GGCX promotes Eurasian avian-like H1N1 swine influenza virus adaption to interspecies receptor binding by Jiahui Zou, Meijun Jiang, Rong Xiao, Huimin Sun, Hailong Liu, Thomas Peacock, Shaoyu Tu, Tong Chen, Jinli Guo, Yaxin Zhao, Wendy Barclay, Shengsong Xie, Hongbo Zhou

“…In this study, we conduct a comprehensive genome-wide CRISPR/Cas9 knockout screen utilizing EA H1N1 SIV in porcine kidney cells. …”
Get full text

A multigene phylogeny toward a new phylogenetic classification of Leotiomycetes by Peter R. Johnston, Luis Quijada, Christopher A. Smith, Hans-Otto Baral, Tsuyoshi Hosoya, Christiane Baschien, Kadri Pärtel, Wen-Ying Zhuang, Danny Haelewaters, Duckchul Park, Steffen Carl, Francesc López-Giráldez, Zheng Wang, Jeffrey P. Townsend

“…Included in the dataset are genes that were extracted from 72 of the genomes available for the class, including 10 new genomes released with this study. …”
Get full text

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

“…The clones were categorised into two groups based on their respiratory competence or deficiency, the latter associated with mtDNA loss, an event seemingly linked to FCNZ and heat tolerance. Genome sequencing and ploidy‐level analysis of all strains revealed aneuploidies, copy number variations (CNVs), and single nucleotide polymorphisms (SNPs). …”
Get full text

Understanding the educational inequalities in suicide attempts and their mediators: a Mendelian randomisation study by Jing Wang, Ye Yang, Rui Gao, Lilu Ding, Jiahao Zhu, Dan Zhou, Yingjun Li, Houpu Liu

“…Elucidating modifiable risk factors that serve as intermediaries in the impact of low educational attainment on suicide has the potential to reduce health disparities.Aims To examine the risk factors that mediate the relationship between educational attainment and suicide attempts and quantify their contributions to the mediation effect.Methods We conducted a two-sample Mendelian randomisation (MR) analysis to estimate the causal effect of educational attainment on suicide attempts, utilising genome-wide association study summary statistics from the Integrative Psychiatric Research (iPSYCH; 6024 cases and 44 240 controls) and FinnGen (8978 cases and 368 299 controls). …”
Get full text

Transcriptomic analysis of Andrias davidianus meat and experimental validation for exploring its bioactive components as functional foods by Changge Guan, Zhenglin Tan, Shucheng Li, Yi Wang, Naoyuki Yamamoto, Chong Zhang, Songjun Wang, Junjie Chen, Xin-Hui Xing

“…However, the progress of functional peptides mining was slow due to lack of reference genome and protein sequence data. In this study, we illustrated full-length transcriptome sequencing to interpret the proteome of CGS meat and obtain 10703 coding DNA sequences. …”
Get full text

Rice–Potato Rotation Pattern Affects 2-Acetyl-1-Pyrroline Biosynthesis and Productivity in Aromatic Rice Grains by Fengqin Hu, Congcong Shen, Dehao Feng, Shuangbing Zhu, Jian Lu, Jianqiang Zhu, Xianjin Qiu, Kai Chen, Bin Du, Jianlong Xu

Get full text

Novel adaptive immune systems in pristine Antarctic soils by Marc W. Van Goethem, Oliver K. I. Bezuidt, Rian Pierneef, Surendra Vikram, David W. Hopkins, Thomas Aspray, Grant Hall, Stephan Woodborne, Ian D. Hogg, Trent R. Northen, Weidong Kong, Daniele Daffonchio, Don A. Cowan, Yves Van de Peer, Manuel Delgado-Baquerizo, Thulani P. Makhalanyane

“…Our analysis reveals the prevalence of prophages in bacterial genomes (Bacteroidota and Verrucomicrobiota), suggesting the significance of lysogenic infection strategies in Antarctic soils. …”
Get full text

Identification of Interactive Genetic Loci Linked to Insulin Resistance in Metabolic Syndrome—An Update by Imadeldin Elfaki, Rashid Mir, Mohamed E. Elnageeb, Abdullah Hamadi, Zeyad M. Alharbi, Ruqaiah I. Bedaiwi, Jamsheed Javid, Tariq Alrasheed, Dalal Alatawi, Basmah M. Alrohaf, Mohammed K. Abunab, Turki Ahmed Muqri

“…Insulin resistance is associated with metabolic syndrome, which is a risk factor for a number of pathological conditions, such as Type 2 diabetes (T2D), cardiovascular disease (CVD), nonalcoholic fatty liver disease (NAFLD), and polycystic ovarian syndrome (PCOS). Genome-wide association studies have increased our understanding of many loci linked to these diseases and others. …”
Get full text

A meta-analysis of MHC diversity in Pan troglodytes verus by Christelle Vangenot, Alicia Sanchez‑Mazas

“…In humans, this system, also called HLA, is one of the most polymorphic regions of the genome and is consequently very informative to study peopling history. …”
Get full text

RETRACTED ARTICLE: NR3C2 affects the proliferation and invasiveness of colon cancer cells through the Wnt/β-Catenin signaling pathway by Ke Nie, Zhong-Jiang He, Ling-Jun Kong

“…Method mRNA (messenger RNA) data and clinical records pertaining to colon cancer were retrieved from The Cancer Genome Atlas (TCGA) database. The analysis of NR3C2 expression discrepancies between normal colon and tumor tissues was conducted using R software. …”
Get full text

Comprehensive Analysis of Competing Endogenous RNA Network Focusing on Long Noncoding RNA Involved in Cirrhotic Hepatocellular Carcinoma by Yuli Zhang, Dinggui Chen, Miaomiao Yang, Xianfeng Qian, Chunmei Long, Zhongwei Zheng

“…The lncRNA, miRNA, and mRNA expression datasets were obtained from Gene Expression Omnibus and The Cancer Genome Atlas. Based on miRanda and TargetScan, the HCC-specific ceRNA network was constructed to illustrate the coexpression regulatory relationship of lncRNAs, miRNAs, and mRNAs. …”
Get full text

Genetic variation reveals the therapeutic potential of BRSK2 in idiopathic pulmonary fibrosis by Zhe Chen, Mingyang Tang, Nan Wang, Jiangjiang Liu, Xiaoyan Tan, Haitao Ma, Jing Luo, Kai Xie

“…Methods We employed Mendelian randomization (MR) with three genome-wide association studies and four quantitative trait loci datasets to identify key driver genes for IPF. …”
Get full text

Genetic evidence for the causal effect of clonal hematopoiesis on pulmonary arterial hypertension by Jia-Yong Qiu, Shen-Shen Huang, Chao Liu, Dong Ding, Yan-Hong Xu, Yi-Min Mao, Ya-Dong Yuan

“…Methods We utilized genetic variants associated with CH as instrumental variables, identified from two large genome-wide association studies (GWAS) involving 359,088 participants in the discovery cohort and 184,121 participants in the validation cohort, all of European descent. …”
Get full text

Gut microbial 3α‐hydroxysteroid dehydrogenase promotes depression in males via degrading testosterone by Di Li, Jingru Cheng, Wei Zhang, Pengfei Cheng, Yuan He, Jinghan Jia, Chao Wang, Zhongchun Liu, Zhou Sun, Jinxi Wang

“…We found that A. koreensis administration in mice led to reduced serum testosterone levels and depression‐like behaviors, which were improved by antibiotic treatment. Using whole genome sequencing, the gene mediating testosterone degradation in A. koreensis was identified and annotated as 3α‐hydroxysteroid dehydrogenase (3α‐HSD). …”
Get full text

Causal associations of Helicobacter pylori infection and metabolic syndrome: insights from a two-sample Mendelian randomization study by Hongwei Wang, Fangying Tian, Caizheng Yang, Xinyu Cui, Yongxia Ding, Ming Zhao, Xueyu Wang, Shanshan Ge

“…Summary statistics for outcome factors (MetS) were obtained from the most comprehensive genome-wide association study (GWAS) currently available (n = 291,107) as well as from the components of MetS: fasting glucose (n = 46,186), hypertension (n = 461,880), serum triglycerides (n = 115,082), waist circumference (n = 21,949), and high-density lipoprotein (n = 400, 754). …”
Get full text

Production of β-lactoglobulin (BLG) gene knock- out blastocyst stage embryos of Indian water buffalo using CRISPR and SCNT technology by Aseem Tara, Priyanka Singh, Devika Gautam, Gaurav Tripathi, Shreya Malhotra, Sacchinandan De, Manoj K. Singh, Naresh L. Selokar

“…With the development of biotechnology, especially genome editing tools (CRISPRs), it is possible to generate new value-added products such as designer hypoallergenic milk for human health benefits. …”
Get full text

Identification and Verification of Novel Biomarkers Involving Rheumatoid Arthritis with Multimachine Learning Algorithms: An In Silicon and In Vivo Study by Fucun Liu, Juelan Ye, Shouli Wang, Yang Li, Yuhang Yang, Jianru Xiao, Aimin Jiang, Xuhua Lu, Yunli Zhu

“…Mechanically, CRTAM could also be involved in the progression through immune dysfunction, fatty acid metabolism, and genomic instability across several cancer subtypes. …”
Get full text

Prognostic models of immune-related cell death and stress unveil mechanisms driving macrophage phenotypic evolution in colorectal cancer by Hao Liu, Chuhan Zhang, Sanfei Peng, Yuhan Yin, Yishi Xu, Sihan Wu, Liping Wang, Yang Fu

“…Furthermore, we performed enrichment analyses and deconvolution algorithms to elucidate the complex interactions between immune cell infiltration and the processes of PCD and stress within a substantial array of transcriptomic data from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus data base (GEO) related to CRC. …”
Get full text

Phylogeography and genetic diversity of Ulmus elongata (Ulmaceae), a Tertiary relict tree with extremely small populations (PSESP) by Yakun Wang, Xiankun Wang, Junyuan Wu, Jun Yang, Yanpei Liu, Peng Guo, Fude Shang, Nan Lin

“…Utilizing chloroplast genome datasets, we found that U. elongata exhibited remarkably low nucleotide diversity and gene flow (π = 0.00013, Nm = 0.03). …”
Get full text

Flunarizine as a Candidate for Drug Repurposing Against Human Pathogenic Mammarenaviruses by Chukwudi A. Ofodile, Ikemefuna C. Uzochukwu, Fortunatus C. Ezebuo, InnocentMary Ejiofor, Mercy Adebola, Innocent Okpoli, Beatrice Cubitt, Haydar Witwit, Chetachi B. Okwuanaso, Ngozi Onyemelukwe, Juan Carlos de la Torre

“…We used in silico docking approaches to investigate the binding affinities of 2015 existing drugs to LASV proteins known to play critical roles in the formation and activity of the virus ribonucleoprotein complex (vRNP) responsible for directing replication and transcription of the viral genome. Validation of docking protocols were achieved with reference inhibitors of the respective targets. …”
Get full text