in event motion predictions for lung cancer staging scoring - tumor, nodes and metastasis (TNM) - with combined topological and directional relations.
ARTICLE | doi:10.20944/preprints201710.0157.v1
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: docosahexaenoic acid; apoptosis; SIRT6; Hedgehog signaling; non-small cell lung cancer cells
Online: 24 October 2017 (05:43:16 CEST)
Omega-3 polyunsaturated fatty acids (ω3-PUFAs), including docosahexaenoic acid (DHA), have been shown to exert anticancer effects by inducing apoptotic cell death. However, the mechanism for DHA-induced cell death in lung cancer is not fully understood. Here, we show that DHA induces apoptosis in two human EGFR mutant non-small cell lung cancer (NSCLC) cell lines, and that DHA-induced cell death is accompanied by SIRT6 activation and attenuated Hedgehog (Hh) signaling. Knockdown of SIRT6 using siRNAs inhibited DHA-induced apoptosis, whereas SIRT6 overexpression increased apoptotic cell death. DHA-induced SIRT6 activation was associated with downregulation of Hh signaling, and knockdown of SIRT6 resulted in augmentation of Hh signaling. Pretreatment of NSCLC cells with a Smoothened agonist prevented DHA-induced decreases in the levels of Hh signaling proteins and increases in cleaved PARP levels. Moreover, endogenous production of ω3-PUFAs in PC9 cells via fat-1 expression resulted in elevated SIRT6 levels and reduced levels of Hh signaling molecules, including Gli, following DHA treatment. Overall, these results implicate that ω3-PUFAs induce apoptosis by downregulating Hh signaling via SIRT6 activation in human EGFR mutant NSCLC cells. These findings suggest that ω3-PUFAs potentially represent an effective therapy for the chemoprevention and treatment of NSCLC.
ARTICLE | doi:10.20944/preprints201607.0068.v1
Subject: Business, Economics And Management, Economics Keywords: Fishermen; Lake Ziway; Small scale irrigation users; Socioeconomic benefit; Wetland ecosystem service
Online: 22 July 2016 (16:02:46 CEST)
ABSTRACT This study focused for socio-economic benefit of Western shoreline of Lake Ziway ecosystem. The data collected from two woredas they are Adami Tulu Jidu Kombolch (ATJK) and Dugda woreda of fishermen and small scale irrigation users. Lake Ziway great importance food and water for both groups of respondents and additionally sources of raw material, energy, cultivation, organic fertilizers, genetic and medicinal plants. Lake Ziway also has a major economic benefit for both groups of respondents. The sampled fishermen cached mean amount of 2,524Kg per year with minimum and maximum amount of fish 504Kg and 16,800Kg per year respectively and with this fish catching they got average income of 51,398 Birr ($2,570) per year with range of 7,200 Birr ($360) and 288,000 Birr ($14,400) per year. As like of fishermen small scale irrigation also got economic benefit with their production of cereal crops, fruits and vegetables. They produce in average 13.47Quintal of cereal crop and 69.56Quintal of fruits and vegetables per year and they got average income of 7,727 Birr ($386) and with range of 13,714 Birr ($686) per year respectively. this incurred that wetland ecosystem has a lot of socio-economic benefit for the people live near by specially for developing countries like Ethiopia they are more dependent on natural ecosystem like of Lake Ziway. Because of its high importance, we have to protect and conserve and use sustainably of Lake Ziway and similar wetland ecosystems. Key Words: Wetland ecosystem service; Lake Ziway; Socioeconomic benefit; Fishermen; Small scale irrigation users
ARTICLE | doi:10.20944/preprints202305.1075.v1
Subject: Computer Science And Mathematics, Computer Vision And Graphics Keywords: Dim and small target detection; background prediction; image inpainting; Region Proposal Network (RPN)
Online: 16 May 2023 (03:59:23 CEST)
Infrared dim and small target detection is a key technology of various detection tasks. However, due to the lack of shape, texture, and other information, it is a challenging task to detect dim and small targets. Recently, since many traditional algorithms ingore global information of infrared images, they generate some false alarms in complicated environments. To address this problem, in this paper, a coarse-to-fine deep learning-based method is proposed to detect dim and small targets. Firstly, a coarse-to-fine detection framework integrating deep learning and background prediction is applied for detecting targets. The framework contains of coarse detection module and fine detection module. In coarse detection stage, Region Proposal Network (RPN) is employed to generate masks in target candidate regions. Then, for further optimize the result, inpainting is utilized to predict the background by the global semnantic of images. In this paper, inpainting algorithm with a mask aware dynamic filtering module is incorporated into the fine detection stage to estimate background in candidate target areas. Finally, compared with existing algorithms, the experimental results indicate that the proposed framework have effective detection capability and robustness for complex surroundings.
ARTICLE | doi:10.20944/preprints202304.0683.v1
Subject: Social Sciences, Other Keywords: Agricultural Censuses; Common Agriculture Policy; Direct Payments; Farming Systems; Logit; Portugal; Small Farmers
Online: 21 April 2023 (08:16:05 CEST)
One of the stated goals of the Common Agricultural Policy reforms has been to provide a fairer distribution of payments across and within Member States, but little progress has been accomplished, with about 20% of farmers receiving 80% of the total amount of Direct Payments. The structural factors that underlie this inequity, notably the preponderance of specific types of farming systems, are investigated in this research. A logit model was developed using Agricultural Census data at the Commune level, using the evolution of the percentage of farmers receiving Direct Payments in Portugal as the dependent variable. The findings reveal that the local importance of arable crops (cereals) and cattle farming systems, as well as the existence of larger farms and younger farmers, all contributed to farmers' increasing access to DP between 2009 and 2019. In traditional Mediterranean farming systems, however, access to DP has been restricted to a smaller proportion of farmers. However, there appears to have been some redistribution in the previous two CAP programming cycles, from bigger to smaller farmers, older to younger farmers, and from olives, cereals, and cattle to other types of production, notably vineyards.
ARTICLE | doi:10.20944/preprints202303.0461.v1
Subject: Biology And Life Sciences, Virology Keywords: Staphylococcus aureus; Small Colony Variants; Carnosine; RAW 264.7 murine macrophages; Host-Pathogen Interaction
Online: 27 March 2023 (12:16:26 CEST)
Phagosomal escape and intracellular survival, often accompanied by Small Colony Variants (SCVs) formation, are typical features of infections caused by S. aureus. The survival in macro-phages favours S. aureus dissemination and complicates treatment. RAW 264.7 murine macro-phages infected with S. aureus USA300 and treated with erythromycin and 20mM carnosine, alone and in combination, were used as experimental model. SCVs were isolated from all treat-ment conditions, but only those undergoing the pressure of combined erythromycin and carnosine for 48 hours were stable for at least six passages on blood agar. Nucleic acid extraction was car-ried out for S. aureus USA300 wild-type and stable SCVs. Whole Genome Sequencing (WGS) was performed using Illumina DNA Prep and Illumina MiSeq, and quantitative reverse transcription PCR was performed. WGS analysis did not yield mutations pointing to differences between S. au-reus USA300 and stable SCVs, therefore the focus was shifted to evaluating gene expression vari-ations. Genes such as zur, mntR, uhpt, fur, sdrE were shown to be significantly up-regulated in SCVs compared to S. aureus USA300 wild-type, suggesting a global change that allows adapta-tion to intracellular persistence, including protection from inflammatory response and evasion of the immune system.
ARTICLE | doi:10.20944/preprints202211.0513.v1
Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: breast cancer; small tumors; DNA methylation; CCDC181; ZNF177; fibroadenoma; biomarker; MS-HRM; pyrosequencing
Online: 28 November 2022 (10:51:17 CET)
The DNA methylation profile of breast cancer differs from that in healthy tissue and can be used as a diagnostic and prognostic biomarker. Aim of the study: to compare gene methylation in small malignant breast tumors less than 2 cm and in healthy tissue and fibroadenoma. Methylation of the following 15 genes was studied: MAST1, PRDM14, ZNF177, DNM2, SSH1, AP2M1, CACNA1E, CPEB4, DLGAP2, CCDC181, GCM2, ITPRIPL1, POM121L2, KCNQ1, TIMP3. Methods: analysis was made by our modified MS-HRM method followed confirmation of the results by pyrosequencing. The genes were selected from publications that studied DNA methylation in breast cancer with high genome coverage. The study group included 48 samples of breast cancer, the control group included 24 samples of fibroadenoma and 24 samples of healthy tissue. Results: significant differences were found in methylation of 8 genes: CCDC181, GSM2, ITPRIPL1, ZNF177, CACNA1E, DLGAP2, TIMP3 (all р<0.001), and PRDM14 (р=0.002). The most accurate diagnostic value, based on logistic regression, was shown with the compound of two genes – CCDC181 and ZNF177 (AUC=0.99) in pyrosequencing analysis. Conclusion: small breast cancer tumors have a specific DNA methylation profile that distinguishes them from healthy tissue and benign proliferative lesions.
ARTICLE | doi:10.20944/preprints202211.0257.v1
Subject: Social Sciences, Geography, Planning And Development Keywords: climate change adaptation; adaptation plan; small municipality; France, United States; climate services; information
Online: 14 November 2022 (11:10:35 CET)
There is a growing consensus that to effectively adapt to climate change, cities need user-friendly tools and reliable high-resolution biophysical and socio-economic data for analysis, mapping, modeling, and visualization. This study examines availability of various types of information used in climate adaptation plans of 40 municipalities with population less than 300,000 people in the United and in France, probing into the choice and usage of relevant information by small municipalities. We argue that non-climatic spatial data, such as population demographic and socio-economic patterns, urban infrastructure, and environmental data must be integrated with climate tools and datasets to inform effective vulnerability assessment and equitable climate adaptation planning goals. Climate adaptation plans frequently fail to address the existing structural inequalities and environmental injustices in urban infrastructure and land use. Adaptation methodological approaches should be reassessed in the context of much needed societal transformation. Lessons learned from our studies offer valuable insights for potential development of the national and state-level climate adaptation information services for cities.
REVIEW | doi:10.20944/preprints202108.0426.v1
Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: Polyhydroxyalkanoates; mcl-PHA; scl-PHA; Post-transcriptional regulation; Riboregulation; Small non-coding RNAs
Online: 23 August 2021 (10:43:23 CEST)
The large production of non-degradable petrol-based plastics has become a major global issue due to its environmental pollution. Biopolymers produced by microorganisms such as polyhydroxyalkanoates (PHAs) are gaining potential as a sustainable alternative, but the high cost associated to their industrial production has been a limiting factor. Post-transcriptional regulation is a key step to control gene expression in changing environments and has been reported to play a major role in numerous cellular processes. However, limited reports are available concerning the regulation of PHA accumulation in bacteria, and many essential regulatory factors still need to be identified. Here, we review studies where the synthesis of PHA has been reported to be regulated at the post-transcriptional level, and we analyze the RNA-mediated networks involved. Finally, we discuss the forthcoming research on riboregulation, synthetic and metabolic engineering which could lead to improved strategies for PHAs synthesis in industrial production, thereby reducing the costs currently associated with this procedure.
ARTICLE | doi:10.20944/preprints202101.0448.v1
Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: non-small-cell lung cancer; next-generation sequencing; bronchoscopy; Oncomine Dx target test
Online: 22 January 2021 (13:14:02 CET)
A sufficient amount of tissue sample is required to perform next-generation sequencing (NGS) with a high success rate, but the majority of patients with advanced non-small-cell lung cancer (NSCLC) are diagnosed with small biopsy specimens. Biopsy samples were collected from 184 patients with bronchoscopically diagnosed NSCLC. The tissue surface area, tumor cell count, and tumor content rate of each biopsy sample were evaluated. The impact of the cut-off criteria for the tissue surface area (≥ 1 mm2) and tumor content rate (≥ 30%) on the success rate of Oncomine Dx Target Test (ODxTT) was evaluated. The mean tissue surface area of the transbronchial biopsies was 1.23 ± 0.85 mm2 when small endobronchial ultrasonography with a guide sheath (EBUS-GS) was used, 2.16 ± 1.49 mm2 with large EBUS-GS, and 1.81 ± 0.75 mm2 with endobronchial biopsy (EBB). The proportion of samples with a tissue surface area of ≥ 1 mm2 was 48.8% for small EBUS-GS, 79.2% for large EBUS-GS, and 78.6% for EBB. Sixty-nine patients underwent ODxTT. The success rate of DNA sequencing was 84.1% and that of RNA sequencing was 92.7% over all patients. The success rate of DNA (RNA) sequencing was 57.1% (71.4%) for small EBUS-GS (n = 14), 93.4% (96.9%) for large EBUS-GS (n = 32), 62.5% (100%) for EBB (n = 8), and 100% (100%) for endobronchial ultrasound-guided transbronchial needle aspiration (EBUS-TBNA) (n = 15). Regardless of the device used, a tissue surface area of ≥ 1 mm2 is adequate for samples to be tested with NGS.
Subject: Chemistry And Materials Science, Analytical Chemistry Keywords: hyperoxaluria; oxalate; inhibitor; small molecule drug; glycolate oxidase; lactate dehydrogenase; liver selective distribution
Online: 31 December 2020 (08:59:47 CET)
Primary hyperoxalurias (PHs) are a group of inherited alterations of the hepatic glyoxylate metabolism. PHs classification based on gene mutations parallel a variety of enzymatic defects, and all involve the harmful accumulation of calcium oxalate crystals that produce systemic damage. These geographically widespread rare diseases have a deep impact in the life quality of the patients. Until recently, treatments were limited to palliative measures and kidney/liver transplants in the most severe forms. Efforts made to develop pharmacological treatments succeeded with the biotechnological agent lumasiran, a siRNA product against glycolate oxidase, which has become the first effective therapy to treat PH1. However, small molecule drugs have classically been preferred since they benefit from experience and have better pharmacological properties. The development of small molecule inhibitors designed against key enzymes of glyoxylate metabolism is on the focus of research. Enzyme inhibitors are successful and widely used in several diseases and their pharmacokinetic advantages are well known. In PHs, effective enzymatic targets have been determined and characterized for drug design and interesting inhibitory activities have been achieved both in vitro and in vivo. This review describes the most recent advances towards the development of small molecule enzyme inhibitors in the treatment of PHs, introducing the multi-target approach as a more effective and safe therapeutic option.