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Preprint CASE REPORT | doi:10.20944/preprints202312.0328.v1

The Effect of Pathogenic Tumor Suppressor Gene Variants on COVID-19: A Report of Three Cases with Varied Severity and Outcomes

Rostislav K. Skitchenko, Yury A. Barbitoff, Mikhail A. Fedyakov, Anna Yu. Anisenkova, Sergei V. Mosenko, Svetlana V. Apalko, Andrey S. Glotov, Oleg S. Glotov, Sergey G. Shcherbak

Subject: Biology And Life Sciences, Other Keywords: COVID-19; SARS-CoV-2; oncology; genetic variants; NGS; severity; genetic associations; exome

Online: 6 December 2023 (08:52:54 CET)

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Preprint ARTICLE | doi:10.20944/preprints202212.0099.v1

Genetic Parameters of Growth Traits and Quantitative Genetic Metrics for Selection and Conservation of Mecheri Sheep of Tamil Nadu

B. Balasundaram, A.K. Thiruvenkadan, N. Murali, J. Muralidharan, D. Cauveri, Sunday O. Peters

Subject: Biology And Life Sciences, Animal Science, Veterinary Science And Zoology Keywords: Genetic parameters, (Co)variance components, Mecheri sheep, Animal models, Maternal genetic influence, Inbreeding

Online: 6 December 2022 (10:03:11 CET)

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Preprint ARTICLE | doi:10.20944/preprints202107.0509.v1

Genetic Variation of Native Perilla Germplasms Collected from South Korea Using SSR Markers and Morphological Characteristics

Jun Seok Oh, Kyu Jin Sa, Hyeon Park, Do Yoon Hyun, Sookyeong Lee, Ju-Hee Rhee, Ju Kyong Lee

Subject: Biology And Life Sciences, Anatomy And Physiology Keywords: Perilla crop; genetic resources; morphological traits; principal component analysis; SSR marker; genetic variation

Online: 22 July 2021 (08:04:28 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202401.1730.v1

Genetic Diversity of Human Norovirus in Children Less Than 5 Years of Age With Acute Gastroenteritis in Rural Communities in the Gambia

Sheriffo Jagne, M. Jahangir Hossain, Martin Antoni, Abdul Karim Sesay, Muhammed Khalie Abdul, Nuredin I. Mohammed, Madikay Senghore, Alansana Darboe, Jarra Manneh, Abdoulie Kanteh, Dam Khan, Saikou Y Bah, Ndaw Sylvanus Peter, Osbourne Quaye, George Enyimah Armah

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: Norovirus genetic diversity genogroups genotypes

Online: 24 January 2024 (10:15:24 CET)

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Preprint REVIEW | doi:10.20944/preprints202308.0706.v2

Dr Jekyll and Mr Hyde: From Two Branches of Immune Response to Three Types of Interferon Response

Brent Brown, Chinua Imarogbe, Ingo Fricke, Pascal Mensah

Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: Interferon; Innate; Adaptive; Genetic; Molecular

Online: 26 September 2023 (11:35:53 CEST)

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Interferons were the original prototype cytokine system discovered in 20th-century research. As the name implies, they were originally thought to be synthesised and secreted between cells. Thanks to technological advances, the processes involved in protein secretion can be explained comparatively more clearly at both the genetic and biochemical levels. The discovery of interferon (IFN) occurred when genetic research was still in its infancy. Franklin and Wilkins discovered the structure and function of deoxyribonucleic acid (DNA) at the same time as Crick and Watson; however, Isaacs and Lindemann, two scientists, described the first IFN in 1957. Mutations can be caused by inherent genetic protein synthesis and during infection as well as within IFN regulation pathways affecting cell proliferation. This remains central to host cell IFN synthesis and effects through IFN protein receptor subunits defined by 6 protein domains. Type II IFN is key to immune cell function secreted by a variety of immune cells, mainly natural killer (NK) as well as T cells. Single–stranded and/or double–stranded RNA/DNA viruses, as well as bacterial infections (e.g., Escherichia coli) and fungal infections (e.g., Aspergillus), also affect IFN regulation. Pathogenic proteins utilise intra/extracellular proteins that sense foreign antigens like Toll–like Receptors (TLRs), affected by mutations within the human cellular IFN transduction pathways. Since the discovery of the third IFN type in 2003, when immune cell phenotypes were further characterised, questions remain about the immunological mechanisms contributing to the regulation of the innate and adaptive host immune system. Alterations in the synthesis of type I/II/III host IFNs can differentially and beneficially alter homeostatic cellular pathways in pathological disease, with type I IFN being synthesised in cancer as well as by homeostatic cells. Therefore, considered here are the overall IFN molecular, cell regulatory mechanisms in the context of immune cell research developments.

Preprint CASE REPORT | doi:10.20944/preprints202306.0239.v1

Optimal Evaluation of Left Ventricular Hypertrophic Phenotype Using Parametric CMR Mapping and Genetic Testing

Andrés Felipe Barragán-Amado, Jaime A Parra, María C Manzur, Julian A Gelves-Meza, Claudia P Jaimes, María F Tamayo, Héctor M Medina, María Juliana Rodríguez-González

Subject: Medicine And Pharmacology, Cardiac And Cardiovascular Systems Keywords: Cardiomyopathy; Genetic disorders; Cardiovascular Imagen

Online: 5 June 2023 (05:02:25 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202304.0114.v1

Genetic Determinants of Atherogenic Indexes

Tomas Texis, Susana Rivera-Mancia, Eloisa Colin-Ramirez, Raul Cartas-Rosado, David Koepsell, Kenneth Rubio-Carrasco, Mauricio Rodriguez-Dorantes, Vanessa Gonzalez-Covarrubias

Subject: Medicine And Pharmacology, Cardiac And Cardiovascular Systems Keywords: Dyslipidemia; atherogenic indexes; genetic associations

Online: 7 April 2023 (05:24:09 CEST)

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Preprint REVIEW | doi:10.20944/preprints202206.0284.v1

Building Consensus around the Assessment and Interpretation of Symbiodiniaceae Diversity

Sarah Davies, Matthew H. Gamache, Lauren I. Howe-Kerr, Nicola G. Kriefall, Andrew C. Baker, Anastazia T. Banaszak, Line K. Bay, Anthony J. Bellantuono, Debashish Bhattacharya, Cheong Xin Chan, Danielle C. Claar, Mary Alice Coffroth, Ross Cunning, Simon K. Davy, Javier del Campo, Erika M. Diaz-Almeyda, Jorg C. Frommlet, Lauren E. Fuess, Raul A. Gonzalez-Pech, Tamar L. Goulet, Kenneth D. Hoadley, Emily J. Howells, Benjamin C. C. Hume, Dustin W. Kemp, Carly, D. Kenkel, Sheila A. Kitchen, Todd C. LaJeunesse, Senjie Lin, Shelby McIlroy, Ryan McMinds, Matthew R. Nitschke, Clinton A. Oakley, Raquel S. Peixoto, Carlos Prada, Hollie M. Putnam, Kate Quigley, Hannah G. Reich, James Davis Reimer, Mauricio Rodriguez-Lanetty, Stephanie Rosalas, Osama S. Saad, Eugenia M. Sampayo, Scott Santos, Eiichi Shoguchi, Edward G. Smith, Michael Stat, Timothy G. Stephens, Marie E. Strader, David J. Suggett, Timothy D. Swain, Cawa Tran, Nikki Traylor-Knowles, Christian R. Voolstra, Mark E. Warner, Virginia M. Weis, Rachel Wright, Tingting Xiang, Hiroshi Yamashita, Maren Ziegler, Adrienne M.S. Correa, John Everett Parkinson

Subject: Biology And Life Sciences, Anatomy And Physiology Keywords: Symbiodinaceae; genetic diversity; coral symbiosis

Online: 21 June 2022 (04:49:04 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202305.1960.v1

Directional Breeding Generates Distinct Genetic Diversity in Hybrid Turf Bermudagrass as Probed with SSR Markers

Desalegn D. Serba, Tilin Fang, Yanqi Wu

Subject: Biology And Life Sciences, Plant Sciences Keywords: C. dactylon; C. transvaalensis; interspecific hybrids; cluster analysis; genetic similarity; genetic diversity; directional breeding

Online: 29 May 2023 (08:55:06 CEST)

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Preprint REVIEW | doi:10.20944/preprints201912.0021.v1

Protein 0^th-Order Structure: The Key for Creating Entirely New Gene/Protein

Kenji Ikehara

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: protein 0th-order structure; origin of gene; origin of protein; origin of genetic code; GNC primeval genetic code hypothesis; SNS primitive genetic code hypothesis

Online: 3 December 2019 (11:10:12 CET)

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Preprint ARTICLE | doi:10.20944/preprints202310.0169.v1

The Supersymmetry Genetic Code Table and Quadruplet Symmetries of DNA Molecule Are the Unchangeable and Synchronized with the Codon Free Energy Mapping during Evolution

Marija Rosandic, Vladimir Paar

Subject: Biology And Life Sciences, Other Keywords: genetic code symmetry, mitochondrial genetic code, energy code, DNA quadruplet symmetry, classification of trinucleotides/codons

Online: 4 October 2023 (07:43:22 CEST)

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The Supersymmetry Genetic code (SSyGC) table is based on five physicochemical symmetries: 1) double mirror symmetry on the principle of the horizontal and vertical mirror symmetry axis between all bases (purines [A, G) and pyrimidines (U, C)], and 2) of bases in form of codons 3) direct – complement like codon/anticodon symmetry in the sixteen alternating boxes of the genetic code columns, 4) A+T rich and C+G rich alternate codons in the same row between both columns of the genetic code, 5) the same position between divided and undivided codon boxes in relation to horizontal mirror symmetry axes. The SSyGC table has a unique physicochemical purine – pyrimidine symmetry net which is as the core symmetry common for all, more than thirty different nuclear and mitochondrial genetic codes. This net is present in the SSyGC table of all RNA and DNA living species. None of these symmetries is present in the Standard Genetic Code (SGC) table which is constructed on the alphabetic horizontal and vertical U-C-A-G order of bases. Here we show that the free energy value of each codon incorporated as fundamentally mapping the “energy code” in the SSyGC table is compatible with mirror symmetry. On the other hand, in the SGC table the same free energy values of codons are dispersed and a mirror symmetry between them is not recognizable. At the same time the mirror symmetry of the SSyGC table and the DNA quadruplets together with our classification of codons/trinucleotides are perfectly imbedded in the mirror symmetry energy mapping of codons/trinucleotides and point out in favor of maintaining the integrity of the genetic code and DNA genome. We also argue that physicochemical symmetries of the SSyGC table in the manner of the purine – pyrimidine symmetry net, the quadruplet symmetry of DNA molecule and the free energy of codons have remined unchanged during all of evolution. The unchangeable and universal symmetry properties of the genetic code, DNA molecule and energy code are decreasing disorder between codons/trinucleotides and shed a new light on evolution. Diversity in all living species on Earth is broad, but the symmetries of the Supersymmetry Genetic Code as the code of life and the DNA quadruplets related to the” energy code” are unique, unchangeable and have the power of natural laws.

Preprint ARTICLE | doi:10.20944/preprints202212.0234.v1

History of Advances in Genetic Engineering of Viruses Prior to COVID-19 Pandemic

Mikhail Teppone

Subject: Biology And Life Sciences, Virology Keywords: reassortant virus; recombinant virus; chimeric virus; genetic engineering; reverse genetic; SARS-CoV-2; COVID-19

Online: 13 December 2022 (08:47:51 CET)

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Preprint ARTICLE | doi:10.20944/preprints202404.0870.v1

Selection of Improved Banana Diploid Resistant to Fusarium oxysporum f. sp. cubense Races 1 and Subtropical 4

Welly Sacramento Santana, Anelita de Jesus Rocha, Wesley Barreto da Silva, Vanusia B. Oliveira Amorim, Andresa Priscila de Souza Ramos, Fernando Haddad, Edson Perito Amorim

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Musa spp; genetic resistance; Fusarium wilt

Online: 15 April 2024 (04:25:42 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202310.0274.v1

Constructing the Bounds for Neural Network Training Using Grammatical Evolution

Ioannis G. Tsoulos, Alexandros Tzallas, Evangelos Karvounis

Subject: Computer Science And Mathematics, Artificial Intelligence And Machine Learning Keywords: Neural networks; Genetic algorithms; Grammatical Evolution

Online: 5 October 2023 (10:59:20 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202305.1482.v1

Comparative Proteomic Analysis of Toxoplasma gondii RH Wild-Type and Four SRS29B (SAG1) Knock-Out Clones Reveals Significant Differences between Individual Strains

Kai Pascal Alexander Hänggeli, Andrew Hemphill, Norbert Müller, Manfred Heller, Uldry Anne-Christine, Sophie Braga-Lagache, Joachim Müller, Ghalia Boubaker

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: genetic manipulation; pleiotropic effects; systems biology

Online: 22 May 2023 (09:03:52 CEST)

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In T. gondii, as well as in other model organisms, gene knock-out using CRISPR-Cas9 is a suitable tool to identify the role of specific genes. The general consensus implies that only the gene of interest is affected by the knock-out. Is this really the case? In a previous study, we have generated knock-out (KO) clones of TgRH88_077450 (SRS29B; SAG1) which differed in the numbers of integrated dihydrofolate-reductase-thymidylate-synthase (MDHFR-TS) drug-selectable marker. Clones 18 and 33 had a single insertion of MDHFR-TS within SRS29B. Clone 6 was disrupted by the insertion of a short unrelated DNA-sequence, but the marker was integrated elsewhere. In clone 30, the marker was inserted into SRS29B and several other MDHFR-TS copies were found in the genome. KO and wild-type (WT) tachyzoites had similar shape, dimensions and vitality. This prompted us to investigate the impact of the genetic engineering as such on the overall proteome patterns of the four clones as compared to the respective WT. Comparative shotgun proteomics of the five strains was performed. Overall, 3236 proteins were identified. Principal component analysis of the proteomes revealed five distinct clusters corresponding to the five strains by both iTop3 and iLFQ algorithms. Detailed analysis of the differentially expressed proteins revealed that the target of the KO, srs29B, was lacking in all KO clones. Besides this protein, twenty other proteins were differentially expressed between KO clones and WT or between different KO clones. The protein exhibiting the highest variation between the five strains was srs36D encoded by TgRH_016110. The deregulated expression of SRS36D was further validated by quantitative PCR. Moreover, the transcript levels of three other selected SRS genes, namely SRS36B, SRS46, and SRS57 exhibited significant differences between individual strains. These results indicate that knocking out a given gene may affect the expression of other genes. Therefore, care must be taken when specific phenotypes are regarded as a direct consequence of the KO of a given gene.

Preprint ARTICLE | doi:10.20944/preprints202201.0414.v1

Genotypic and Epidemiologic Profiles of Giardia duodenalis in Four Brazilian Biogeographic Regions

Deiviane Calegar, Beatriz Nunes, Kerla Monteiro, Polyanna Bacelar, Brenda Evangelista, Mayron Moraes, Jurecir Silva, Jéssica Santos, Márcio Bóia, Lauren Jaeger, Filipe Anibal Carvalho-Costa

Subject: Medicine And Pharmacology, Tropical Medicine Keywords: Giardia duodenalis; Assemblages; Epidemiology; Genetic diversity

Online: 27 January 2022 (11:18:33 CET)

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Preprint ARTICLE | doi:10.20944/preprints202111.0533.v1

Unlocking the Complete Chloroplast Genome of a Native Tree Species from the Amazon Basin, Capirona (Calycophyllum spruceanum Benth., Rubiaceae), and Its Comparative Analysis with Other Ixoroideae Species

Carla L. Saldaña, Pedro Rodriguez-Grados, Julio C. Chávez-Galarza, Shefferson Feijoo, Juan Carlos Guerrero Abad, Héctor V. Vásquez, Jorge L. Maicelo, Jorge H. Jhoncon, Carlos I. Arbizu

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: chloroplast; genetic resources; genomics capirona; phylogenomics

Online: 29 November 2021 (12:32:24 CET)

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Preprint ARTICLE | doi:10.20944/preprints202103.0692.v1

Use of Genetic Algorithms to Optimize Efficiency in Small-Scale Structures

Aaron Chew

Subject: Engineering, Civil Engineering Keywords: Genetic algorithms, structures, algorithms, generative design

Online: 29 March 2021 (12:50:16 CEST)

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Working Paper ARTICLE

Evaluation of the Gene Flow From East to West among Various Populations of Rajasthan, India

R.K. Kumawat, Pankaj Shrivastava, Shivani Dixit, Divya Shrivastava, G.K. Mathur, Gyaneshwer Chaubey

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Genetic affinity; STR; Rajasthan; Heterozygosity; Polymorphic

Online: 21 June 2020 (14:12:03 CEST)

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Working Paper REVIEW

Physicochemical Foundations of Life that Direct Evolution. Why Chance and Natural Selection cannot Explain Evolution

Didier Auboeuf

Subject: Biology And Life Sciences, Biophysics Keywords: evolution; genetic code; RNA; protein; physicochemistry

Online: 28 November 2019 (09:38:55 CET)

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Preprint ARTICLE | doi:10.20944/preprints201911.0349.v1

Genetic Diversity of Bemisia tabaci (Gennadius) (Hemiptera:Aleyrodidae) Colonizing Sweet Potato and Cassava in South Sudan

Beatrice Clarence Misaka, Everlyne N. Wosula, Philip W. Marchelo-d'Ragga, Trine Hvoslef-Eide, James Peter Legg

Subject: Biology And Life Sciences, Forestry Keywords: Bemisia tabaci; genetic diversity; distribution; haplotype

Online: 28 November 2019 (03:24:39 CET)

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Preprint ARTICLE | doi:10.20944/preprints201806.0201.v1

The Critical Needs and Challenges for Genetic Architecture Studies in Africa

Alicia R. Martin, Solomon Teferra, Marlo Möller, Eileen G. Hoal, Mark J. Daly

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: genetic architecture; Africa; GWAS; health disparities

Online: 13 June 2018 (11:17:04 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202308.1951.v1

Groups of Symmetries of the Two Classes of Synthetases in the Four-Dimensional Hypercubes of the Extended Code Type II

Marco V. José, Eberto R. Morgado, Juan R. Bobadilla

Subject: Biology And Life Sciences, Life Sciences Keywords: Aminoacyl-tRNA synthetases; Standard Genetic Code; Symmetry groups; Origin and evolution of the genetic code; Group Theory

Online: 29 August 2023 (08:34:06 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202402.1144.v1

Linking Wetland Ecosystem Services to Fish Genetic Resources with Special Reference to Hilsa Shad (Tenualosa ilisha): A Novel Study from Northeastern Bangladesh

Atiqur Rahman Sunny, Md. Arifur Rahman, Md. Nazmul Hasan, Jeba Faizah Rahman, Sharif Ahmed Sazzad, Md. Faruque Miah, Md. Ashrafuzzaman, Shamsul Haque Prodhan

Subject: Biology And Life Sciences, Aquatic Science Keywords: Wetland; Ecosystem services; Genetic diversity; Hilsa; Bangladesh

Online: 20 February 2024 (12:44:47 CET)

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Preprint CASE REPORT | doi:10.20944/preprints202312.1693.v2

Creutzfeldt -Jakob Disease Associated with E200K Mutation and SARS-Cov2 Infection, Pure Coincidence or Neurodegenerative Acceleration?

Elisa Colaizzo, Luca Prosperini, Antonio Petrucci, Alessia Perna

Subject: Medicine And Pharmacology, Neuroscience And Neurology Keywords: genetic CJD; mutation E200K; COVID-19; prion

Online: 27 December 2023 (05:21:05 CET)

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Preprint ARTICLE | doi:10.20944/preprints202310.0827.v1

AI-Based Procedure for the Assessment of Voice Characteristics in Genetic Syndromes

Federico Calà, Lorenzo Frassineti, Elisabetta Sforza, Roberta Onesimo, Lucia D’Alatri, Claudia Manfredi, Antonio Lanata, Giuseppe Zampino

Subject: Engineering, Bioengineering Keywords: Genetic syndrome; Acoustical analysis; Artificial Intelligence; Classification

Online: 12 October 2023 (12:03:32 CEST)

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Preprint INTERESTING IMAGES | doi:10.20944/preprints202309.1918.v1

Isoniazid-Resistant Tuberculosis—A Series of Clinical Cases

Teodora Butnaru, Florin Dumitru Mihaltan, Ancuta Alina Constantin

Subject: Medicine And Pharmacology, Pulmonary And Respiratory Medicine Keywords: multidrug-resistant tuberculosis; genetic mutations; clinical cases.

Online: 28 September 2023 (08:02:58 CEST)

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Preprint CASE REPORT | doi:10.20944/preprints202309.1060.v1

Rare and Complex Cardiac Anomalies Associated with 22q11.2 Deletion: An Ultrasonographic Visual Trip from Diagnosis until Delivery

Radu Vlădăreanu, Călina Maier, Raluca Tocariu, Marcela Șerban, Elvira Brătilă

Subject: Medicine And Pharmacology, Obstetrics And Gynaecology Keywords: interrupted aortic arch; 22q11.2DS; ultrasound; genetic tests

Online: 18 September 2023 (05:41:23 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202307.0697.v1

Selection of Short-Day Strawberry Genotypes through Multivariate Analysis

Thiago Rutz, Juliano Tadeu Vilela de Resende, Keny Henrique Mariguele, Ricardo Antônio Zeist, Andre Luiz Biscaia Ribeiro da Silva

Subject: Biology And Life Sciences, Horticulture Keywords: Fragaria × ananassa; genetic parameters; selection index; clusterin

Online: 11 July 2023 (08:40:08 CEST)

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Strawberry is produced in tropical regions using imported cultivars adapted to temperate and subtropical climates. These cultivars, under tropical conditions, produce below their genetic potential. Through multivariate analyses, the objective was to evaluate and select short-day strawberry genotypes based on intraspecific crosses, product characteristics, and fruit quality. The genotypes were obtained from the cross between 'Camino Real' (female parent) and the first-generation genotypes RVCA16, RVCS44, RVFS06, RVFS07, and RVDA11 (male parent), obtained in previous selections. The experimental design consisted of augmented blocks with standard controls, consisting of first-generation genotypes and commercial cultivars. The fruits were harvested and evaluated for productivity and post-harvest characteristics: Total Fruit Mass (MTF); Total Number of Fruits (TFN); Average Fruit Mass (AFM); Commercial Fruit Mass (CFM); Fruit Commercial Number (CFN); Average Commercial Mass of Fruits (ACFM); Total Soluble Solids (TSS); Firmness (F); Brightness (L); Hue Angle (°Hue); Chroma (C). The selection index of Mulamba and Mock (1978) was used with an intensity of 3% to obtain superior genotypes and submitted to multivariate analysis for comparative purposes. Of the 1500 genotypes evaluated, it was possible to select 44 genotypes with characteristics superior to the 13 controls. The RVDA11CR59 genotype showed better values for the attributes of interest, but the RVCS44CR population, from the cross between 'Camino Real' × RVCS44 ('Camarosa' × 'Sweet Charlie'), obtained the highest number (16) of individuals among those selected. Significant traits had high heritability but were not necessarily reflected in high selection gain. Coefficients of genetic variation were high, indicating sufficient genetic variability to select genotypes for these traits. When multivariate analyses were used, it was possible to group the selected genotypes into the same cluster according to the similarity and balance in the responses to the evaluated variables, demonstrating that these analyses help other parameters choose superior genotypes. The multivariate analysis allowed the selection of more balanced genotypes for production and post-harvest traits for tropical climates.

Preprint ARTICLE | doi:10.20944/preprints202306.0020.v1

Genetic Drift and Alphapapillomavirus Evolution

Robert D. Burk, Lisa Mirabello, Robert DeSalle

Subject: Medicine And Pharmacology, Epidemiology And Infectious Diseases Keywords: molecular evolution; genetic drift; human papillomavirus (HPV)

Online: 1 June 2023 (03:52:59 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202305.1634.v1

Genotypic and Sanitary Characterization of Minority Grapevine Varieties Prospected in Andalusia, Spain

Inmaculada Rodríguez-Torres, Ana Martín Carrillo, María del Pilar Ramírez, Francisco Jesus Gómez Gálvez, Leonardo Velasco Arjona, Carlos Padilla, Enrico Cretazzo

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: genetic resources; molecular markers; local cultivar; certification

Online: 23 May 2023 (09:55:00 CEST)

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Preprint REVIEW | doi:10.20944/preprints202305.1454.v1

Relevance of Genetic Identification and Kinship Analysis in Human and Natural Catastrophes – A Review

Alejandra Real-Picado, Luis Diaz, Cláudia Gomes

Subject: Medicine And Pharmacology, Other Keywords: Catastrophes; Genetic identification; Kinship analysis; DNA degradation

Online: 22 May 2023 (03:01:25 CEST)

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Preprint COMMUNICATION | doi:10.20944/preprints202305.0087.v1

Recent Population Dynamics of Japanese Encephalitis Virus

Jinpeng Xu, Abdul Wahaab, Sawar Khan, Mohsin Nawaz, Muhammad Naveed Anwar, Ke Liu, Jianchao Wei, Muddassar Hameed, Zhiyong Ma

Subject: Biology And Life Sciences, Virology Keywords: Japanese encephalitis virus; Population dynamic; Genetic diversity

Online: 2 May 2023 (11:02:54 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202302.0505.v1

Tomato Defence Suppression is a Common Trait in Tetranychus urticae Collected from Field-Grown Tomatoes

Jéssica Teodoro-Paulo, Carlos Fernandes, Lin Dong, Sara Magalhães, Alison B. Duncan, Juan M. Alba, Merijn R. Kant

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: phylogeny; salivary effectors; effector 84; genetic diversity

Online: 28 February 2023 (04:44:34 CET)

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Preprint REVIEW | doi:10.20944/preprints202302.0305.v1

National and Ethnic Mutation Frequency Databases: Cross Comparison and Future Direction

Shumaila Khan, Mehmood Alam, Shahnaz Khan, Wahab Khan, Ihsan Rabbi, Iqbal Qasim

Subject: Computer Science And Mathematics, Information Systems Keywords: genetic databases; mutation disorders; ethnic specific databases

Online: 17 February 2023 (07:59:08 CET)

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Preprint REVIEW | doi:10.20944/preprints202301.0197.v1

Potential Genetic Biomarkers of Suicide Risk in the Mexican Population: A Systematic Literature Review

Juan Angel Garcia-Quiñones, Celia Nohemi Sanchez-Dominguez, María Fernanda Serna-Rodríguez, Ivan Alberto Marino-Martinez, Ana María Rivas-Estilla, Antonio Alí Pérez-Maya

Subject: Social Sciences, Behavior Sciences Keywords: Biomarkers; Genetic; Suicidal behavior; Suicide; Mexican; Genomic.

Online: 11 January 2023 (10:34:57 CET)

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Preprint ARTICLE | doi:10.20944/preprints202103.0400.v1

The rs599839 A>G Variant Disentangles Cardiovascular Risk and Hepatocellular Carcinoma in NAFLD Patients

Marica Meroni, Miriam Longo, Erika Paolini, Anna Alisi, Luca Miele, Emilia Rita De Caro, Giuseppina Pisano, Marco Maggioni, Giorgio Soardo, Luca Vittorio Valenti, Anna Ludovica Fracanzani, Paola Dongiovanni

Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: Lipid metabolism; NAFLD; genetic variants; PSRC1; HCC

Online: 15 March 2021 (16:30:15 CET)

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Working Paper CONCEPT PAPER

The Physics–Biology Continuum Refutes Darwinism: Evolution is Directed by the Homeostasis-Dependent Bidirectional Relation between Genome and Phenotype

Didier Auboeuf

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: evolution; darwinism; genetic code; RNA; homoestasis; physics

Online: 6 January 2021 (15:06:41 CET)

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Preprint ARTICLE | doi:10.20944/preprints202012.0003.v2

Non-Homologous end Joining Factors XLF, PAXX and DNA-PKcs Maintain the Neural Stem and Progenitor Cell Population

Raquel Gago-Fuentes, Valentyn Oksenych

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: DNA repair; NHEJ; synthetic lethality; genetic interaction

Online: 15 December 2020 (10:41:58 CET)

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Preprint ARTICLE | doi:10.20944/preprints202009.0653.v1

DetR DB: A Database of Ionizing Radiation Resistance Determinants

Alina Ryabova, Olga Kozlova, Azat Kadirov, Oleg Gusev, Elena Shagimardanova

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: ionizing radiation; radiation resistance; genetic mechanisms; microorganisms

Online: 26 September 2020 (17:24:56 CEST)

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Working Paper HYPOTHESIS

Human Genetic Diversity Possibly Determines Human's Compliance to COVID-19

Yiqiang Zhao, Yunchun Gu, Yongji Liu, Sa Li, Yuzhan Wang, Lina Bu, Qi Liu, Hongyi Lv, Fang Wan, Lida Wu, Zemin Ning

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: COVID-19; severe symptoms; inactivation; genetic diversity

Online: 16 April 2020 (09:15:49 CEST)

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Working Paper ARTICLE

Assessment of Genetic Diversity of Dioscorea praehensilis (Berth.) Collected from Central Region, Ghana Using Simple Sequence Repeat (SSR) Markers

Adeyinka S. Adewumi, Kingsley J. Taah, Paul A. Asare, Michael O. Adu, Paterne A. Agre

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: genetic diversity; Dioscorea praehensilis; SSR markers; Ghana

Online: 8 March 2020 (14:55:19 CET)

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Preprint COMMUNICATION | doi:10.20944/preprints201912.0176.v1

A Framework for Maximising the Capture of Genetic Diversity in Sampling for ex situ Conservation

Linda Neaves

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: conservation; genetic diversity; decision-making; ex situ

Online: 12 December 2019 (12:43:13 CET)

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Preprint ARTICLE | doi:10.20944/preprints201811.0046.v1

Stimulation of Replication Template-Switching by DNA-Protein Crosslinks

Laura T. Laranjo, Julie A. Klaric, Susan T. Lovett

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: DNA replication, DNA repair, genetic recombination, mutagenesis

Online: 2 November 2018 (10:19:18 CET)

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Preprint REVIEW | doi:10.20944/preprints201807.0089.v1

The Importance of a Multidisciplinary Approach in the Management of a Patient with Type I Gaucher Disease

Miguel-Ángel Torralba-Cabeza, Susana Olivera-González, José-Luis Sierra-Monzón

Subject: Medicine And Pharmacology, Pathology And Pathobiology Keywords: multidisciplinary; Gaucher; genotype/phenotype correlation; genetic counselling

Online: 5 July 2018 (08:51:35 CEST)

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Preprint ARTICLE | doi:10.20944/preprints201806.0329.v1

Ethical, Legal and Social Implications of Susceptibility Genetic Testing for Late-Onset Neurodegenerative Diseases

Amaranta Manrique de Lara, Elisa Núñez-Acosta, Garbiñe Saruwatari-Zavala, Liliana Soto-Gómez, Miguel E. Rentería

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Alzheimer’s disease; Parkinson’s disease; Genetic testing; bioethics

Online: 21 June 2018 (04:38:35 CEST)

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Preprint REVIEW | doi:10.20944/preprints201806.0191.v1

Recent Developments in Using Drosophila as a Model for Human Genetic Disease

Christine Oriel, Paul Lasko

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: rare disease; functional genomics; genetic variant validation

Online: 12 June 2018 (12:36:08 CEST)

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Preprint ARTICLE | doi:10.20944/preprints201803.0215.v1

Estimation of Genetic Parameters and Prediction of Genotypic Values in Common Beans Using Mixed Models

Jessica Delfini, Vania Moda Cirino, Claudete de Fátima Ruas, Paulo Mauricio Ruas, José dos Santos Neto, Leandro Simões Azeredo Gonçalves

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Phaseolus vulgaris L.; REML/BLUP; genetic diversity

Online: 26 March 2018 (10:35:00 CEST)

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Preprint ARTICLE | doi:10.20944/preprints201707.0005.v1

Improved Forms for Controlling the Acrobot with Motors of Atypical Size Using Artificial Intelligence Techniques

Gonzalo Mier, Javier de Lope

Subject: Engineering, Control And Systems Engineering Keywords: Acrobot; Artificial Intelligence; SARSA; PWM; Genetic Algorithm

Online: 4 July 2017 (16:12:37 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202311.0248.v1

Skin Cancer Detection Using Machine Learning Classification Models

PRIYA NATHA, RAJARAJESWARI POTHURAJU

Subject: Computer Science And Mathematics, Artificial Intelligence And Machine Learning Keywords: Skin cancer; Contourlet Transform (CT); Particle Swarm Optimization (PSO); Support Vector Machine (SVM); Random Forest (RF); Neural Network (NN)

Online: 6 November 2023 (01:19:45 CET)

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Preprint ARTICLE | doi:10.20944/preprints202007.0233.v1

Study on Optimal Control Strategy for Cooling, Heating and Power (CCHP) System

Kuihua Wu, Jian Wu, Liang Feng, Bo Yang, Rong Liang, Shenquan Yang, Ren Zhao, Hao Wang

Subject: Engineering, Energy And Fuel Technology Keywords: cooling; heating and power (CCHP) microgrid; kernel learning machine (KELM); particle swarm optimization (PSO); shuffled frog leaping algorithm (SFLA)

Online: 11 July 2020 (09:00:22 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202404.0026.v1

Molecular Prevalence, Genetic Diversity, and Tissue Tropism of Bartonella Species in Small Mammals from Yunnan Province, China

Pei-Yu Han, Fen-Hui Xu, Jia-Wei Tian, Jun-Ying Zhao, Ze Yang, Wei Kong, Bo Wang, Li-Jun Guo, Yun-Zhi Zhang

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: Bartonella; small mammals; genetic diversity; evolution; tissue tropism

Online: 1 April 2024 (17:07:19 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.0568.v1

Risk Factor Analysis and Genetic Parameter Estimation for Pre-weaning Mortality Traits in Boer, Spanish, and Crossbred Goat Kids

Liuhong Chen, William Foxworth, Scott Horner, Mustafa Hitit, Negusse Kidane, Erdogan Memili

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: pre-weaning mortality; risk factors; goat; genetic parameter

Online: 11 March 2024 (17:44:10 CET)

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Preprint ARTICLE | doi:10.20944/preprints202402.1055.v1

Identification and Transformation of a New Powdery Mildew Resistance Gene PmCAHM From Landrace Changanhongmai Into Common Wheat

Xueyan Chen, Yongfu Wang, Guohao Han, Jianzhong Fa, Qingqing Tan, Guoxia Liu, Hong Zhang, Yajuan Wang

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: common wheat; powdery mildew; molecular marker; genetic population

Online: 20 February 2024 (04:32:10 CET)

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Preprint ARTICLE | doi:10.20944/preprints202401.1137.v2

Monitoring Method of VOCs Based on PID in Soil-water-gas Environment

Dong Dong, Yongjun Ren, Mengmeng Zhang, Xiujuan Feng, Kaiwei Liu

Subject: Environmental And Earth Sciences, Environmental Science Keywords: Photoionization detector; VOCs; Principal Component Analysis; Genetic Algorithm

Online: 17 January 2024 (09:25:24 CET)

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Preprint BRIEF REPORT | doi:10.20944/preprints202312.2074.v1

Reconsideration of codon-anticodon wobble pairings in translation: decoding tables

Miki Wada

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: decoding; tRNA; wobble pairing; genetic code; inosine; translation

Online: 27 December 2023 (09:50:04 CET)

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Preprint ARTICLE | doi:10.20944/preprints202311.1015.v1

DDoS classification to SDN using Grammatical Evolution

Evangelos Spyrou, Ioannis Tsoulos, Chrysostomos Stylios

Subject: Computer Science And Mathematics, Computational Mathematics Keywords: SDN; DDoS; genetic algorithm; Grammatical Evolution; packet classification

Online: 16 November 2023 (03:03:51 CET)

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Preprint REVIEW | doi:10.20944/preprints202310.0243.v1

Lupinus mutabilis Breeding in the Andes of Ecuador, Peru, and Bolivia: A Review

Diego Rodriguez-Ortega, José Luis Zambrano, Santiago Pereira-Lorenzo, Andres Torres, Angel Murillo

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Lupinus mutabilis; genetic diversity; breeding; anthracnose resistance; alkaloids

Online: 5 October 2023 (02:38:00 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202308.0463.v1

Investigations of 13 Genes in Non-Cicatricial Alopecia

Monica Păun, Gustavo Torres, George Sorin Țiplica, Victor Mihail Cauni

Subject: Medicine And Pharmacology, Dermatology Keywords: alopecia areata; androgenetic alopecia; genetic test; DNA analysis

Online: 7 August 2023 (10:13:57 CEST)

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Preprint BRIEF REPORT | doi:10.20944/preprints202306.2051.v1

Genetic Structure and Biodiversity in Wild Centropomus Parallelus and in Wild and Recently Domesticated Centropomus Undecimallis Populations

Marcos Edgar Herkenhoff, Miklos Maximiliano Bajay, Carlos André da Veiga Lima-Rosa Costamilan

Subject: Biology And Life Sciences, Aquatic Science Keywords: Microsatellites; Centropomus parallelus; Centropomus undecimalis; Centropomidae, genetic polymorphism

Online: 28 June 2023 (15:31:25 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202306.1721.v1

Characteristics of Seismogenic Dust Particles from Mountain and Its Significance for Paleoseismic Records in Tufa Section: A Case Study of Jiuzhaigou, China

Shengwen Jing, Fudong Wang, Enrico Capezzuoli, Guoqing Huang, Junhao Li, Hanchao Jiang, Zijian Zhou, Xueqin Zhao, Faqin Dong, Andrea Brogi

Subject: Environmental And Earth Sciences, Geochemistry And Petrology Keywords: Jiuzhaigou; Tufa particulate matter; Sedimentation; Genetic analysis; Paleoearthquake

Online: 25 June 2023 (07:11:39 CEST)

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The sedimentary characteristics of the special interlayer contained in the section of the Sparking Lake dam revealed by the 8.8 Jiuzhaigou earthquake in 2017 are obviously different from the tufa in the dam body, and they are considered to be prehistoric flood relics. Based on the study of the particulate matter from the 8.8 Jiuzhaigou earthquake, this paper combines comparative petrographic, mineralogical, geochemical and chronological studies of the special interbedded sediments of the Sparking Lake dam with other genetic samples to obtain homology information and genetic links, as well as to explore the tufa depositional dynamics and earthquake disaster subsidence. The palaeoseismic benefit in the discontinuity layer is explored, and the palaeoseismic information embedded in the profiles is extracted, providing a new idea to reconstruct the palaeoseismic events in the tufa deposition sequence. According to X-ray diffraction, laser particle size analysis and scanning electron microscope experiments, the particulate matter in the Jiuzhaigou mountains has its own specific mineralogical characteristics. The mineral composition of the particulate matter is basically calcite. The particle size is large, and the single particle is mostly angular and subangular. The fracture morphology observed under the single particle microscope is uneven, showing the characteristics of dust caused by earthquake disasters. Geochemical analysis data show that the provenance of various types of particles in the same area is stable, indicating the homology of terrestrial carbonate sedimentation in the karst system. Combined with mineralogy and grain size morphology, the interbedded particles in the tufa depositional profile have the potential application of palaeoseismic archives to record extreme seismic events. The palaeoseismic date was inferred from the chronological data of special interlayered sediments in the tufa dam body. Therefore, the tufa bedding can be related to the palaeoearthquake, and the special interlayer of the tufa section can be used to reconstruct palaeoearthquakes.

Preprint ARTICLE | doi:10.20944/preprints202306.0613.v1

Assessment of Genetic Diversity in Winged Bean [Psophocarpus Tetragonolobus (L.) DC.] Accessions Using Morphological Traits and Microsatellite Markers

Temitope Esther Olatunde, Adeolu Moses Adebayo, Ayomide Ajoke Bhadmus, Idris Ishola Adejumobi, Olaniyi Oyatomi, Benjamin Faloye, Michael Abberton

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Accessions; genetic diversity; morphological traits; SSRs; winged bean

Online: 8 June 2023 (09:25:39 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202306.0016.v1

The IFIH1/MDA5 rs1990760 Gene Variant (946Thr) Differentiates Early Versus Late-Onset Skin Disease and Increased the Risk of Arthritis in a Spanish Cohort of Psoriatic Disease

Pablo Coto-Segura, Daniel Vazquez-Coto, Lucinda Velazquez-Cuervo, Claudia García-Lago, Eliecer Coto, Rubén Queiro

Subject: Medicine And Pharmacology, Dermatology Keywords: psoriasis; psoriatic arthritis; IFIH1; MDA5; polymorphism; genetic association

Online: 1 June 2023 (03:40:11 CEST)

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Preprint REVIEW | doi:10.20944/preprints202305.1297.v1

Recent Advances in Elucidating the Mechanism Underlying Proteinuric Kidney Disease/Nephrotic Syndrome: Lessons From Knockout/Transgenic Mouse Models

Ryosuke Saiki, Kan Katayama, Kaoru Dohi

Subject: Medicine And Pharmacology, Other Keywords: genetic kidney disease; knockout; nephrotic syndrome; proteinuria; transgenic

Online: 18 May 2023 (08:10:21 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202305.1095.v1

Chromosome-Level Genome Assembly and Population GE-Nomic Analyses Reveal Geographic Variation and Population Genetic Structure of Prunus tenella

Yue Qin, Han Zhao, Hongwei Han, Gaopu Zhu, Zhaoshan Wang, Fangdong Li

Subject: Biology And Life Sciences, Horticulture Keywords: Prunus tenella; genome; assembly; almond; population genetic structure

Online: 16 May 2023 (05:13:20 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202304.1057.v1

Genetic Polymorphisms of ACE1 rs4646994 Associated with Lung Cancer in Patients with Pulmonary Nodules: A Case Control Study

Rong Qiao, Siyao Sang, Jiajun Teng, Hua Zhong, Hui Li, Baohui Han

Subject: Biology And Life Sciences, Life Sciences Keywords: genetic polymorphism; ACE1 rs4646994; lung cancer; pulmonary nodules

Online: 27 April 2023 (07:47:55 CEST)

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Preprint REVIEW | doi:10.20944/preprints202212.0453.v1

Genetics of Resistance to Leaf Rust in Wheat: An Overview in A Genome-Wide Level

Xiaopeng Ren, Chuyuan Wang, Zhuang Ren, Jing Wang, Peipei Zhang, Shuqing Zhao, Mengyu Li, Meng Yuan, Xiumei Yu, Zaifeng Li, Shisheng Chen, Xiaodong Wang

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: wheat; resistance; leaf rust; genetic loci; genome-wide

Online: 23 December 2022 (08:11:48 CET)

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Preprint ARTICLE | doi:10.20944/preprints202212.0427.v1

Composition and Patterns of Taxa Assemblages in the Western Channel Assessed by 18S Sequencing, Microscopy and Flow Cytometry

Stern Rowena, Kathryn Picard, Jessica Clarke, Charlotte Walker, Claudia Martins, Clare Marshall, Ana Amorim, Malcolm Woodward, Claire Widdicombe, Glen Tarran, Martin Edwards

Subject: Environmental And Earth Sciences, Environmental Science Keywords: Plankton; Monitoring; Harmful algae; microscopic; genetic; Western Channel

Online: 22 December 2022 (11:34:13 CET)

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Preprint REVIEW | doi:10.20944/preprints202212.0210.v1

Impact of Drought on Maize Yield and Exploration of In-Situ Maize Crop Genetic Resources for Drought Tolerance.

G MAHENDRA SINGH, Gokul Gosavi, Srinathareddy S, Shiv Shankar Patel, Pawan Singh Solanki, Feng Zhang, Jianchu Xu, V K Mishra, Sandeep Sharma

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Maize; drought; landrace; climate-change; crop genetic resources

Online: 13 December 2022 (01:07:51 CET)

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Preprint ARTICLE | doi:10.20944/preprints202211.0244.v1

Screening Aromatic Rice Genotypes by RAPD Markers for Breeding Salinity Stress Tolerant Rice Variety

Md Abdul Azim, Md Mahbubur Rahman, Dipali Rani Gupta, Aniruddha Sarker, Tofazzal Islam

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: aromatic rice; salt screening; RAPD marker; genetic diversity

Online: 14 November 2022 (07:43:36 CET)

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Preprint REVIEW | doi:10.20944/preprints202211.0106.v1

Chloroplast Genetics Engineering: from Bench to Blast Application of Chloroplast Genetic-Engineering in Basic Research

Bo Wang

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Keywords: chloroplast genetic engineering; Homologus recombination; ORF; photosynthesis

Online: 7 November 2022 (04:31:29 CET)

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Preprint ARTICLE | doi:10.20944/preprints202207.0332.v1

Getting the Full Picture of Plankton in the Western Channel

Stern Rowena, Kathryn Picard, Jessica Clarke, Charlotte Walker, Claudia Martins, Clare Marshall, Ana Amorim, Malcolm Woodward, Claire Widdicombe, Glen Tarran, Martin Edwards

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: Plankton; Monitoring; Harmful algae; microscopic; genetic; Western Channel

Online: 22 July 2022 (03:33:40 CEST)

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Preprint REVIEW | doi:10.20944/preprints202112.0331.v1

Visualizing the Complexity of Proteins in Living Cells With Genetic Code Expansion

Kanokpol Aphicho, Narongyot Kittipanukul, Chayasith Uttamapinant

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Genetic code expansion; unnatural amino acid; fluorescence imaging

Online: 21 December 2021 (12:42:35 CET)

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Preprint ARTICLE | doi:10.20944/preprints202105.0606.v1

Inheritance of Qualitative Morphological Traits and Variation of Quantitative Agronomic Traits of Enset (Ensete Ventricosum (Welw.) Cheesman) Clones Obtained From Wolaita Zone, Southern Ethiopia

Mesfin Kebede Gessese, Abraham Bosha

Subject: Biology And Life Sciences, Anatomy And Physiology Keywords: Chi-squared; Genetic ratios; Progenies; Selfing; Variability analysis

Online: 25 May 2021 (10:34:35 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202105.0305.v1

Distance Only Brings You Closer: Application of ISSR Markers to Analyze Molecular Relationships in Roses (Rosa spp.) - The Symbol of Love

Tanay Joshi, Santosh Kumar, Lalit Arya, Amritbir Riar

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: ISSR; Rosa spp.; DNA fingerprinting; genotypes; genetic diversity

Online: 13 May 2021 (14:01:21 CEST)

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Preprint REVIEW | doi:10.20944/preprints202104.0461.v1

Germplasm Conservation: Instrumental in Agricultural Biodiversity-A Review

Veerala Priyanka, Rahul Kumar, Inderpreet Dhaliwal, Prashant Kaushik

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Germplasm; Genetic plant resources; Preservation; Propagation; in vitro

Online: 19 April 2021 (11:28:31 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202102.0470.v1

Assessing a Smart Technology versus a Mathematical model to Estimate the Transverse Shear Stress Distribution in a Rectangular Channel

Babak Lashkar-Ara, Niloofar Kalantari, Zohreh Sheikh Khozani, Amir Mosavi

Subject: Engineering, Civil Engineering Keywords: Smooth rectangular channel; Tsallis entropy; Genetic Programming (GP)

Online: 22 February 2021 (13:09:13 CET)

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Preprint ARTICLE | doi:10.20944/preprints202003.0119.v1

Mining and Characterizing the SSR Markers for Black Rice Using the Illumina Sequencing Platform

Dhananjay Kumar, Prasanta Kumar Das, Chandra Singha, Bidyut Kumar Sarmah

Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: black rice; transcriptome sequencing; genic SSRs; genetic diversity

Online: 7 March 2020 (09:03:34 CET)

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Preprint ARTICLE | doi:10.20944/preprints201908.0010.v1

Kalina-Flash Cycle Performance Analysis and Parametric Optimization

Raveendra Nath R, C. Vijaya Bhaskar Reddy, K.Hemachandra Reddy

Subject: Engineering, Mechanical Engineering Keywords: genetic algorithm; Kalina cycle; energy efficiency; Exergy efficiency;

Online: 1 August 2019 (06:13:45 CEST)

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Preprint ARTICLE | doi:10.20944/preprints201904.0321.v1

Whole Genome Diversity, Population Structure and Linkage Disequilibrium Analysis of Chickpea (Cicer arietinum L.) Genotypes Using Genome-Wide DArTseq-Based SNP Markers

Somayeh Farahani, Mojdeh Maleki, Rahim Mehrabi, Homayoun Kanouni, Reza Talebi

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: chickpea; genetic diversity; linkage disequilibrium; DArTseq-SNP markers

Online: 29 April 2019 (07:56:52 CEST)

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Characterization of genetic diversity, population structure and linkage disequilibrium is prerequisite for proper management of breeding programs and conservation of genetic resources. In this study, 186 chickpea genotypes including advanced “Kabuli” breeding lines and Iranian landrace “Desi” chickpea genotypes were genotyped using DArTseq-Based SNP markers. Out of 3339 SNPs, 1152 markers with known chromosomal position were selected for genome diversity analysis. The number of mapped SNP markers varied from 52 (LG8) to 378 (LG4), with an average of 144 SNPs per linkage group. The chromosome size that covered by SNPs varied from 16236.36 kbp (LG8) to 67923.99 kbp (LG5), while LG4 showed higher number of SNPs, with an average of 6.56 SNPs per Mbp. Polymorphism information content (PIC) value of SNP markers ranged from 0.05 to 0.50, with an average of 0.32, while the markers on LG4, LG6 and LG8 showed higher mean PIC value than average. Un-weighted Neighbor Joining cluster analysis and Bayesian-based model population structure grouped chickpea genotypes into four distinct clusters. Principal component analysis (PCoA) and Discriminant Analysis of Principal Component (DAPC) results were consistent with that of the cluster and population structure analysis. Linkage disequilibrium (LD) was extensive and LD decay in chickpea germplasm was relatively low. A few markers showed r²≥0.8, while 2961 pairs of markers showed complete LD (r²=1) and a huge LD block was observed on LG4. High genetic diversity and low kinship value between pairs of genotypes suggesting the presence of a high genetic diversity among studied chickpea genotypes. This study also demonstrated the efficiency of DArTseq-based SNP genotyping for large scale genome analysis in chickpea. The genotypic markers provided in this study are useful for various association mapping studies when combined with phenotypic data of different traits such as seed yield, abiotic and biotic stresses and therefore can be efficiently used in breeding programs to improve chickpea.

Preprint ARTICLE | doi:10.20944/preprints201811.0603.v1

Adjuvant Potential of CD24 on Immunogenicity and Lethal Challenge Protection of a DNA vector Expressing Nucleocapsid Protein of Crimean Congo Hemorrhagic Fever Virus

Touraj Aligholipour Farzani, Alireza Hanifehnezhad, Katalin Foldes, Koray Ergunay, Erkan Yilmaz, Hiba Hashim Mohamed Ali, Aykut Ozkul

Subject: Biology And Life Sciences, Virology Keywords: CCHFV, CD24, nucleocapsid, genetic adjuvant, immunogenicity, IFNAR-/- mice

Online: 27 November 2018 (12:15:59 CET)

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Preprint ARTICLE | doi:10.20944/preprints201805.0089.v1

Conservation of Crop Genetic Resources in Italy with a Focus on Vegetables and a Case Study of a Neglected Race of Brassica oleracea

Karl Hammer, Vincenzo Montesano, Paolo Direnzo, Gaetano Laghetti

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: agrobiodiversity; vegetables; plant genetic resources; Italy; safeguarding; landraces

Online: 4 May 2018 (09:34:09 CEST)

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Preprint ARTICLE | doi:10.20944/preprints201705.0109.v1

The Genetic Structure of Turnip mosaic Virus Population Reveals the Rapid Expansion of a New Emergent Lineage in China

Xiangdong Li, Tiansheng Zhu, Xiao Yin, Chengling Zhang, Jia Chen, Yanping Tian, Jinliang Liu

Subject: Biology And Life Sciences, Plant Sciences Keywords: Turnip mosaic virus; Potyvirus; Genetic structure; Population; China

Online: 15 May 2017 (11:38:11 CEST)

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Preprint COMMUNICATION | doi:10.20944/preprints202403.0950.v1

SSR Markers-Based DNA Fingerprinting for Varietal Identification in Mango Cultivars

Javed Iqbal, Muhammad Aleem Ashraf, Muhammad Kashif, Bilal Ahamad Paray

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Mango tree; SSR markers; mango varieties; genetic diversity; cultivar identification diagram, loci, polymorphism; genetic resources in Pakistan; breeding; cultivar development

Online: 18 March 2024 (09:14:32 CET)

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Preprint ARTICLE | doi:10.20944/preprints202309.1723.v1

Simple Sequence Repeats-Based DNA Fingerprinting and Varietal Identification of Mango Cultivars

Javed Iqbal, Muhammad Aleem Ashraf, Qiuliang Cai, Ammara Riaz, Yufeng Li, Imran Shahid, Yu Kong, Abdul Ghaffar Grewal, Sidra Kiran, Sajid Rehman, Imran Habib, Naitong Yu

Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: Mango tree; SSR markers; mango varieties; genetic diversity; cultivar identification diagram, loci, polymorphism; genetic resources in Pakistan; breeding; cultivar development

Online: 26 September 2023 (03:48:00 CEST)

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Assessment of the genetic distinctiveness of a cultivar through morphological descriptors is an important tool for both the registration and the protection. New mango genotypes have been improved using valuable diverse germplasm resources to ensure food security. DNA fingerprinting based simple sequence repeats (SSR)-markers have been the most broadly used, effective and accurate in evaluation of genetic characterization of a cultivar. Molecular breeding is an effective source of genetic gain after improvement of fruit trees using marker assisted genomic selection. Mango (Mangifera indica L.) is an allotetraploid (2n = 4X= 40) drupe fruit and has high nutritional value belongs to genus Mangifera and family Anacardiaceae. Mango cultivars are used with worldwide acceptance to pharmacological, ethnomedical, and phytochemical industries. This study investigated the molecular evaluation of a new mango cultivar ‘Azeem Chaunsa’ using a set of the most effective 50 hyper-variable polymorphic SSR markers. Highly specific DNA fingerprints were identified in the genome of this mango cultivar, ‘Azeem Chaunsa’ compared with three standard cultivars such as Sindhri, Samar Bahisht (S.B) Chaunsa and Sufaid Chaunsa. Our results showed that SSR markers could efficiently assess genetic diversity in mango. An agglomerative hierarchical clustering method was used to construct dendrogram based on the ‘Unweighted Pair- Group Method with Arithmetic Mean’ (UPGMA). The genetic similarity coefficients were recorded between the mangos cultivars ranged from 0.49 to 0.67. Cultivar identification (CID) evaluates association among standard cultivars and Azeem Chaunsa and further concludes significant variations. CID results concluded that cultivar ‘Azeem Chaunsa’ varied significantly from the check cultivar, Sindhri (46.2%), S.B Chaunsa (45%) and Sufaid Chaunsa (46.7%). The results obtained in this study will orient cultivar identification strategies for a successful future mango breeding programmes in the context of climate change.

Preprint ARTICLE | doi:10.20944/preprints202402.1686.v1

Dynamic 3D Point Cloud Driven Autonomous Hierarchical Path Planning for Quadruped Robots

Qi Zhang, Ruiya Li, Jubiao Sun, Li Wei, Jun Huang, Yuegang Tan

Subject: Computer Science And Mathematics, Robotics Keywords: Quadruped robots; 3D point cloud; complex terrain; dynamic obstacles; particle swarm optimization (PSO); artificial potential field (APF); dynamic window approach (DWA)

Online: 29 February 2024 (11:41:10 CET)

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Preprint REVIEW | doi:10.20944/preprints202305.0472.v1

Progress toward Health System Readiness for Genome-Based Testing in Canada

Don Husereau, Eva Villalba, Vivek Muthu, Michael Mengel, Craig Ivany, Lotte Steuten, Daryl S. Spinner, Brandon Sheffield, Stephen Yip, Philip Jacobs, Terrence Sullivan

Subject: Public Health And Healthcare, Health Policy And Services Keywords: diagnostic molecular pathology; genetic testing; diagnostic services; technology assess- ment; biomedical; genetic services; financial support; clinical governance; health technology; healthcare innovation

Online: 8 May 2023 (08:36:59 CEST)

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Preprint ESSAY | doi:10.20944/preprints202404.1289.v1

Building, Maintaining, and (Re-)Deploying Genetic Toolkits during Convergent Evolution

Todd Oakley

Subject: Life Sciences, Biology And Life Sciences Keywords: convergent evolution, genetic toolkit, deep homology, vision, eyes, metaphor

Online: 19 April 2024 (08:17:22 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202404.0077.v1

Enhancing Sustainable Construction: Optimization Tool for Glulam Roof Structures according to Eurocode 5

María Simón-Portela, José Ramón Villar-García, Pablo Vidal-López, Desirée Rodríguez-Robles

Subject: Engineering, Architecture, Building And Construction Keywords: artificial intelligence; genetic algorithm; timber; roof structure; Eurocode 5

Online: 1 April 2024 (17:18:38 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.1134.v1

Investigating Genetic Diversity and Population Structure in Rice Breeding from Association Mapping of 116 Accessions Using 64 Polymorphic SSR Markers

Alok kumar Singh, Devendra Kumar, Donato Gemmati, Ranjith Kumar Ellur, Ashutosh Singh, Veronica Tisato, D.K. Dwivedi, Sanjay Kumar Singh, Kishor Kumar Sadasivuni, Nawaz Ahmad Khan, Ajay Vikram Singh

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Rice; Population structure; Genetic diversity; PIC; Association mapping; Variability

Online: 20 March 2024 (04:45:59 CET)

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Preprint ARTICLE | doi:10.20944/preprints202402.0966.v1

Genetic Variability and Interrelationships of Grain Quality, Cooking Quality and Nutritional Quality Traits in Cowpea: Implication for Cowpea Improvement

Michael M. Chipeta, Esnart Yohane, Jessica Kampanje-Phiri, John Kafwambira

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Consumer-preferred traits; cowpea, genetic variability; interrelationships; quality traits

Online: 19 February 2024 (03:32:06 CET)

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Preprint REVIEW | doi:10.20944/preprints202401.1301.v1

Neurocutaneous Diseases: Diagnosis, Management, and Treatment

Ivelina Kioutchoukova, Devon Foster, Rajvi Thakkar, Christopher Ciesla, Jake Salvatore Cabassa, Jacob Strouse, Hayley Kurz, Brandon Lucke-Wold

Subject: Medicine And Pharmacology, Neuroscience And Neurology Keywords: neurocutaneous disorders; cutaneous; neurologic; phakomatoses; genetic advances; precision medicine

Online: 17 January 2024 (09:45:49 CET)

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Preprint ARTICLE | doi:10.20944/preprints202312.1547.v1

Physics-Based Aircraft Dynamics Identification Using Genetic Algorithms

Raymundo Peña-García, Rodolfo Daniel Velázquez-Sánchez, Cristian Gómez-Daza-Argumedo, Jonathan Omega Escobedo-Alva, Ricardo Tapia-Herrera, Jesús Alberto Meda-Campaña

Subject: Engineering, Aerospace Engineering Keywords: Physical-based modelling; system identification; transition matrix; genetic algorithm.

Online: 20 December 2023 (13:49:48 CET)

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Preprint REVIEW | doi:10.20944/preprints202312.0743.v1

Crop Evolution of Foxtail Millet

Kenji Fukunaga, Makoto Kawase

Subject: Biology And Life Sciences, Plant Sciences Keywords: center of diversity; crop evolution, domestication; genetic differentiation; phylogeny

Online: 12 December 2023 (07:49:46 CET)

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Preprint ARTICLE | doi:10.20944/preprints202311.0942.v1

Population Genetic Structure of a Viviparous Sand Lizard, the Phrynocephalus forsythii in the Tarim Basin, Xinjiang of China

Jiabao Duan, Luoxue Jiang, Tianying Chen, Wen Zhong, Wei Zhao, Yue Qi, Penghui Guo, You Li

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: Phrynocephalus forsythii; microsatellite; genetic diversity; population structure

Online: 14 November 2023 (15:25:45 CET)

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Preprint ARTICLE | doi:10.20944/preprints202311.0879.v1

Genetic Determinants of Virulence of Two Clones of the Maize Streak Virus

Richard Edema, Donald T Gordon

Subject: Biology And Life Sciences, Virology Keywords: Maize streak virus; Virulence determinants; Genetic analysis; Zea mays

Online: 14 November 2023 (10:29:54 CET)

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Preprint ARTICLE | doi:10.20944/preprints202311.0735.v1

Transcriptional Reprogramming of Candida tropicalis in Response to Isoespintanol Treatment

Orfa Inés Contreras Martínez, Alberto Angulo Ortíz, Gilmar Santafé Patiño, Katia Aviña-Padilla, María Camila Velasco, Maria F. Yasnot-Acosta

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Transcriptomics; Candida tropicalis; isoespintanol; genetic dysregulation; mitochondria; cell wall

Online: 13 November 2023 (14:21:10 CET)

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Candida tropicalis, an opportunistic pathogen, ranks among the primary culprits of invasive candidiasis, a condition notorious for its resistance to conventional antifungal drugs. The urgency to combat these drug-resistant infections has spurred the quest for novel therapeutic compounds, with a particular focus on those of natural origin. In this study, we set out to evaluate the impact of Isoespintanol (ISO), a monoterpene derived from Oxandra xylopioides, on the transcriptome of C. tropicalis. Leveraging transcriptomics, our research aimed to unravel the intricate transcriptional changes induced by ISO within this pathogen. Our differential gene expression analysis unveiled 186 differentially expressed genes (DEGs) in response to ISO, with a striking 85% of these genes experiencing upregulation. These findings shed light on the multifaceted nature of ISO's influence on C. tropicalis, spanning a spectrum of physiological, structural, and metabolic adaptations. The upregulated DEGs predominantly pertained to crucial processes, including ergosterol biosynthesis, protein folding, response to DNA damage, cell wall integrity, mitochondrial activity modulation, and cellular responses to organic compounds. Simultaneously, 27 genes were observed to be repressed, affecting functions such as cytoplasmic translation, DNA damage checkpoints, membrane proteins, as well as metabolic pathways like trans-methylation, trans-sulfuration, and trans-propylamine. These results underscore the complexity of ISO's antifungal mechanism, suggesting that it targets multiple vital pathways within C. tropicalis. Such complexity potentially reduces the likelihood of the pathogen developing rapid resistance to ISO, making it an attractive candidate for further exploration as a therapeutic agent. In conclusion, our study provides a comprehensive overview of the transcriptional responses of C. tropicalis to ISO exposure. The identified molecular targets and pathways offer promising avenues for future research and the development of innovative antifungal therapies to combat infections caused by this pathogenic yeast.

Preprint REVIEW | doi:10.20944/preprints202310.1544.v1

Why Honey Bees Are Dying: A Forgotten Cause

Jacques J. M. van Alphen

Subject: Biology And Life Sciences, Insect Science Keywords: natural selection, genetic variation, population structure, Varroa resistance, behaviour

Online: 25 October 2023 (05:18:32 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202310.0897.v1

Role of rs873601 Polymorphisms in Prognosis of Lung Cancer Patients Treated with Platinum-Based Chemotherapy

Ting Zou, Jun Yan Liu, Qun Qin, Jie Guo, Wen Zhi Zhou, Xiang Ping Li, Honghao Zhou, Juan Chen, Zhao Qian Liu

Subject: Medicine And Pharmacology, Medicine And Pharmacology Keywords: lung cancer; platinum-based chemotherapy; ERCC5; Genetic polymorphism; prognosis

Online: 13 October 2023 (11:34:21 CEST)

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Background: Lung cancer is still the most lethal malignancy in the world from the report of Cancer Statistics in 2021. Platinum-based chemotherapy combined immunotherapy is the first-line treatment in lung cancer patients. However, the 5-year survival rate always affected by the adverse reaction and drug resistance caused by platinum-based chemotherapy. DNA damage and repair system is one of the important mechanisms which can affect the response to chemotherapy and clinical outcome in lung cancer patients. Objective: The objective of this study is to find the relationship between the polymorphisms of DNA repair genes with the prognosis in platinum-based chemotherapy in lung cancer patients. Patients and Methods: We performed genotyping in 17 single nucleotide polymorphisms (SNPs) of Excision Repair Cross-Complementation group (ERCC) genes and X-ray Repair Cross-Complementing (XRCC) genes of 345 lung cancer patients by Sequenom MassARRAY. We used Cox proportional hazard models, state and plink to analyze the associations between SNPs and the prognosis of lung cancer patients. Results: We found that the ERCC5 rs873601 was associated with the overall survival time in lung cancer patients treat by platinum-based chemotherapy (p=0.031*). We also discovered that the polymorphisms in rs873601 was significantly associated with the prognosis in age more than 55 years, Small Cell Lung Cancer (SCLC) and smoking patients, Long Intergenic Non-protein Coding RNA (PNKY) rs2444933 in age less than 55 years, SCLC, metastasis and stage III/IV/ED patients, Short Tau Inversion Recovery (STIR1) rs3740051 in SCLC and metastasis patients, PNKY rs1869641 in SCLC patients, XRCC5 rs1051685 in non-metastasis patients, respectively. Conclusion: The ERCC5 rs873601(G>A) maybe a valuable biomarker for predicting the prognosis in lung cancer patients treated with platinum-based chemotherapy. Statements and Declarations: The authors declare that they have no conflict of interest.

Preprint ARTICLE | doi:10.20944/preprints202310.0220.v1

Lily Database: A Comprehensive Genomic Resource for the Liliaceae Family

Manosh Kumar Biswas, Sathish kumar Natarajan, Dhiman Biswas, Jewel Howlader, Jong-In Park, Ill-Sup Nou

Subject: Biology And Life Sciences, Horticulture Keywords: Genetic diversity; Germplasm; molecular markers; transcription factors; DEGs; genes.

Online: 4 October 2023 (09:03:49 CEST)

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