Testing the Purity of <i>Limnospira fusiformis</i> Cultures After Axenicity Treatments by Michael Schagerl, Alexander Kaptejna, Fabian Polz, Sameh S. Ali, Shuhao Huo, Joana Seneca, Petra Pjevac, Vera Hechtl

“…Contamination was also verified by cultivation-independent methods like flow cytometry and 16S rRNA genome amplicon sequencing. We detected taxa of the phyla Proteobacteria, Bacteriodota, Firmicutes and to a lesser extent Verrucomicrobiota. …”
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Profiling the response of individual gut microbes to free fatty acids (FFAs) found in human milk by Megan E. Waller, Alyssa Gutierrez, Taylor D. Ticer, Janiece S. Glover, John E. Baatz, Carol L. Wagner, Melinda A. Engevik, Katherine E. Chetta

“…., suppressed at 1 % but enhanced at 0.01 %. Our genome analyses suggest that pathobiont survival may be related to the number of gene copies for fatty acid transporters. …”
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Identification of an ethylene-responsive and cell wall-secreting β-1,3-glucanase, VvGLU1, in the early cell regrowth of grape winter buds triggered by exogenous dormancy releasers by Zhaowan Shi, Jiamin Wu, Hairuo Mo, Weiwen Xue, Zhaoqi Zhang, Xuequn Pang

“…Forty-eight VvGLUs distributed in clades α, β, and γ were identified and nominated based on the genome data of V. vinifera. Three γ-clade VvGLUs (VvGLU1, VvGLU16, and VvGLU32) were upregulated by dormancy-releasing stimuli, including HC, sodium azide (AZ), ethylene and hypoxia. …”
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DNA methylation of ACADS promotes immunogenic cell death in hepatocellular carcinoma by Ze Qian, Yifan Jiang, Yacong Wang, Yu Li, Lin Zhang, Xiaofeng Xu, Diyu Chen

“…Methods and results Using RNA sequencing data from different tumours in The Cancer Genome Atlas database, we observed that ACADS was downregulated and hypermethylated in HCC. …”
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Phenotypic insights into genetic risk factors for immune-related adverse events in cancer immunotherapy by Haochuan Ma, Dili Song, Haibo Zhang, Taidong Li, Xing Jin

“…Methods Utilizing publicly accessible genome-wide association study (GWAS) data, this investigation evaluated the impact of over 5000 exposure variables on susceptibility to irAEs using univariate Mendelian randomization (MR). …”
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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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Identification of a cryptic unbalanced translocation Der(22)t(12;22)(q24.33;q13.33) in a large Chinese family with Phelan-McDermid syndrome by nanopore sequencing by Xingwu Wu, Qiang Xu, Ge Chen, Jialyv Huang, Yanying Zhong, Lifeng Tian, Qiongfang Wu, Jia Chen

“…According to the guidelines of the American Society for Medical Genetics and Genomics (ACMG), the 22q13.33 microdeletion was classified as pathogenic, whereas the 12q24.33 microduplication was classified as a variant of uncertain significance (VUS). …”
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A chemical genetic screen with the EXO70 inhibitor Endosidin2 uncovers potential modulators of exocytosis in Arabidopsis by Xiaohui Li, Diwen Wang, Xianglin Yin, Mingji Dai, Christopher J. Staiger, Chunhua Zhang

“…This approach led to the identification of 70 ES2‐hypersensitive mutants, named es2s. Through a whole‐genome sequencing‐based mapping strategy, 14 nonallelic es2s mutants were mapped and the candidate mutations reported here. …”
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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

“…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). …”
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Analysis of Prostate Cancer Susceptibility Variants in South African Men: Replicating Associations on Chromosomes 8q24 and 10q11 by Pedro Fernandez, Muneeb Salie, Danielle du Toit, Andre van der Merwe

“…Genome-wide association studies (GWAS) have implicated single nucleotide polymorphisms (SNPs) on chromosomes 2p15, 6q25, 7p15.2, 7q21, 8q24, 10q11, 10q26, 11q13, 17q12, 17q24, 19q13, and Xp11, with prostate cancer (PCa) susceptibility and/or tumour aggressiveness, in populations of African, European, and Asian ancestry. …”
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Causal associations between socioeconomic status and prostate cancer using two-sample Mendelian randomization study by Zhenxing Wang, Chunyan Wang, Xing Gou, Liang Pei, Xiaoyuan Qiao

“…Genetic variants were extracted from publicly available genome-wide association studies (GWAS) under stringent threshold as instrumental variables (IVs). …”
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The immune-related gene CD5 is a prognostic biomarker associated with the tumor microenvironment of breast cancer by Yi Zhao, Hengheng Zhang, Wenwen Wang, Guoshuang Shen, Miaozhou Wang, Zhen Liu, Jiuda Zhao, Jinming Li

“…In this study, we obtained the RNA-seq data of 1086 patients from The Cancer Genome Atlas (TCGA) database. We calculated the proportions of tumor-infiltrating immune cells (TICs) and immune and stromal components using the CIBERSORT and ESTIMATE methods, and we screened differentially expressed genes (DEGs). …”
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De novo assembly and analysis of the transcriptome of the Siberian wood frog Rana amurensis by D. N. Smirnov, S. V. Shekhovtsov, A. A. Shipova, G. R. Gazizova, E. I. Shagimardanova, N. A. Bulakhova, E. N. Meshcheryakova, T. V. Poluboyarova, E. E. Khrameeva, S. E. Peltek, D. I. Berman

“…Little is known about the mechanisms of this remarkable resilience, in part because studies of amphibian genomes are impeded by their large size. To make the Siberian wood frog more amenable for genetic analysis, we performed transcriptome sequencing and de novo assembly for the R. amurensis brain under hypoxia and normoxia, as well as for the normoxic heart. …”
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Causal Associations Between the Gut Microbiota and Hypertension‐Related Traits Through Mendelian Randomization: A Cross‐Sectional Cohort Study by Yunfan Tian, Mingxia Gu, Dazhong Chen, Quanbin Dong, Yifeng Wang, Wei Sun, Xiangqing Kong

“…This study investigates the potential causal association between gut microbiota and hypertension‐related traits using Mendelian randomization with summary data from genome‐wide association studies. The inverse‐variance weighted method revealed that the Clostridium innocuum group (Odds ratio [OR]: 1.0047, 95% confidence interval [CI]: 1.0004–1.0090, p = 0.0336), Eubacterium fissicatena group (OR: 1.0047, 95% CI: 1.0005–1.0088, p = 0.0266), Lachnospiraceae FCS020 group (OR: 1.0063, 95% CI: 1.0004–1.0122, p = 0.0361), and Olsenella (OR: 1.0044, 95% CI: 1.0001–1.0088, p = 0.0430) were associated with an increased risk of hypertension. …”
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Development of <i>Aspergillus oryzae</i> BCC7051 as a Robust Cell Factory Towards the Transcriptional Regulation of Protease-Encoding Genes for Industrial Applications by Sarocha Panchanawaporn, Chanikul Chutrakul, Sukanya Jeennor, Jutamas Anantayanon, Kobkul Laoteng

“…Here, we improved food-grade <i>Aspergillus oryzae</i> BCC7051 by manipulating the transcriptional regulation of protease-encoding genes. Genome mining of the transcription factor <i>AoprtR</i> and computational analysis confirmed its deduced amino acid sequence sharing evolutionary conservation across <i>Aspergillus</i> and <i>Penicillium</i> spp. …”
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Phylogenetic analysis of dermatophytes isolated from small domestic animals by A. M. Smagulova, E. V. Kukhar, T. I. Glotova, A. G. Glotov

“…The comparative analysis of the genomes of the Microsporum and Trichophyton fungi and reference strains revealed a relatively low level of intraspecies polymor- phism and point mutations of the sequences. …”
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Polymorphisms in Adipokines in Mexican Children with Obesity by Angélica Saraí Jiménez-Osorio, Alma Olivia Aguilar-Lucio, Helios Cárdenas-Hernández, Claudette Musalem-Younes, Jacqueline Solares-Tlapechco, Paula Costa-Urrutia, Oscar Medina-Contreras, Julio Granados, Martha Eunice Rodríguez-Arellano

“…We propose to investigate the contribution of adipokines and cytokines polymorphisms and common BMI/obesity-associated loci, revealed in genome-wide association studies in Caucasian adult cohorts, with childhood obesity. …”
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Presence of the Anopheles culicifacies complex species A in southeast Iran by Seyed Massoud Madjdzadeh, Nahid Behi, Mohammad Amin Gorouhi, Arsalan Amirkafi, Mohammad Ali Oshaghi

“…DNA was extracted from mosquito specimens, and the D3 region of the 28S rDNA gene and a segment of the COII gene from the mitochondrial genome (mtDNA) were targeted for amplification and sequencing. …”
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Resistance-Associated Substitutions (RAS) and Clinical Factors as Determinants of Sofosbuvir-Daclatasvir Treatment Outcomes in Chronic Hepatitis C Patients by Juferdy Kurniawan, Anugrah Dwi Handayu, Gita Aprilicia, Darlene Raudhatul Bahri, Irsan Hasan

“…One particular concern associated with treatment failure is the emergence of resistance associated substitutions (RASs) in the genome. The occurrence of RASs highlights the adaptability and resilience of the HCV. …”
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Using Adipose Measures from Health Care Provider-Based Imaging Data for Discovery by Elliot D. K. Cha, Yogasudha Veturi, Chirag Agarwal, Aalpen Patel, Mohammad R. Arbabshirani, Sarah A. Pendergrass

“…Sex-combined and sex-stratified association testing was done between adipose measures and 1,233 disease diagnoses and 37 clinical laboratory measures. A genome-wide association study (GWAS) for adipose measures was also performed. …”
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