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Generation and characterization of zebrafish f9l mutant confirmed that f9l is f10 like gene.
Blood Coagul Fibrinolysis
December 2024
Department of Biological Sciences, University of North Texas, Denton, Texas, USA.
Aim: This study aimed to create an f9l mutant zebrafish using clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 (Cas9) and characterize its coagulation properties to investigate its functional similarity to human FX and explore the potential synergy between f9l and f10.
Methods: Three gRNAs targeting exon 8 encoded by the catalytic domain of the f9l gene were injected into 300 single-cell zebrafish embryos using CRISPR/Cas9 technology. DNA from the resulting adults was extracted from tail tips, and PCR was used to detect indels.
Genetic diversity and polymorphism of genes associated with meat quality and growth traits of A Luoi Yellow cattle in Vietnam.
Vet World
October 2024
Department of Animal Science, Faculty of Animal Science and Veterinary Medicine, University of Agriculture and Forestry, Hue University, Hue City, Vietnam.
Article Synopsis
- - The study focuses on A Luoi Yellow cattle, a native breed in Vietnam known for its small size, adaptability, and high-quality meat, aiming to enhance breeding genetics using marker-assisted selection for better meat quality and livestock sustainability.
- - Researchers analyzed six key genes related to meat quality using PCR techniques and also explored genetic diversity through mitochondrial DNA and Y chromosome analysis.
- - Results revealed both paternal and maternal origins for the cattle, identified new mtDNA haplotypes, and showed the presence of favorable genetic traits that could support future breeding efforts for improved meat tenderness and overall productivity.
Integer programming framework for pangenome-based genome inference.
bioRxiv
October 2024
Department of Computational and Data Sciences, Indian Institute of Science, Bangalore KA 560012, India.
Affordable genotyping methods are essential in genomics. Commonly used genotyping methods primarily support single nucleotide variants and short indels but neglect structural variants. Additionally, accuracy of read alignments to a reference genome is unreliable in highly polymorphic and repetitive regions, further impacting genotyping performance.
View Article and Find Full Text PDFAssociation of nuclear factor-kappa B1 (NF-κB1) Ins/Del gene polymorphism with Hepatitis C virus outcomes.
J Pak Med Assoc
October 2024
Institute of Genetic Engineering and Biotechnology, University of Baghdad, Iraq.
Objective: To explore the association of nuclear factor-kappa B1 polymorphism in the promotor area of the gene with hepatitis C virus infection outcomes.
Methods: The case-control study was conducted at the Hepatology and Gastroenterology Teaching Hospital, Baghdad, Iraq, from Dec 1, 2020, to Aug 30, 2021, and comprised individuals ages 20-68 years. Group 1 had patients with persistent hepatitis C virus infection, group 2 had subjects with spontaneous hepatitis C virus clearance, group 3 had subjects treated with direct-acting antiviral drugs, and group 4 had healthy controls.
Highly accurate assembly polishing with DeepPolisher.
bioRxiv
September 2024
Google Inc, Mountain View, CA, USA.
Article Synopsis
- Accurate genome assemblies are crucial for biological research, but they often have errors due to the technologies used, necessitating polishing steps to correct these mistakes.
- The new model, DeepPolisher, utilizes Pacbio HiFi read alignments and a method called PHARAOH to improve sequences by accurately addressing haplotypes and correcting errors in areas previously thought to be homozygous.
- Testing DeepPolisher on 180 assemblies from the Human Pangenome Reference Consortium showed a significant reduction in assembly errors, achieving an average improvement of 54% in error reduction with a predicted Quality Value increase of 3.4.
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