Genetics of aging and longevity by A. A. Moskalev, E. N. Proshkina, A. A. Belyi, I. A. Solovyev

“…Genes and signaling pathways that regulate stress response, metabolism, growth of cells and organism, maintaining of genome and proteome integrity, qualitative and quantitative mitochondria composition, inflammatory response, apoptosis and selection of viable cells, as well as circadian rhythms were considered. …”
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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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Nucleotide Sequencing and Identification of Some Wild Mushrooms by Sudip Kumar Das, Aninda Mandal, Animesh K. Datta, Sudha Gupta, Rita Paul, Aditi Saha, Sonali Sengupta, Priyanka Kumari Dubey

“…The rDNA-ITS (Ribosomal DNA Internal Transcribed Spacers) fragment of the genomic DNA of 8 wild edible mushrooms (collected from Eastern Chota Nagpur Plateau of West Bengal, India) was amplified using ITS1 (Internal Transcribed Spacers 1) and ITS2 primers and subjected to nucleotide sequence determination for identification of mushrooms as mentioned. …”
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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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A novel ready-to-use loop-mediated isothermal amplification (LAMP) method for detection of Burkholderia mallei and B. pseudomallei by Mitsuru Nakase, Jeewan Thapa, Vanaabaatar Batbaatar, Ochirbat Khurtsbaatar, Batchuluun Enkhtuul, Jugderkhorloo Unenbat, Baasansuren Lkham, Sachiho Fujita, Ai Koshikawa, Apichai Tuanyok, Vannarat Saechan, Hideaki Higashi, Kyoko Hayashida, Yasuhiko Suzuki, Chie Nakajima, Takashi Kimura

“…Results The primer set targeting the internal transcribed spacer (ITS) region detected 10 genomic copies of B. mallei DNA and B. pseudomallei DNA using the conventional liquid LAMP method. …”
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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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CDK9 Expression Shows Role as a Potential Prognostic Biomarker in Breast Cancer Patients Who Fail to Achieve Pathologic Complete Response after Neoadjuvant Chemotherapy by Ashley J. Schlafstein, Allison E. Withers, Soumon Rudra, Diana Danelia, Jeffrey M. Switchenko, Donna Mister, Saul Harari, Hui Zhang, Waaqo Daddacha, Shahrzad Ehdaivand, Xiaoxian Li, Mylin A. Torres, David S. Yu

“…Cyclin-dependent kinase 9 (CDK9) is often dysregulated in breast cancer, and its deficiency results in genomic instability. We reviewed the records of 84 breast cancer patients from Emory University’s Winship Cancer Institute who had undergone surgical resection after NACT and had tissue available for tissue microarray analysis (TMA). …”
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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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Isolation and Molecular Identification of Lactic Acid Bacteria Using 16s rRNA Genes from Fermented Teff (Eragrostis tef (Zucc.)) Dough by Belay Tilahun, Anteneh Tesfaye, Diriba Muleta, Andualem Bahiru, Zewdu Terefework, Gary Wessel

“…A total of 24 purified bacterial isolates were found to be Gram-positive (they are coccus and rod under microscope) and were good acid producers. Genomic DNA of bacterial isolates were extracted using Invisorb® Spin DNA Extraction kit. 16S rRNA of bacterial isolates were amplified using the bacteria universal primers (rD1 and fD1). …”
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How do we measure the costs, benefits, and harms of sharing data from biomedical studies? A protocol for a scoping review [version 2; peer review: 2 approved] by Lauren Maxwell, Ankur Krishnan, Priya Shreedhar

“…Introduction The benefits of sharing participant-level data, including clinical or epidemiological data, genomic data, high-dimensional imaging data, or human-derived samples, from biomedical studies have been widely touted and may be taken for granted. …”
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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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Isolation and Characterization of Colistin-Resistant <i>Enterobacteriaceae</i> from Foods in Two Italian Regions in the South of Italy by Rosa Fraccalvieri, Angelica Bianco, Laura Maria Difato, Loredana Capozzi, Laura Del Sambro, Stefano Castellana, Adelia Donatiello, Luigina Serrecchia, Lorenzo Pace, Donatella Farina, Domenico Galante, Marta Caruso, Maria Tempesta, Antonio Parisi

“…The majority of the isolates belonged to <i>Enterobacter</i> spp. (60%), followed by <i>Moellerella wisconsensis</i>, <i>Atlantibacter hermannii</i>, <i>Klebsiella pneumoniae</i>, and <i>Escherichia coli</i>, among others. Genomic sequencing and antimicrobial susceptibility testing revealed high levels of resistance to β-lactams, with most isolates exhibiting multidrug resistance (MDR). …”
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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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