Genetic Analysis of Sodium Channel Genes in Pediatric Epilepsy Patients of Pakistan by Aqsa Ashfaq, Tayyaba Saleem, Nadeem Sheikh, Hafsa Maqbool

“…The DNA was isolated, amplified by PCR, and then, was run through 1% agarose gel. The sequencing was performed, and the sequences were observed through BioEdit software for any change in DNA sequence. …”
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Genome assembly of the grassland caterpillar Gynaephora qinghaiensis by Youpeng Lai, Shan Xiao, Minggang Qin, Xinhai Ye, Fang Wang, Qi Fang

“…In this study, we present a genome assembly of one grassland caterpillar Gynaephora qinghaiensis by using Oxford Nanopore long-read and BGI short-read sequencing. The genome assembly of 861.04 Mb in size consists of 107 contigs, with a contig N50 size of 18.65 Mb. …”
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Using Genome-Wide SNP Discovery and Genotyping to Reveal the Main Source of Population Differentiation in Nothofagus dombeyi (Mirb.) Oerst. in Chile by Rodrigo Hasbún, Jorge González, Carolina Iturra, Glenda Fuentes, Diego Alarcón, Eduardo Ruiz

“…The study of demographic and selection histories in Nothofagus dombeyi requires more informative markers such as single nucleotide polymorphisms (SNP). Genotyping-by-Sequencing tools now allow studying thousands of SNP markers at reasonable prices in nonmodel species. …”
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Transcriptomics-based investigation of resistance differences to swine fever between large white pigs and min pigs by Jia Li, Deming Ren, Xiangxu Meng, Yiyun He, Lixian Wang, Xihui Sheng, Ligang Wang

“…In this study, whole blood samples were collected from pre- and post- swine fever vaccinated Min and Large White pigs for transcriptome sequencing. The mRNA and lncRNA in both pig breeds were analyzed, and intra-group and inter-group comparisons were also conducted. …”
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Small Extracellular Vesicles Derived from Human Umbilical Cord Mesenchymal Stem Cells Enhanced Proangiogenic Potential of Cardiac Fibroblasts via Angiopoietin-Like 4 by Jiejie Li, Xin Xu, Suyan Fei, Ren Wang, Hua Wang, Wei Zhu, Yuanyuan Zhao

“…We isolated primary CFs from Sprague-Dawley rats (1–3 days old) and treated them with lipopolysaccharide (LPS) and LPS+sEVs. RNA sequencing analysis revealed that angiopoietin-like 4 (Angptl4) was increased in the LPS+sEVs group more than in the LPS group. …”
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Comprehensive RNA-seq analysis of benign prostatic hyperplasia (BPH) in rats exposed to testosterone and estradiol by Xiao-Hu Tang, Zhi-Yan Liu, Jing-Wen Ren, Heng Zhang, Ye Tian, Jian-Xin Hu, Zhao-Lin Sun, Guang-Heng Luo

“…Then, RT-qPCR confirmed the authenticity of sequencing results. The analysis results showed that Kif4a and Mki67 were the top core genes in the PPI network. …”
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Diversity and Species Composition of Midgut Symbiotic Bacteria in Culex quinquefasciatus Mosquitoes in Gampaha District, Sri Lanka by Randi Hathnagoda, Pinidi Gunathilake, Thilini Buddhinee, Pabasara Welgama, Hasini Gunarathna, Harshani Perera, Koshila Ranasinghe

“…Subsequently, the most abundant bacterial families were subjected to DNA extraction, PCR amplification, and gene sequencing for species identification. The study revealed the presence of four bacterial families (Staphylococcaceae, Streptococcaceae, Neisseriaceae, and Moraxellaceae) in adult mosquitoes, while larvae harbored an additional family, Micrococcaceae. …”
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SOX5-Null Heterozygous Mutation in a Family with Adult-Onset Hyperkinesia and Behavioral Abnormalities by Michael Zech, Katharina Poustka, Sylvia Boesch, Riccardo Berutti, Tim M. Strom, Wolfgang Grisold, Werner Poewe, Juliane Winkelmann

“…Here a novel SOX5 loss-of-function point mutation, c.13C>T (p.Arg5X), is reported, identified in the course of exome sequencing applied to the diagnosis of an unexplained adult-onset motor disorder. …”
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Pond Water eDNA Reflects Broad Consistency with Surrounding Terrestrial Plant Ecosystems by Duygu Bozdogan, Shogo Takizawa, Norihiro Furukori, Kosuke Homma, Harue Abe, Hitoshi Sakio, Naoki Harada, Kazuki Suzuki

“…Water samples were collected four times from two ponds with different vegetation types during the late spring to autumn seasons in Japan. eDNA was extracted from dissolved particles fractionated by sequential filtration through pore sizes of 200 µm, 5 µm, and 0.45 µm, followed by high-throughput amplicon sequencing targeting the plant rbcL gene. By comparing field surveys with the eDNA data, we identified 79% and 63% of plant families and genera, respectively, suggesting that pond water eDNA may reflect the surrounding terrestrial plant ecosystem. …”
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Ankrd1 as a potential biomarker for the transition from acute kidney injury to chronic kidney disease by Hailin Li, Lemei Hu, Changqing Zheng, Ying Kong, Ming Liang, Quhuan Li

“…In this study, we used single-nucleus RNA sequencing data from GEO database (GSE139107) to identify molecular markers during the transition from AKI to CKD caused by IRI. …”
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Evaluation of Faecal Microbiota Following Probiotics in Infants of Mothers with Gestational Diabetes Mellitus Trial: Protocol for Double-Blind Placebo-Controlled Randomized Trial by Gayatri Athalye-Jape, Chandra Prakash Rath, Harshad Panchal, Archita Mishra, Dorothy Graham, Sanjay Patole

“…Faecal microbiome composition shall be estimated using 16SrRNA and shotgun sequencing. The secondary outcomes will include the quantification of faecal short-chain fatty acids at birth and at four months, as well as growth and developmental assessments at four, twelve, and twenty-four months. (3) Trial registration: This trial protocol is registered (ACTRN12624000930583p) in the Australian Clinical Trials registry (ANZCTR).…”
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Genomic characterization of antimicrobial-resistance and virulence factors in Salmonella isolates obtained from pig farms in Antioquia, Colombia. by María Isabel García-Álvarez, Juana L Vidal, Pilar Donado-Godoy, Jared Smith, Nikki Shariat, María Fernanda Valencia, Luis M Gómez-Osorio, Sara López-Osorio, Jenny J Chaparro-Gutiérrez

“…A total of 28 isolates of Salmonella spp. were included, which presented phenotypic resistance to more than one antibiotic used in pig farms. Whole genome sequencing (WGS) was performed in the Unit of Genomic of Agrosavia using an automated pipeline from the GHRU- Sanger Institute, employing the Illumina MiSeq platform.…”
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Aweak phenotype associated with novel ABO*A allele variant c.106delinsGG by Sanmukh Ratilal Joshi, Glenda Millard, Mayuri Vekariya, Priya Radadiya, Manisha Rajapara, Hiren Dhanani, Gaurav Shastri, Prabhat Sharma, Brett Wilson, Yew-Wah Liew

“…MATERIALS AND METHODS: Standard serological methods were employed using commercial antisera. The molecular sequencing was performed on DNA with enrichment library prep kit and a custom designed overlapping probe panel. …”
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High-Risk Genotypes Associated with Poor Response to Controlled Ovarian Stimulation in Indian Women by Anuradha Udumudi, K. Chaitra Lava, Vandana Hegde

“…Materials and Methods: A total of 312 females were included in the study comprising 212 women with infertility and 100 controls. Next-generation sequencing technology was employed to sequence multiple genes associated with response to COS. …”
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Transcriptome Analysis Reveals Complex Defensive Mechanisms in Salt-Tolerant and Salt-Sensitive Shrub Willow Genotypes under Salinity Stress by Dezong Sui, Baosong Wang

“…To delve into the salt tolerance mechanism and screen out salt-tolerant genes, two shrub willow cultivars (a salt-sensitive genotype JW9-6 and a salt-tolerant genotype JW2372) at three time points (0, 2, and 12 h) after NaCl treatments were used for RNA sequencing. A comparative analysis between genotypes and time points showed 1,706 differentially expressed genes (DEGs), of which 1,029 and 431 DEGs were only found in the JW9-6 and JW2372, respectively. …”
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Comparison of In Silico Tools for Splice-Altering Variant Prediction Using Established Spliceogenic Variants: An End-User’s Point of View by Woori Jang, Joonhong Park, Hyojin Chae, Myungshin Kim

“…Assessing the impact of variants of unknown significance on splicing has become a critical issue and a bottleneck, especially with the widespread implementation of whole-genome or exome sequencing. Although multiple in silico tools are available, the interpretation and application of these tools are difficult and practical guidelines are still lacking. …”
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Antifouling activity of bacterial extracts associated with soft coral and macroalgae from the Red Sea by Tunkal Rabab Ibrahim, Jamal Mamdoh T., Abdulrahman Idris, Pugazhendi Arulazhagan, Satheesh Sathianeson

“…The bacteria were identified using 16S rRNA gene sequencing, and the culture supernatant extract of each strain was evaluated for antibiofilm activity. …”
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Comprehensive analysis of cuproptosis-related genes in immune infiltration and development of a novel diagnostic model for acute kidney injury by Yajing Li, Yingxue Ding

“…Our study aimed to investigate the involvement of cuproptosis-related genes (CRGs) in AKI.Methods Identification of CRGs was conducted using differential expression analysis, and subsequent Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were conducted using human sequencing profiles. Utilizing CIBERSORT algorithm, receiver operating characteristic (ROC) curve analysis, nomogram development, and decision curve analysis (DCA), the association among immune scores, CRGs, and the diagnostic value of these genes was explored.Results Notably, six CRGs (FDX1, DLD, DLAT, DBT, PDHA1, and ATP7A) were identified as significant differentiators between AKI and non-AKI groups. …”
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Improved 11α-hydroxycanrenone production by modification of cytochrome P450 monooxygenase gene in Aspergillus ochraceus by Li Qianqian, Shi Li, Liu Yingying, Guan Shimin, Zhang Shuo, Cai Baoguo, Rong Shaofeng

“…To improve the efficiency of 11α-hydroxycanrenone production, the CYP monooxygenase-coding gene of MF018 was predicted and cloned based on whole-genome sequencing results. A recombinant A. ochraceus strain MF010 with the high expression of CYP monooxygenase was then obtained through homologous recombination. …”
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Antibiotic resistance gene occurrence in poultry farms in northeast Brazil by Henrique Francisco de Almeida, Paulo Ricardo Conceição Marques Trindade, César Roberto Viana Teixeira, Claudson Oliveira Brito, Silvio Santana Dolabella, Sona Jain, Maíra Pompeu Martins, Ana Andréa Barbosa

“…Some of the sequences that were amplified by PCR were similar to resistance factors found in Gram-positive and Gram-negative bacteria of different species, mostly enterobacteria. …”
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