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Preprint REVIEW | doi:10.20944/preprints202407.0683.v1

Exploring the Multifaceted Genus Acinetobacter: The Facts, the Concerns and the Opportunities

Tsvetana Muleshkova, Inga Bazukyan, Konstantinos Papadimitriou, Velitchka Gotcheva, Angel Angelov, Svetoslav G. Dimov

Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: Acinetobacter genus; pathogenic and non-pathogenic species and strains; genetic divergence

Online: 9 July 2024 (05:45:12 CEST)

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Preprint BRIEF REPORT | doi:10.20944/preprints202403.0950.v2

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

Muhammad Aleem Ashraf, Javed Iqbal, Imran Shahid, Muhammad Kashif, Yufeng Li, Yu Kong, Naitong Yu

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: 17 June 2024 (08:04:46 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202307.1185.v1

Genetic regulation of human isomiR biogenesis

Guanglong Jiang, Jill L. Reiter, Chuanpeng Dong, Yue Wang, Fang Fang, Zhaoyang Jiang, Yunlong Liu

Subject: Computer Science And Mathematics, Mathematical And Computational Biology Keywords: microRNA; isomiR; genetic association

Online: 18 July 2023 (07:52:22 CEST)

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Preprint REVIEW | doi:10.20944/preprints202110.0079.v1

Engineering of Synthetic Transcriptional Switches in Yeast

Masahiro Tominaga, Akihiko Kondo, Jun Ishii

Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: genetic switch; yeast; synthetic transcription factor; synthetic promoter; directed evolution

Online: 5 October 2021 (11:19:46 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202408.0698.v1

A Method for Optimizing Production Layers Regroup Based on Genetic Algorithm

Lining Cui, Jiqun Zhang, Dehai He, Longchuan Pu, Boyang Peng, Xiaolin Ping

Subject: Engineering, Energy And Fuel Technology Keywords: high-water-cut reservoirs; production layer regroup; genetic algorithm; EOR

Online: 9 August 2024 (09:44:38 CEST)

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Working Paper REVIEW

The Boggarts of Biology: How Non-Genetic Changes Influence the Genotype

Laasya Samhita

Subject: Biology And Life Sciences, Anatomy And Physiology Keywords: Non-genetic change; translation errors; phenotypic variability; adaptation; evolution

Online: 6 October 2020 (15:16:03 CEST)

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Working Paper ARTICLE

A Decision Support Tool for Multi-Objectives Teaching Assignment Problem

Tung Son Ngo, Ngoc Anh Bui, Jaafar Jafreezal

Subject: Social Sciences, Education Keywords: Timetabling; Task Assignment; MOP; Combinatory Optimization; Compromise Programming; Genetic Algorithm

Online: 31 August 2020 (07:57:53 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202408.2172.v1

Efficient Regeneration of Transgenic Rice from Embryogenic Callus via Agrobacterium-Mediated Transformation: A Case Study using GFP and Apple MdFT1 Genes

Van Giap Do, Seonae Kim, Nay Myo Win, Soon-Il Kwon, Hunjoong Kweon, Sangjin Yang, Juhyeon Park, Gyungran Do, Youngsuk Lee

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: genetic transformation; Agrobacterium-mediated transformation; embryogenic callus; transgenic rice; eGFP reporter gene; MdFT1 gene; heterologous expression

Online: 29 August 2024 (13:19:34 CEST)

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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/preprints202405.0236.v1

Characterization of Cassava (Manihot esculenta) Germplasm from Sierra Leone Based on Agro-Morphological and Culinary Traits

Vandi Amara, Alusaine Edward Samura, Prince Emmanuel Norman, Sheku Alfred Kanu, Kumba Yannah Karim, Fidele Tiendrebeogo, Angela Obiageli Eni, Justin S Pita

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Cassava; Germplasm; Genetic variability; Morpho-culinary markers; phenotypic relationship

Online: 6 May 2024 (07:12:32 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 REVIEW | doi:10.20944/preprints202407.2564.v1

The Genetic Analysis and Clinical Therapy in Lung Cancer: Current Advances and Future Directions

Angela Rina, Debora Maffeo, Francesca Minnai, Martina Esposito, Maria Palmieri, Viola Bianca Serio, Diletta Rosati, Francesca Mari, Elisa Frullanti, Francesca Colombo

Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: lung cancer; genetic discoveries; target therapy; personalized treatments

Online: 31 July 2024 (14:29:41 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202408.2221.v1

Human-Activity-Mediated Gene Flows Are Involved in the Establishment of Magnaporthe oryzae Population Structures: A Population Genomic Analysis

Guohua Duan, Yuchan Liu, Cheng Zheng, Kaihui Yu, Jiahui Xie, Baohua Wang, Huakun Zheng, Wei Tang, Jiandong Bao, Zonghua Wang, Meilian Chen

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: Magnaporthe oryzae; population structure; genetic diversity; gene flow

Online: 30 August 2024 (08:36:22 CEST)

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Preprint REVIEW | doi:10.20944/preprints202407.0559.v1

Quasispecies Theory and Emerging Viruses: Challenges and Applications

Josep Sardanyes, Celia Perales, Esteban Domingo, Santiago Elena

Subject: Biology And Life Sciences, Virology Keywords: Quasispecies; Virology; Evolutuion; Fitness landscapes; Genetic heterogeneity; Modelling

Online: 8 July 2024 (09:04:40 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202103.0671.v1

Long-Term Pedigree Analysis: An Effective Tool for Managing Congenital Malformations in Cattle

Jindřich Čítek, Libor Večerek, Soňa Šlosárková, Petr Fleischer, Daniela Schröffelová, Josef Kučera

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: genetic health; surveillance program; aplasia genitalis; atresia ani et recti; hernia cerebralis

Online: 26 March 2021 (15:09:33 CET)

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Preprint REVIEW | doi:10.20944/preprints202408.1841.v1

The Biological and Genetic Mechanisms of Yield Self-Regulation in Apple Tree (Malus × domestica Borkh.)

Aurelijus Starkus, Šarūnė Morkūnaitė-Haimi, Tautvydas Gurskas, Edvinas Misiukevičius, Vidmantas Stanys, Birutė Frercks

Subject: Biology And Life Sciences, Horticulture Keywords: Malus × domestica; abscission; fruit - drop; yield self- regulation; phytohormones; genetic mecha-nisms

Online: 26 August 2024 (11:49:46 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202108.0340.v1

Prevalence, Phylogroups, Antimicrobial Susceptibility and GE-Netic Diversity of Escherichia coli Isolates From Food Products

Babak Pakbin, Samaneh Allahyari, Zahra Amani, Wolfram Manuel Bruck, Razzagh Mahmoudi, Amir Peymani

Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: Escherichia coli; Antimicrobial resistance; Food samples; Phylogenetic group; Genetic diversity

Online: 16 August 2021 (13:35:58 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202406.0447.v1

Optimization of Parametric Equalizer Filters in In-Vehicle Audio Systems with Genetic Algorithm

Volkan Başay, Oğuzhan Coşkun, Güneş Yılmaz

Subject: Engineering, Electrical And Electronic Engineering Keywords: vehicle multimedia system; equal loudness contours; parametric equalizer filter; genetic algorithm

Online: 7 June 2024 (08:24:47 CEST)

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Preprint REVIEW | doi:10.20944/preprints201809.0354.v1

High-throughput Genome Editing Tools for Lactic Acid Bacteria: Opportunities for Food, Feed, Pharma and Biotech

Rosa Aragão Börner, Vijayalakshmi Kandasamy, Amalie Melton Axelsen, Alex Toftgaard Nielsen, Elleke F Bosma

Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: Genetic tool development, Food fermentation, Biotherapeutics, Phytotherapeutics, Synthetic biology, GMO regulation

Online: 18 September 2018 (14:22:47 CEST)

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Preprint REVIEW | doi:10.20944/preprints202208.0154.v1

Integrated Genetic and Omics Approaches for the Regulation of Nutritional Activities in Rice (Oryza sativa L.)

Muhammad Junaid Zaghum, Kashir Ali, Sheng Teng

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Genome selection; Rice breeding; Genetic analysis; Omics assisted markers; Nutritional quality; Genomics and pangenomics; Biofortification

Online: 8 August 2022 (10:53:16 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202407.0205.v1

Genetic Characterization of Some Accessions of Barley in Algeria with Microsatellites (SSR) Markers

Warda Taibi, Fatima Henkrar, Sripada Mahabala Udupa, Suheil bechir semir Gaouar

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Genetic diversity; SSR markers; barley; Algeria

Online: 2 July 2024 (14:49:31 CEST)

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Preprint REVIEW | doi:10.20944/preprints202408.0682.v1

Genotype-Phenotype Correlations in Inherited Cardiomyopathies, Their Role in Clinical Decision-Making and Implications in Personalized Cardiac Medicine in Multi-omics as Well as Disease Modelling Eras

Yaqob Samir Taleb, Paras Memon, Aftab Ahmed Jalbani, Nouf AlMutairi, Sarah Al Mukhaylid, Nawaf Alanazi, Abdulkareem Al-Garni, Muneera Altaweel, Muhammad Aamir Khan, Muhammad Farooq Sabar, Zafar Iqbal

Subject: Medicine And Pharmacology, Cardiac And Cardiovascular Systems Keywords: Cardiomyopathy; Multi-omics techniques; personalized medicine; genetic testing

Online: 9 August 2024 (12:13:29 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202209.0256.v1

Development of Evolutionary Systems based on Quantum Petri Nets

Tiberiu Stefan Letia, Elenita Maria Durla-Pasca, Dahlia Al-Janabi, Octavian Petru Cuibus

Subject: Computer Science And Mathematics, Data Structures, Algorithms And Complexity Keywords: quantum computing; genetic algorithms; Petri nets; Quantum Petri nets; software development; analysis and verification

Online: 19 September 2022 (03:41:37 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202405.0268.v1

Genetic Mechanism of Geothermal Water in Huichang Fault Depression Basin, Southern Jiangxi Province, China: Based on Hydrochemical Characteristics

Jihong Han, Changsheng Huang, Lianyuan Chang, Pingping Hou, Yafeng Wang, Jin Zou, Chonghe Ren

Subject: Environmental And Earth Sciences, Geophysics And Geology Keywords: Huichang fault depression basin; geothermal fluids; hydrogeochemistry; genetic mechanism

Online: 6 May 2024 (10:14:25 CEST)

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Preprint COMMUNICATION | doi:10.20944/preprints202403.0549.v1

Preliminary Analysis of the Development of the Breeding Program of Peruvian Paso Horse under Field Conditions

Jorge Luis Vilela, Paola Quintana, María Lourdes Velarde, Rosario Gonzales, Teresa Vargas, José Dextre

Subject: Biology And Life Sciences, Animal Science, Veterinary Science And Zoology Keywords: Peruvian paso horse; heritability; genetic correlations; repeatability; overreach; term; acuteness

Online: 11 March 2024 (09:47:24 CET)

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Preprint ARTICLE | doi:10.20944/preprints202401.0658.v1

Kinetic Study of Fig Syrup Fermentation by Genetically Modified Saccharomyces cerevisiae Yeast Sstrains. A Physicochemical Approach to the Yeast Strain Life Cycle

Konstantina Kassoumi, Dimitrios Sevastos, Athanasia Koliadima

Subject: Biology And Life Sciences, Food Science And Technology Keywords: alcoholic fermentation; kinetic study; yeast life cycle; genetic modification; Saccharomyces cerevisiae; reversed flow gas chromatography; kinetic study; rate constants; activation energy; fig syrup

Online: 9 January 2024 (10:32:20 CET)

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Preprint ARTICLE | doi:10.20944/preprints201811.0297.v1

Development of a Transformation Method for Metschnikowia borealis and Other CUG-Serine Yeasts

Zachary Gordon, Maximillian P. M. Soltysiak, Christopher Leichthammer, Jasmine A. Therrien, Rebecca S. Meaney, Carolyn Lauzon, Matthew Adams, Dong Kyung Lee, Preetam Janakirama, Marc-Andre Lachance, Bogumil J. Karas

Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: genome engineering; synthetic biology; yeasts; Metschnikowia; genetic tools; DNA delivery; CUG-Ser

Online: 13 November 2018 (05:17:45 CET)

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Preprint REVIEW | doi:10.20944/preprints202202.0042.v1

Utilizing Genomic Selection for Wheat Population Development and Improvement

Lance F. Merrick, Andrew W. Herr, Karansher S. Sandhu, Dennis N. Lozada, Arron H. Carter

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: plant breeding; two-part strategy; recurrent selection; population improvement; product development; optimization; genetic gain; cross-prediction

Online: 2 February 2022 (18:07:58 CET)

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Preprint ARTICLE | doi:10.20944/preprints202202.0077.v1

Genetics of Externalizing Behavior and Structural Brain Development in Adolescence

Jalmar Teeuw, Marieke Klein, Nina Roth Mota, Rachel M. Brouwer, Dennis van 't Ent, Zyneb Al-Hassaan, Barbara Franke, Dorret I. Boomsma, Hilleke E. Hulshoff Pol

Subject: Social Sciences, Behavior Sciences Keywords: externalizing behavior; adolescence; gray matter volume; white matter integrity; heritability; genetic correlation; longitudinal; magnetic resonance imaging

Online: 4 February 2022 (15:07:45 CET)

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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 ARTICLE | doi:10.20944/preprints202407.0440.v1

Stefania Melini, Giovanna Trinchese, Adriano Lama, Fabiano Cimmino, Filomena Del Piano, Federica Comella, Nicola Opallo, Antonio Leo, Rita Citraro, Luigia Trabace, Giuseppina Mattace Raso, Claudio Pirozzi, Maria Pina Mollica, Rosaria Meli

Subject: Medicine And Pharmacology, Endocrinology And Metabolism Keywords: genetic animal model; epilepsy; mitochondrial bioenergetics; oxidative damage; sex-dependent alterations; neonatal infections

Online: 4 July 2024 (14:41:01 CEST)

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Preprint CASE REPORT | doi:10.20944/preprints202403.1661.v2

A Case Report of Acute Lymphoblastic Leukaemia (ALL)/Lymphoblastic Lymphoma (LBL) Following the Second Dose of Comirnaty®: An Analysis of the Potential Pathogenic Mechanism Based on of the Existing Literature

Patrizia Gentilini, Janci C. Lindsay, Nafuko Konishi, Masanori Fukushima, Panagis Polykretis

Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: COVID-19 genetic vaccines; mRNA vaccines; adverse effects; lymphoblastic leukemia; lymphoblastic lymphoma

Online: 1 April 2024 (13:21:50 CEST)

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In this report we describe the case of a healthy, young, athletic woman who developed acute lymphoblastic leukaemia (ALL)/lymphoblastic lymphoma (LBL) after receiving the second dose of the Pfizer/BioNTech modified mRNA (modRNA) COVID-19 genetic vaccine (marketed as Comirnaty^®). The first dose of the genetic vaccine did not appear to illicit any noticeable side effects, but within 24 hours of the second dose the patient suffered widespread and intensifying bone pain, fever, vomiting, and general malaise. Due to the persistence of the symptoms, the patient underwent a series of tests and examinations including a full laboratory workup, a consult with a clinical immunologist and rheumatologist, a Positron Emission Tomography (PET) imaging, as well as an osteomedullary biopsy. These together led to a definitive diagnosis of ALL. A time interval of 16 weeks from the second vaccination to the diagnosis of cancer was noted. Several similar cases with identical pathology which developed after the modRNA COVID-19 vaccination, are described in case reports in the scientific literature. The massive and indiscriminate use of genetic vaccines to fight COVID-19 is raising serious concerns about their safety and about the technology platform as a whole for this purpose. Growing evidence is accumulating regarding the biodistribution and persistence of the modRNA which can reach, thanks to the lipid nanoparticles, a multitude of tissues and organs of the body, including the bone marrow and other blood-forming organs and tissues. Moreover, there is evidence that the modRNA vaccines display a particular tropism for the bone marrow, influencing the immune system at multiple levels and being able to trigger not only autoimmune-based pathologies, but also neoplastic mechanisms. The aim of this article is to assess, on the basis of the available scientific literature, the risk of developing haematopoietic cancers after modRNA vaccination, and to investigate the potential genetic mechanisms involved in the pathogenesis of disease.

Preprint ARTICLE | doi:10.20944/preprints202404.0103.v1

Studying the Effect of Host Genetic Background of Juvenile Polyposis Development using Collaborative Cross and Smad4 Knock-out Mouse Models

Osayd Zohud, Kareem Midlej, Iqbal M. Lone, Aysar Nashef, Imad Abu El-naaj, FUAD A. IRAQI

Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: Juvenile Polyposis Syndrome; Smad4 knockout; Collaborative Cross; Host Genetic background.; Machine Learning

Online: 1 April 2024 (15:02:41 CEST)

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Preprint REVIEW | doi:10.20944/preprints202104.0105.v1

Development of Therapies for Rare Genetic Disorders of GPX4: Roadmap and Opportunities

Dorian Cheff, Alysson Muotri, Brent Stockwell, Edward Schmidt, Qitao Ran, Reena Kartha, Simon Johnson, Plavi Mittal, Elias Arnér, Kristen Wigby, Matthew Hall, Sanath Ramesh

Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: Sedaghatian-type Spondylometaphyseal Dysplasia; SSMD; glutathione peroxidase 4; GPX4; rare genetic disorder; therapy development; roadmap; ultra-rare disease

Online: 5 April 2021 (11:57:03 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202405.0329.v1

Strategies for Breeding Programs to Reduce Post-harvest Water Loss in Fresh Market Peppers

Rego ER, Finger FL, Pessoa AMS, Silva Anderson Rodrigo da, Azevedo AA, Meira RMSA, da Silva ALBR, Silva RS, Rêgo MM

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: shelf life; genetic effects; diallel; narrow sense heritability

Online: 7 May 2024 (08:17:38 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202205.0292.v1

Meier-Gorlin Syndrome: Clinical Misdiagnosis as Jeune Syndrome, Genetic Testing and Functional Analysis of ORC6 Mutations and the Development of a Prenatal Test

Maria S. Nazarenko, Iuliia V. Viakhireva, Mikhail Y. Skoblov, Elena V. Soloveva, Aleksei A. Sleptcov, Ludmila P. Nazarenko

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Meier-Gorlin syndrome; Jeune syndrome; ORC6; exon skipping variant; prenatal genetic testing

Online: 23 May 2022 (10:18:24 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202305.1440.v1

Development of an Accurate Polymerase Chain Reaction (PCR) Assay for Genetic Sex Identification in Lumpfish (Cyclopterus lumpus) based on Male-specific anti-Mullerian Hormone (amh) Gene

Kasidis Chaiyasut, Paul Merviel, Peter Palma, Johanna Perschthaler, Eduardo Jimenez Fernandez, Andrew Davie, Alejandro P. Gutierrez

Subject: Biology And Life Sciences, Animal Science, Veterinary Science And Zoology Keywords: Anti-Müllerian hormone; Cyclopterus lumpus; Male-specific marker; Genetic sex identification

Online: 19 May 2023 (11:36:20 CEST)

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Preprint CASE REPORT | doi:10.20944/preprints202401.1175.v1

The Importance of Offering Exome or Genome Sequencing in Adult Neuromuscular Clinics

Laynie Dratch, Tanya M Bardakjian, Kelsey Johnson, Nareen Babaian, Pedro Gonzalez-Alegre, Lauren Elman, Colin Quinn, Michael H Guo, Steven S Scherer, Defne A Amado

Subject: Medicine And Pharmacology, Neuroscience And Neurology Keywords: Neurogenetics; genetic testing; genetic counseling; neuromuscular

Online: 16 January 2024 (06:25:11 CET)

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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/preprints202012.0160.v1

Functional T Cell Reactivity to Melanocyte Antigens is Lost During Development of Malignant Melanoma, but is Restored with Successful Immunotherapy

Paul Lehmann

Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: melanoma; genetic whole cell therapeutic melanoma vaccine (AGI-101H); CD8+ T cells; melanoma antigens; ELISPOT

Online: 7 December 2020 (13:53:31 CET)

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Preprint ARTICLE | doi:10.20944/preprints202404.0389.v1

Toward Enhanced Seed Potato Yield: Exploring Ultrasonication Techniques in Agricultural Engineering

Piotr Pszczółkowski, Barbaś Piotr, Alaa K. Farhan, Barbara Krochmal-Marczak, Barbara Sawicka

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Cultivation technology; Agricultural engineering; Piezoelectric transducers; Genetic traits; Environmental conditions; Climate adaptation; Ultrasonication; Seed potato

Online: 5 April 2024 (08:23:38 CEST)

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Preprint REVIEW | doi:10.20944/preprints202405.1320.v1

Most Relevant Genetic, Hormonal, and Environmental Factors in Ovarian Cancer Development – A Literature Review

Alicja Florczak, Aleksandra Królikowska, Mateusz Mazurek, Sławomir Woźniak, Zygmunt Domagała

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Ovarian cancer; Genetic factors; Hormonal factors; Environmental factors; BRCA mutations; DNA repair mechanisms; Hormone therapy; Tumor suppressor genes; Gynecologic cancer

Online: 21 May 2024 (15:01:23 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202303.0481.v1

IRAPs in Combination with Highly Informative ISSRs Confer Effective Potentials for Genetic Diversity and Fidelity Assessment in Rhododendron

Sulin Wen, Hong Zhao, Manying Zhang, Guang Qiao, Xiaohui Shen

Subject: Biology And Life Sciences, Plant Sciences Keywords: genetic fidelity; genetic diversity; IRAP; ISSR; Rhododendron

Online: 28 March 2023 (09:56:04 CEST)

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Preprint REVIEW | doi:10.20944/preprints202407.1531.v1

Pregnancy Planning and Genetic Testing: Exploring Advantages, and Challenges

Ulf Kristoffersson, Maria Johansson-Soller

Subject: Medicine And Pharmacology, Obstetrics And Gynaecology Keywords: Pregnancy planning and genetic testing; preconception genetic testing; genetic disorders; reproductive healthcare; genetic counselling; ethical and societal considerations

Online: 18 July 2024 (16:48:50 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202407.2528.v1

Development and Application of Microsatellite Markers for Genetic Diversity Assessment and Construction of a Core Collection of Myrciaria dubia Germplasm from the Peruvian Amazon

Juan C. Castro, Stalin J. Vasquez-Guizado, Bianca E. Vigil, Francisco Ascue, Naysha Rojas-Villa, Jae D. Paredes, Marianela Cobos, Carlos G. Castro, Daniel E. Motta, Pedro M. Adrianzen, Sixto A. Imán, J. Dylan Maddox

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Amazonian crop; ex situ conservation; core collection; molecular markers; plant genetic resources; simple sequence repeats

Online: 31 July 2024 (10:22:45 CEST)

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The Amazonian shrub Myrciaria dubia (Kunth) McVaugh, known as "camu-camu", produces vitamin C-rich fruits of growing commercial interest. However, sustainable utilization requires assessment and protection of the genetic diversity of the available germplasm. We hypothesized that the ex situ M. dubia germplasm bank assembled from eight river basins across the Peruvian Amazon would harbor substantial genetic diversity and have a genetic population structure. This study aimed to (1) develop new polymorphic microsatellite markers, (2) characterize genetic diversity and validate the hypothesis in the ex situ germplasm, and (3) construct a core subset representing maximum allelic variability. Sixteen polymorphic microsatellite loci were developed using an enrichment approach. The evaluation of 336 genotypes from 43 accessions originating from eight river basins of the germplasm bank corroborated this hypothesis, revealing high gene diversity, with observed heterozygosity ranging from 0.468 to 0.644 and expected heterozygosity from 0.684 to 0.817 at the river basin level. Analysis of molecular variance showed a higher genetic variation within accessions and river basins, at 73% and 86%, respectively, than among accessions and river basins, at 27% and 14 %, respectively. Bayesian clustering detected the presence of ten genetic clusters, with several degrees of admixture among river basins. The Putumayo River basin showed a clear genetic homogeneity. A core collection of 84 genotypes was constructed, thus covering 86.7% of the global allelic diversity. These results have important implications for M. dubia conservation strategies and breeding programs, in demonstrating a need for genetic connectivity between populations but preserving unique genetic resources in isolated basins. These results validate the expected levels of diversity and population subdivision in a crop and stress the need to secure genetically diverse germplasms, underscoring the importance of thorough genetic characterization for ex situ germplasm management.

Preprint ARTICLE | doi:10.20944/preprints202311.1357.v1

Revisiting Classical Controllers Design and Tuning with Genetic Programming

Carlos A. García, Manel Velasco, Cecilio Angulo, Pau Marti, Antonio Camacho

Subject: Engineering, Control And Systems Engineering Keywords: genetic algorithm; genetic programming; control design; control tuning

Online: 22 November 2023 (07:49:09 CET)

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Preprint ARTICLE | doi:10.20944/preprints202309.1532.v1

Adapt the Parameters of RBF Networks 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; Genetic programming; Grammatical evolution

Online: 22 September 2023 (08:37:54 CEST)

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Preprint REVIEW | doi:10.20944/preprints202007.0583.v1

A Systematic Review on Extreme Phenotype Strategies to Search for Rare Variants in Genetic Studies of Complex Disorders

Sana Amanat, Teresa Requena, Jose Antonio Lopez-Escamez

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: genetic association studies; extreme phenotype; genetic epidemiology; tinnitus

Online: 24 July 2020 (13:43:00 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202408.0968.v1

Genetic Evaluation of Monthly Test Day Milk Yields of Jersey Crossbred Cattle under Farmers’ Production System in Tamil Nadu, India

D. Kasiviswanathan, P. Devendran, R. Venkataramanan, S. Meenakshi Sundaram, G. Senthil Kumar, Sunday. O. Peters

Subject: Biology And Life Sciences, Animal Science, Veterinary Science And Zoology Keywords: Jersey crossbred cattle; Genetic correlation; Heritability; Random regression; REML; Test day milk yield

Online: 14 August 2024 (00:38:20 CEST)

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Tamil Nadu, a state in southern India, is bereft of any native milch or dual-purpose cattle breed and the state depends chiefly on crossbred cattle for milk production. As most (90 percent) of the milk production in the state was contributed by Jersey crossbred cattle, the genetic evaluation study was intended to assess the milk production traits viz., test-day milk yields (TDMYs), total milk yield (TMY) and 305-day milk yield (305MY) in these crossbred cattle reared under farmers’ rearing environment. Data on monthly TDMYs (TDMY1 to TDMY10) of Jersey crossbred cows (n=81,653) reared by the farmers over 24 years (1999-2022) were collected for evaluation. The influence of non-genetic factors viz., location (agroclimatic zones), period and season of calving, and parity on TDMYs, TMY, and 305MY were assessed, and the variance and covariance components for genetic parameters (heritability and genetic correlation) of the traits were estimated by the method of restricted maximum likelihood (REML) under multivariate animal model and by random regression model (RRM). The overall means of various TDMYs ranged from 4.98 (TDMY10) to 9.95 kg (TDMY2) and, for TMY and 305MY the means were 2480.33 and 2393.71 kg respectively. The heritabilities estimated by animal model for TDMYs were high and ranged from 0.39 ± 0.01 to 0.47 ± 0.01 and were fairly less variable throughout the lactation while the estimates obtained by RRM were medium to high and ranged between 0.28 ± 0.01 and 0.65 ± 0.02 for different days in milk (DIMs). The heritability estimated for TMY and 305MY were 0.48 ± 0.01 and 0.49 ± 0.01 respectively. The estimates of heritability in mid-lactation yields were comparatively little less than those at the beginning and the end of lactation. The high estimates of heritabilities for TDMYs, TMY, and 305MY obtained in the present study offered an ample scope for improving milk production through selective breeding. Genetic correlations between TDMYs estimated by animal model were positive and moderate to high, with a range between 0.47 ± 0.01 and 0.99 ± 0.00. Considerably higher estimates (0.97-0.99) were observed between adjacent TDMYs showing strong genetic associations. By RRM, genetic correlations estimated between DIMs were positive, except for a few estimates and the magnitude of genetic correlation decreased with an increase in the interval between the DIMs. The high genetic correlation observed between the TDMYs in early and mid stages of lactation with TMY and 305MY suggested that these test day yields could be used favorably for the early selection of cows for milk production which facilitates reduction in the generation interval and consequently increase the annual genetic gain for the milk production traits.

Preprint ARTICLE | doi:10.20944/preprints202311.1729.v1

Assessment of Diversity and Genetic Variability of Guava (Psidium guajava) by Means of Microsatellite Markers in Montería, Córdoba-Colombia

Enrique Pardo-Perez, Elizabeth Ramos-Rivero, Luis Causil-Vargas

Subject: Biology And Life Sciences, Life Sciences Keywords: genetic diversity; genetic variability; microsatellites; allele frequencies; population structure

Online: 28 November 2023 (08:08:48 CET)

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Working Paper ARTICLE

Operationalising Forensic Genetic Genealogy in an Australian Context

Nathan Scudder, Runa Daniel, Jennifer Raymond, Alison Sears

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: forensic genetic genealogy; investigative genetic genealogy; DNA; forensic DNA

Online: 1 August 2020 (16:29:22 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.0010.v1

Genetic Diversity and Population Structure of the Invasive Oriental Fruit Fly, Bactrocera dorsalis (Diptera: Tephritidae) in Burkina Faso

Nouhoun Traoré, Mahamadi Kientega, Hamidou Maïga, Karim Nebié, Issaka Zida, Roberto Galizi, Emmanuel Kiendrebeogo, Bazoumana BD Sow, Adrien M. G. Belem, Remy A. Dabiré, Abdoulaye Diabaté

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: genetic diversity; genetic structure; microsatellite markers; Bactrocera dorsalis; Burkina Faso

Online: 1 March 2024 (07:57:48 CET)

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Preprint ARTICLE | doi:10.20944/preprints202312.1083.v1

Prevalence of Genetic Variants and Deep Phenotyping of Patients with Thoracic Aortic Aneurysm and Dissection: A Cross-Sectional Single Centre Cohort Study

Adrian Mahlmann, Nesma Elzanaty, Mai Saleh, Marc Irqsusi, Ardawan Rastan, Jennifer Lynne Leip, Christian-Alexander Behrendt, Tamer Ghazy

Subject: Medicine And Pharmacology, Cardiac And Cardiovascular Systems Keywords: thoracic aortic disease; phenotype; genetic mutation; genetic variant; aneurysm; dissection

Online: 14 December 2023 (12:14:50 CET)

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Preprint CONCEPT PAPER | doi:10.20944/preprints202011.0387.v1

Genetic Music: When Genes Code for Melodies Instead of Proteins

Marga Consortium, Blanca A. Gutierrez, Iván Aitor Lucas del-Amo, Beatriz Alejos Bermudez, Cristina Gonzalez Moran, Veronica Noval Gutierrez, Borja Sanchez

Subject: Social Sciences, Anthropology Keywords: genetic music; genetic code; music composition; steam disciplines; notch1 gene

Online: 13 November 2020 (15:34:47 CET)

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Preprint ARTICLE | doi:10.20944/preprints201707.0047.v1

Genetic Structure and Eco-Geographical Differentiation of Wild Sheep Fescue (Festuca ovina L.) in Xinjiang, Northwest China

Chenglin Zhang, Jianbo Zhang, Yan Fan, Ming Sun, Wendan Wu, Wenda Zhao, Xiaopeng Yang, Linkai Huang, Yan Peng, Xiao Ma, Xinquan Zhang

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Festuca ovina L.; AFLP, genetic diversity; genetic barriers; environmental factors

Online: 18 July 2017 (10:05:56 CEST)

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Preprint REVIEW | doi:10.20944/preprints202404.0711.v1

Unlocking glioblastoma vulnerabilities with CRISPR-based genetic screening

Yitong Fang, Xing Li, Ruilin Tian

Subject: Biology And Life Sciences, Cell And Developmental Biology Keywords: glioblastoma; CRISPR-based genetic screening; therapy resistance; genetic determinants; therapeutic targets

Online: 10 April 2024 (08:14:36 CEST)

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Preprint REVIEW | doi:10.20944/preprints202012.0738.v1

Utility of Whole-Exome Sequencing in Pediatric and Medical Diagnosis

Mohd Fareed, Varun Sharma, Hemender Singh

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Next generation sequencing; Genetic disorders; Genomic medicine; Genetic counseling; Rare diseases

Online: 29 December 2020 (16:47:01 CET)

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Preprint REVIEW | doi:10.20944/preprints202012.0144.v1

Genetic Environments of Plasmid-Mediated bla_CTXM-15beta-lactamase gene in Enterobacteriaceae from Africa

Babafela Awosile, Michael Agbaje

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Antimicrobial resistance; blaCTX-M-15; genetic environment; mobile genetic elements; Africa

Online: 7 December 2020 (12:49:16 CET)

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Preprint ARTICLE | doi:10.20944/preprints202312.1346.v1

Bibliometric Analysis on Genetic Factors of Osteoarthritis Pathogenesis: Characteristics and Trends from 2014 to 2023

Yangguang Lu, Feitian Ni, Yiran Bu, Jialing Lou, Bohuai Yu, Hongzhi Zhang, Haoyang Li, Yige Zhang, Hantao Hu, Di Lu

Subject: Medicine And Pharmacology, Orthopedics And Sports Medicine Keywords: bibliometrics; genetic factors; Osteoarthritis

Online: 18 December 2023 (13:42:11 CET)

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Preprint ARTICLE | doi:10.20944/preprints202106.0710.v1

Genetic Algorithm Based Feature Selection Technique for Optimal Intrusion Detection

Sydney Mambwe Kasongo

Subject: Engineering, Automotive Engineering Keywords: Intrusion Detection; Genetic Algorithm

Online: 29 June 2021 (13:30:30 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202407.1705.v1

MixDeR: A SNP Mixture Deconvolution Workflow for Forensic Genetic Genealogy

Rebecca Mitchell, Michelle Peck, Erin Gorden, Rebecca Just

Subject: Biology And Life Sciences, Other Keywords: mixtures; SNPs; forensic genetic genealogy (FGG); investigative genetic genealogy (IGG); Kintelligence; software

Online: 24 July 2024 (14:45:02 CEST)

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Preprint REVIEW | doi:10.20944/preprints202001.0276.v1

Genetic Variation of Traits in Natural Enemies Relevant for Biological Control: A Systematic Review

Kim B. Ferguson, Sophie R. Chattington, Wouter N. Plouvier, Bart A. Pannebakker

Subject: Biology And Life Sciences, Insect Science Keywords: genetic improvement; genetic variation; heritability; systematic review; biocontrol agent; life history traits

Online: 24 January 2020 (10:39:55 CET)

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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/preprints202405.1663.v1

Genetic Algorithm based optimization of Clustering Algorithms for the Healthy Aging Dataset

Kahkashan Kouser, Amrita Priyam, Mansi Gupta, Sanjay Kumar, VANDANA BHATTACHARJEE

Subject: Computer Science And Mathematics, Artificial Intelligence And Machine Learning Keywords: Genetic Algorithms; Clustering; KMeans++; optimization

Online: 27 May 2024 (10:05:29 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/preprints202301.0075.v1

Deep Network Optimization Using a Genetic Algorithm for Recognizing Hand Gestures via EMG Signals

Kasra Sehat, Seyed Mohammadreza Shokouhyan, Nada K. Abdallah, Kinda Khalaf

Subject: Computer Science And Mathematics, Artificial Intelligence And Machine Learning Keywords: EMG; optimization; genetic algorithm; deep learning

Online: 4 January 2023 (09:21:39 CET)

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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/preprints202405.1280.v1

Enhancing Drought and Arsenic Resistance in Oryza sativa by Hyperexpression of Aquaporin Genes

Prisha Bhat

Subject: Environmental And Earth Sciences, Environmental Science Keywords: Arsenic contamination; Rice arsenic; genetic augmentation; bioremediation

Online: 20 May 2024 (12:53:55 CEST)

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Preprint REVIEW | doi:10.20944/preprints202405.0592.v1

Progress and Application of Genomic Selection in Sheep and Goat

Linyun Zhang, Yixin Duan, Naiyi Xu, Yongju Zhao

Subject: Biology And Life Sciences, Animal Science, Veterinary Science And Zoology Keywords: Goat; Sheep; Genomic Selection; Genetic Evaluation; Accuracy

Online: 9 May 2024 (11:57:38 CEST)

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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/preprints202310.2104.v1

Optimization of Dual-Design Operation Ventilation System Network Based on Improved Genetic Algorithm

Yanbo Feng, Han Zhu, Xiwen Feng, Qianru Chen, Xiangyu Sun, Zhengrong Li

Subject: Engineering, Architecture, Building And Construction Keywords: ventilation system networks; design optimization; genetic algorithm

Online: 1 November 2023 (03:55:34 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/preprints202309.0114.v1

Design and Multi-Objective Optimization of a Photovoltaic System by a Genetic Algorithm

Khadidjatou Thiaw, Amadou Diao, Amy Sadio, Senghane Mboji

Subject: Physical Sciences, Applied Physics Keywords: photovoltaic system; LPSP; TLCC; optimization; genetic algorithm

Online: 4 September 2023 (03:50:12 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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