Genome-Wide Association Study towards Genomic Predictive Power for High Production and Quality of Milk in American Alpine Goats by Y. Tilahun, T. A. Gipson, T. Alexander, M. L. McCallum, P. R. Hoyt

“…Genotypes were identified with the Illumina Goat 50K single-nucleotide polymorphisms (SNP) BeadChip. The analysis used a polygenic model where the dropping criterion was a call rate≥0.95. …”
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Modern issues of sugar beet (<i>Beta vulgaris</i> L.) hybrid breeding by S. D. Karakotov, I. V. Apasov, A. A. Nalbandyan, E. N. Vasilchenko, T. P. Fedulova

“…As shown by molecular analysis, a single-nucleotide polymorphism never reported hitherto is present in the mitochondrial genome of the haploid plant regenerants. …”
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Sample Size and Statistical Power Calculation in Genetic Association Studies by Eun Pyo Hong, Ji Wan Park

“…An analysis using a larger number of markers requires a larger sample size. Testing a single-nucleotide polymorphism (SNP) marker requires 248 cases, while testing 500,000 SNPs and 1 million markers requires 1,206 cases and 1,255 cases, respectively, under the assumption of an odds ratio of 2, 5% disease prevalence, 5% minor allele frequency, complete linkage disequilibrium (LD), 1:1 case/control ratio, and a 5% error rate in an allelic test. …”
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GWAS of a soybean breeding collection from South East and South Kazakhstan for resistance to fungal diseases by A. Zatybekov, S. Abugalieva, S. Didorenko, A. Rsaliyev, Y. Turuspekov

“…GWAS using 4 442 SNP (single nucleotide polymorphism) markers of Illumina iSelect array allowed for identification of fifteen marker trait associations (MTA) resistant to the three diseases at two different stages of growth. …”
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Exceptional Enlargement of the Mitochondrial Genome Results from Distinct Causes in Different Rain Frogs (Anura: Brevicipitidae: Breviceps) by Keitaro Hemmi, Ryosuke Kakehashi, Chiaki Kambayashi, Louis Du Preez, Leslie Minter, Nobuaki Furuno, Atsushi Kurabayashi

“…Furthermore, a high nucleotide substitution rate and relaxation of selective pressures, which are considered to be involved in changes in genome size, were also detected in afrobatrachian lineages. …”
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Dissecting the genetic basis of fruiting efficiency for genetic enhancement of harvest index, grain number, and yield in wheat by Dipendra Shahi, Jia Guo, Md Ali Babar, Sumit Pradhan, Muhsin AVCI, Jordan McBreen, Zhao Liu, Guihua Bai, Paul St. Amand, Amy Bernardo, Matthew Reynolds, Gemma Molero, Sivakumar Sukumaran, John Foulkes, Jahangir Khan

“…To understand the genetic architecture of FE and TGW, we performed a genome-wide association study (GWAS) in a panel of 236 US soft facultative wheats that were phenotyped in three experiments at two locations in Florida and genotyped with 20,706 single nucleotide polymorphisms (SNPs) generated from genotyping-by-sequencing (GBS). …”
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<i>Bacillus anthracis</i> strain differentiation based on SNP and VNTR loci by E. A. Anisimova, N. A. Fakhrutdinov, D. A. Mirgazov, E. A. Dodonova, I. A. Elizarova, M. E. Gorbunova, N. I. Khammadov, L. I. Zainullin, K. A. Osyanin

“…Modern methods of molecular biology make it possible to detect a number of genetic markers suitable for indicating and differentiating the strains of B. anthracis, including the loci arranged as variable number tandem repeats (VNTRs) and SNPs, one nucleotide-sized differences in the DNA sequence of the loci being compared. …”
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The SERPINB4 gene mutation identified in twin patients with Crohn’s disease impaires the intestinal epithelial cell functions by Xiao-Mei Ouyang, Jun-Hui Lin, Ying Lin, Xian-Ling Zhao, Ya‐Ni Huo, Lai-Ying Liang, Yong-Dong Huang, Gui-Jing Xie, Peng Mi, Zhen-Yu Ye, Bayasi Guleng

“…Therefore, we studied a wider clinical cohort of patients with CD or ulcerous colitis (UC), healthy individuals, and those with a family history of CD for this mutation by Sanger sequencing. The single-nucleotide difference in the SERPINB4 gene, which was unique to the twin patients with CD, led to the substitution of lysine by a glutamic acid residue. …”
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Massive subcutaneous filariosis by Filaria martis in beech marten (Martes foina) in Italy by Giovanni Sgroi, Ranju Ravindran Santhakumar Manoj, Ettore Napoli, Nicola D'Alessio, Maria Gabriella Lucibelli, Claudio de Martinis, Esterina De Carlo, Peyman Khademi, Alireza Sazmand, Vincenzo Veneziano

“…All the filarioids were identified as Filaria martis via morphology and Sanger sequencing of the cytochrome c oxidase subunit I (cox1) gene that revealed a single sequence type (GenBank accession number PQ034642) having 100 % nucleotide identity with those available in the literature. …”
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Combining Individual‐Based Radio‐Tracking With Whole‐Genome Sequencing Data Reveals Candidate for Genetic Basis of Partial Migration in a Songbird by Matthias H. Weissensteiner, Kira Delmore, Valentina Peona, Juan Sebastian Lugo Ramos, Gregoire Arnaud, Julio Blas, Bruno Faivre, Ivan Pokrovsky, Martin Wikelski, Jesko Partecke, Miriam Liedvogel

“…We estimated genetic differentiation (FST) of single‐nucleotide variants (SNVs) in 2.5 kb windows between all possible population and migratory phenotype combinations, and focused our characterization on birds from the partial migratory population in Germany. …”
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Cis‐Regulation of an m6A Eraser by an Insertion Variant Associated with Survival of Patients With Non‐Small Cell Lung Carcinoma by Lei Cheng, Qiangsheng Hu, Yanan Wang, Wei Nie, Haijiao Lu, Bo Zhang, Genming Zhao, Shiyun Ding, Feng Pan, Yinchen Shen, Runbo Zhong, Ruoxin Zhang

“…Here, 7273 expression quantitative trait loci potentially regulating 30 m6A pathway genes are identified from the GTEx database, with 69 single nucleotide polymorphisms significantly associated with survival of non‐small cell lung carcinoma (NSCLC) patients (n = 1523) from the ongoing genome‐wide association study after false positive probability tests. …”
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Sterol‐Targeted Laboratory Evolution Allows the Isolation of Thermotolerant and Respiratory‐Competent Clones of the Industrial Yeast Saccharomyces cerevisiae by Isabel‐Elena Sánchez‐Adriá, Jose A. Prieto, Gemma Sanmartín, Miguel Morard, Estéfani García‐Ríos, Francisco Estruch, Francisca Randez‐Gil

“…Genome sequencing and ploidy‐level analysis of all strains revealed aneuploidies, copy number variations (CNVs), and single nucleotide polymorphisms (SNPs). Notably, all evolved clones exhibited specific point mutations in MPM1 (P50S) and PDR1 (F749S). …”
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A genome-wide association study identifies genetic variants associated with hip pain in the UK Biobank cohort (N = 221,127) by Qi Pan, Yiwen Tao, Tengda Cai, Abi Veluchamy, Harry L. Hebert, Peixi Zhu, Mainul Haque, Tania Dottorini, Lesley A. Colvin, Blair H. Smith, Weihua Meng

“…We found seven different loci associated with hip pain at GWAS significance level, with the most significant single nucleotide polymorphism (SNP) being rs77641763 within the EXD3 (p value = 2.20 × 10–13). …”
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Some Common SNPs of the T-Cell Homeostasis-Related Genes Are Associated with Multiple Sclerosis, but Not with the Clinical Manifestations of the Disease, in the Polish Population by Monika Chorąży, Natalia Wawrusiewicz-Kurylonek, Edyta Adamska-Patruno, Olga Zajkowska, Katarzyna Kapica-Topczewska, Renata Posmyk, Adam Jacek Krętowski, Jan Kochanowicz, Alina Kułakowska

“…Methods. 94 subjects with MS and 160 healthy individuals have been genotyped for seven common single-nucleotide variants in IL-2RA, CTLA4, CD40, and PADI4 genes. …”
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Combined metabolomics and 16S rDNA sequence analyses of the gut microbiome reveal the action mechanism of Fructus Akebiae against hepatic fibrosis by Rong-Rong Wu, Duo-Rui Nie, Fang-Hui He, Zhi-Hang Li, Fei Xu, Fei Xu, Fei Xu

“…Additionally, metabolomic analysis showed that FAE treatment reversed the CCl4-induced metabolic disorders by regulating amino and nucleotide sugar metabolism. Furthermore, correlation analysis showed that Akkermansia and Verrucomicobiota were closely related to D-tolasaccharide and maltotetraose saccharide. …”
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Comparative plastome analyses and evolutionary relationships of 25 East Asian species within the medicinal plant genus Scrophularia (Scrophulariaceae) by Xia Wang, Lei Guo, Lulu Ding, Leopoldo Medina, Ruihong Wang, Pan Li

“…Through genome alignment of these 25 species, 38-53 repeated sequences and 7 shared SSRs were identified, along with regions with high nucleotide polymorphism (Pi), which could potentially serve as molecular markers for species identification. …”
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Association Study between Novel CYP26 Polymorphisms and the Risk of Betel Quid-Related Malignant Oral Disorders by Shyh-Jong Wu, Yun-Ju Chen, Tien-Yu Shieh, Chun-Ming Chen, Yen-Yun Wang, Kun-Tsung Lee, Yueh-Ming Lin, Pei-Hsuan Chien, Ping-Ho Chen

“…Because the CYP26 polymorphisms associated with malignant oral disorders are not well known, we conducted an association study on the associations between the single nucleotide polymorphisms (SNP) of CYP26 families and the risks of malignant oral disorders. …”
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Fine-mapping of PmHHM, a broad-spectrum allele from a wheat landrace conferring both seedling and adult resistance to powdery mildew by Bisheng Fu, Bisheng Fu, Bisheng Fu, Zhixin Lin, Lijuan Yan, Qiaofeng Zhang, Caiyun Liu, Caiyun Liu, Jin Cai, Jin Cai, Wei Guo, Wei Guo, Ying Liu, Wenling Zhai, Shuangjun Gong, Feng Xu, Jizhong Wu, Jizhong Wu, Jizhong Wu

“…Four genes were identified in the target region, three of which encode nucleotide-binding leucine-rich repeat (NLR) proteins. …”
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Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysis by Anamika Khanal, Anamika Khanal, So-Ra Han, So-Ra Han, So-Ra Han, Jun Hyuck Lee, Tae-Jin Oh, Tae-Jin Oh, Tae-Jin Oh, Tae-Jin Oh

“…Enzymes associated with various stress adaptation pathways, including oxidative stress (superoxide dismutase, catalase, and thiol peroxidase), osmotic stress (OmpR), temperature stress (Csp and Hsp), and heavy metal resistance, were also identified. The average Nucleotide Identity (ANI) value is found to be below the threshold of 94-95%, indicating this bacterium might be a potential new species. …”
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Genomic epidemiology and antimicrobial resistance of Morganella clinical isolates between 2016 and 2023 by Wentao Zhu, Qian Liu, Jinlv Liu, Jinlv Liu, Yaqi Wang, Yaqi Wang, Hong Shen, Ming Wei, Ji Pu, Li Gu, Jing Yang, Jing Yang, Jing Yang

“…While, the average nucleotide identity between these groups showed only 91.5-92.2% similarity, raising the possibility that they may be distinct species. …”
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