GWAS Identifies SNP Markers and Candidate Genes for Off-Flavours and Protein Content in Faba Bean (<i>Vicia faba</i> L.) by Antonio Lippolis, Boudewijn Hollebrands, Valentina Acierno, Catrienus de Jong, Laurice Pouvreau, João Paulo, Salvador A. Gezan, Luisa M. Trindade

“…To dissect their genetic architecture, we performed a genome-wide association study (GWAS). A total of 245 faba bean accessions (the CGN population) were genotyped using the 90K-SPET targeted assay. …”
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Assessment of Antibiotic Resistance and Efflux Pump Gene Expression in Neisseria Gonorrhoeae Isolates from South Africa by Quantitative Real-Time PCR and Regression Analysis by Nireshni Mitchev, Ravesh Singh, Veron Ramsuran, Arshad Ismail, Mushal Allam, Stanford Kwenda, Florah Mnyameni, Nigel Garrett, Khine Swe Swe-Han, Abraham J. Niehaus, Koleka P. Mlisana

“…This study investigated the expression profile of antibiotic resistance-associated genes (penA, ponA, pilQ, mtrR, mtrA, mtrF, gyrA, parC, parE, rpsJ, 16S rRNA, and 23S rRNA) and efflux pump genes (macAB, norM, and mtrCDE), by quantitative real-time PCR, in clinical isolates from KwaZulu-Natal, South Africa. Whole-genome sequencing was used to determine the presence or absence of mutations. …”
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Prioritization of potato genes involved in the formation of agronomically valuable traits using the SOLANUM TUBEROSUM knowledge base by P. S. Demenkov, O. V. Saik, T. V. Ivanisenko, N. A. Kolchanov, A. V. Kochetov, V. A. Ivanisenko

“…The development of highly efficient technologies in genomics, transcriptomics, proteomics and metabolomics, as well as new technologies in agriculture has led to an “information explosion” in plant biology and crop production, including potato production. …”
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Impact of commercial gut health interventions on caecal metagenome and broiler performance by Gladys Maria Pangga, Banaz Star-Shirko, Androniki Psifidi, Dong Xia, Nicolae Corcionivoschi, Carmel Kelly, Callie Hughes, Ursula Lavery, Anne Richmond, Umer Zeeshan Ijaz, Ozan Gundogdu

“…Results Using a binning strategy, 84 (≥ 75% completeness, ≤ 5% contamination) metagenome-assembled genomes (MAGs) from 118 caecal samples were recovered and annotated for their metabolic potential. …”
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Peptide P2 targeting Vibrio parahaemolyticus PirB toxins blocks the cytotoxic effects to shrimp Litopenaeus vannamei by Xin Zhang, Ting Chen, Chunhua Ren, Yanhong Wang, Xiao Jiang, Jiasheng Huang, Bo Ma, Boxiang Zhu, Jiayue Yin, Chaoqun Hu, Peng Luo

“…The receptor candidates for PirB were genome-wide identified and selected based on gene expression profiles, and the biological function of Lv-APN1 was confirmed through RNAi. …”
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FadA antigen of Fusobacterium nucleatum: implications for ceRNA network in colorectal cancer and adenomatous polyps progression by Sama Rezasoltani, Elahe Shams, Moein Piroozkhah, Yaser Aidi, Mehdi Azizmohammad Looha, Parmida Bagheri, Roudabeh Behzadi Andouhjerdi, Amir Sadeghi, Leili Rejali, Ehsan Nazemalhosseini-Mojarad

“…The Bioinformatics and Evolutionary Genomics web tool was employed to intersect the sets of shared microRNAs and their common targets. …”
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Integrated bioinformatics analysis of the effects of chronic pain on patients with spinal cord injury by Jinlong Zhang, Jinlong Zhang, Longju Qi, Yuyu Sun, Yuyu Sun, Shiyuan Chen, Jinyi Liu, Jiaxi Chen, Fangsu Yan, Wenqi Wang, Qinghua Wang, Liang Chen

“…Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses revealed a strong correlation between SCI and chronic pain, particularly related to inflammation. …”
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Integrated bioinformatics and experimental analysis of CHAF1B as a novel biomarker and immunotherapy target in LUAD by Wei Du, Xiao-Wei Wu, Qing-Feng Li, Bing-Yu Zhang, Jing Wu, Ya-Ping Xu, Xue Yi

“…Here, CHAF1B expression in LUAD was examined using the GEPIA2 and UALCAN databases. Using The Cancer Genome Atlas (TCGA) LUAD database, we analyzed the diagnostic and prognostic significance of CHAF1B and its association with immune infiltration and immunological checkpoints. …”
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Psychiatric comorbidities in epilepsy: population co-occurrence, genetic correlations and causal effects by Neil M Davies, Dheeraj Rai, Harriet Forbes, Christina Dalman, Torbjörn Tomson, Daniel Berglind, Michael Lundberg, Cecilia Magnusson, Craig Newschaffer, Brian K Lee, Viktor H Ahlqvist, Paul Madley-Dowd, Christina Dardani, Jessica Rast, Caichen Zhong, Renee M Gardner, Kristen Lyall

“…We then used summary data from genome-wide association studies to investigate whether the identified observational associations could be attributed to a shared underlying genetic aetiology using cross-trait linkage disequilibrium score regression. …”
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Enhanced Tolerance to Antifungals as a General Feature of Rho⁻ Mutants in Yeast Species: Implications to Positive Selection of Respiratory Deficiency by Zachary Johnson, Farhan Nadim, Mikhajlo K. Zubko

“…Although the mitochondrial genome is an attribute of all eukaryotes, some yeast species (called petite-positive) can replicate without mitochondrial DNA (mtDNA). …”
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Integrating microplastic research in sustainable agriculture: Challenges and future directions for food production by Marcelo Illanes, María-Trinidad Toro, Mauricio Schoebitz, Nelson Zapata, Diego A. Moreno, María Dolores López-Belchí

“…Currently, the application of omics technologies, including genomics, transcriptomics, and metabolomics, offers novel insights into molecular mechanisms that enable the identification of specific biomarkers associated with MP exposure. …”
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Branched-chain amino acids levels associated with risk of erectile dysfunction: A Mendelian randomization analysis by Yijian Deng, Liying Zeng, Yigui Lai, Shuai Ji, Baizhao Peng, Hanqi Lu, Ming Wang, Hiu Yee Kwan, Qi Wang, Xiaoshan Zhao

“…Methods: The bidirectional Mendelian randomization (MR) study used the genetic data from genome-wide association studies (GWAS) to identify single nucleotide polymorphisms (SNPs) associated with total BCAAs, leucine, isoleucine, and valine. …”
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A Mendelian randomization study: physical activities and chronic kidney disease by Rui Xiao, Li Dong, Bo Xie, Beizhong Liu

“…Our study examined the potential bidirectional relationship between physical activity and CKD by using a genetically informed method. Genome-wide association studies from the UK Biobank baseline data were used for physical activity phenotypes and included 460,376 participants. …”
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Integration of Mendelian Randomization to explore the genetic influences of pediatric sepsis: a focus on RGL4, ATP9A, MAP3K7CL, and DDX11L2 by Liuzhao Zhang, Quanwang Chu, Shuyue Jiang, Bo Shao

“…MR analysis utilized genome-wide significant SNPs as instrumental variables to assess causal relationships between gene expression and sepsis risk. …”
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Synapsis and recombination of autosomes and sex chromosomes in two terns (Sternidae, Charadriiformes, Aves) by A. P. Lisachov, L. P. Malinovskaya, A. V. Druzyaka, P. M. Borodin, A. A. Torgasheva

“…It was supposed that the recombination patterns of the species’ genomes are influenced by their phylogenetic history and ecology. …”
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Writers, readers, and erasers of N6-Methyladenosine (m6A) methylomes in oilseed rape: identification, molecular evolution, and expression profiling by Chaofan Shan, Kui Dong, Dongyu Wen, Ziyi Ye, Fei Hu, Meryem Zekraoui, Jun Cao

“…During the course of evolution, whole genome duplication (WGD) and segmental duplication were the primary drivers of the expansion of m6A-related gene families. …”
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Development of Virus-Like Particles (VLPs) for Hepatitis C Virus genotype 4: a novel approach for vaccine development in Egypt by Ahmed A. Ali, Rasha A. M. Azouz, Nahla A. Hussein, Reem El-Shenawy, Naiera M. Helmy, Yasmine S. El-Abd, Ashraf A. Tabll

“…Methods Lentiviral-based vectors were constructed and employed to integrate the full-length sequence of Core, E1, E2, and P7 genes of HCV genotype 4 into the genome of Human Embryonic Kidney cells (HEK293T). …”
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Isolation, characterization and liposome-loaded encapsulation of a novel virulent Salmonella phage vB-SeS-01 by Yuhang Luo, Jacques Mahillon, Lin Sun, Ziqiong You, Xiaomin Hu

“…Bacteriophages have the potential to control both intracellular and facultative intracellular bacteria and can be developed as antibiotic alternatives.MethodsThis study isolated and characterized vB-SeS-01, a novel Guernseyvirinae phage preying on Salmonella enterica, whose genome is closely related to those of phages SHWT1 and vB-SenS-EnJE1. …”
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Single-cell RNA-seq analysis reveals microenvironmental infiltration of myeloid cells and pancreatic prognostic markers in PDAC by Yanying Fan, Lili Wu, Xinyu Qiu, Han Shi, Longhang Wu, Juan Lin, Jie Lin, Tianhong Teng

“…Methods Single-cell RNA sequencing (scRNA-seq) data were downloaded from t the Tumor Immune Single-cell Hub and gene expression data were retrieved from The Cancer Genome Atlas (TCGA) database and the Gene Expression Omnibus (GEO) database. …”
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<i>Ex Vivo</i> Regional Gene Therapy Compared to Recombinant BMP-2 for the Treatment of Critical-Size Bone Defects: An In Vivo Single-Cell RNA-Sequencing Study by Arijita Sarkar, Matthew C. Gallo, Jennifer A. Bell, Cory K. Mayfield, Jacob R. Ball, Mina Ayad, Elizabeth Lechtholz-Zey, Stephanie W. Chang, Osamu Sugiyama, Denis Evseenko, Jay R. Lieberman

“…Here, for the first time, we performed single-cell RNA sequencing (10x Genomics) of hematoma tissue in six rats with critical-sized femoral defects that were treated with either regional gene therapy or rhBMP-2. …”
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