Pathogenicity of avian reovirus variant in the immune organs of broiler chicks by Haiyang Yu, Yudong Zhu, Qiong Wu, Wanjun Zhao, You Wang, Dong Wang, Huaguang Lu, Youxiang Diao, Yijing Li, Yi Tang

“…In this study, an ARV strain (Chicken/XJ/China/2022/01/16) was isolated from arthritic broiler chicks in Xinjiang province and whole genome sequencing of the ARV strain was performed using next generation sequencing (NGS) technology, and sequence analysis showed that the strain was a type V variant of the ARV gene. …”
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Emergence of a blaNDM-5-carrying extensively drug-resistant Enterobacter cloacae ST1718 in Saudi Arabia: Insights from comprehensive genome analysis by Ibrahim A. Al-Zahrani, Thamer M. Brek

“…Results: ECloa-JZ71 exhibited resistance to multiple antimicrobial agents, except for amikacin, gentamycin, and fosfomycin. Whole-genome sequencing revealed that ECloa-JZ71 had a rarely reported sequence type, ST1718. …”
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Mapping Antimicrobial Resistance in <i>Staphylococcus epidermidis</i> Isolates from Subclinical Mastitis in Danish Dairy Cows by Desiree Corvera Kløve, Mikael Lenz Strube, Peter M. H. Heegaard, Lærke Boye Astrup

“…<b>Methods:</b> Phenotypic resistance was measured by antimicrobial susceptibility testing and minimum inhibitory concentration (MIC) analysis, and genotypic resistance was examined through whole-genome sequencing and identification of antimicrobial resistance genes (ARGs). …”
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Molecular Epidemiology and Genetic Evolution of Porcine Reproductive and Respiratory Syndrome Virus in Northern China During 2021–2023 by Na Yuan, Zuofeng Yang, Fengxia Lv, Lina Dou, Xiangqing Li, Baokai Zhao, Shishan Dong

“…Moreover, the 27 whole-genome sequences were analyzed. As indicated, 24 of them were exposed to gene recombination, and L1.8 provided the backbone for recombination events. …”
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In Silico Exploration of Staphylococcal Cassette Chromosome <i>mec</i> (SCC<i>mec</i>) Evolution Based on Phylogenetic Relationship of <i>ccrAB/C</i> by Huawei Wang, Jinxing He

“…In addition, whole-genome sequencing-based macro-analysis was unable to provide sufficiently detailed evolutionary information on SCC<i>mec</i>. …”
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Successful Diagnosis of Sengers Syndrome Using a Comprehensive Genomic Analysis by Kohta Nakamura, Yukiko Yatsuka, Sachie Naito, Akira Hasegawa, Takeya Kasukawa, Atsushi Kondo, Yoshihito Kishita, Yohei Sugiyama, Takanori Onuki, Tomohiro Ebihara, Tomoko Tsuruoka, Takuya Fushimi, Akira Ohtake, Kei Murayama, Atsuko Imai‐Okazaki, Yasushi Okazaki

“…Methods We employed a comprehensive genomic analysis approach, including whole‐genome sequencing and RNA sequencing, combined with various bioinformatics tools. …”
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Detection of Delafloxacin Resistance Mechanisms in Multidrug-Resistant <i>Klebsiella pneumoniae</i> by András Kubicskó, János Juhász, Katalin Kamotsay, Dora Szabo, Béla Kocsis

“…Four delafloxacin-resistant <i>K. pneumoniae</i> strains were selected for whole-genome sequencing (WGS). <b>Results:</b> The MIC50 values for the 43 <i>K. pneumoniae</i> strains were as follows: ciprofloxacin 0.5 mg/L, levofloxacin 0.25 mg/L, moxifloxacin 0.5 mg/L, and delafloxacin 0.25 mg/L. …”
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Prognostic impact of donor mitochondrial genomic variants in myelodysplastic neoplasms after stem-cell transplantation by Jing Dong, Shahram Arsang-Jang, Tao Zhang, Zhongyuan Chen, Yung-Tsi Bolon, Stephen Spellman, Raul Urrutia, Paul Auer, Wael Saber

“…Here, we performed whole-genome sequencing on 494 donors who were matched to MDS patients enrolled in the Center for International Blood and Marrow Transplant Research (CIBMTR). …”
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Integrating Metabolomics and Genomics to Uncover the Impact of Fermented Total Mixed Ration on Heifer Growth Performance Through Host-Dependent Metabolic Pathways by Zhenzhen Hu, Minyu Zuo, Shixuan Ding, Yifan Zhong, Mingyuan Xue, Huichao Zheng

“…A total of 157 heifers aged 7–8 months were selected, and their hair was collected for whole-genome sequencing. They were randomly assigned into four groups of 18 to 21 cattle each and fed FTMR containing varying levels of rice straw (21% in LSF, 28% in MSF, 35% in HSF) or 31% sheath and leaves of <i>Zizania latifolia</i> (ZF) for a two-month period. …”
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Phenotypic and genotypic drug susceptibility patterns of Mycobacterium tuberculosis isolates from pulmonary tuberculosis patients in Central and Southern Ethiopia. by Melaku Tilahun, Teklu Wegayehu, Biniam Wondale, Tewdros Tariku Gebresilase, Tesfaye Gebreyohannes, Abraham Tekola, Mekdes Alemu, Sebsib Neway, Bethlehem Adnew, Maeruf Fetu Nassir, Yonas Kassahun, Abraham Aseffa, Kidist Bobosha

“…<h4>Conclusion</h4>This study reveals a higher prevalence of phenotypic and genotypic discordant INH-resistant M. tuberculosis isolates in the study area. The use of whole-genome sequencing (WGS) is essential for gaining a comprehensive understanding of these discrepancies within INH-resistant M. tuberculosis strains.…”
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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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A network medicine approach to investigating ME/CFS pathogenesis in severely ill patients: a pilot study by Li-Yuan Hung, Chan-Shuo Wu, Chia-Jung Chang, Peng Li, Kimberly Hicks, Joshua J. Dibble, Braxton Morrison, Chimere L. Smith, Ronald W. Davis, Wenzhong Xiao

“…By utilizing a network analysis on whole genome sequencing (WGS) data from the Severely Ill Patient Study (SIPS), we identified ME/CFS-associated proteins and delineated the corresponding network-level module, termed the SIPS disease module, together with its relevant pathways. …”
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Severe subcutaneous infection with Clostridium septicum in a herd of native Icelandic horses by Charlotta Oddsdóttir, Ólöf G. Sigurðardóttir, Vala Friðriksdóttir, Vilhjálmur Svansson, Birkir Þór Bragason, Sigríður Björnsdóttir

“…Analysis of water samples from the pasture where the herd was kept also revealed the presence of C. septicum. Whole genome sequencing suggested that the isolates from the diseased horses contained the same C. septicum strain, whereas the strain isolated from the water samples differed from the disease-causing isolates. …”
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Genomic patterns of strain-specific genetic structure, linkage, and selection across fall armyworm populations by Ashley E. Tessnow, Rodney N. Nagoshi, Robert L. Meagher, Todd M. Gilligan, Ben M. Sadd, Yves Carrière, Holly N. Davis, Shelby J. Fleischer, Kelly Richers, John C. Palumbo, Patrick Porter, Jose Carlos Verle Rodrigues, Gregory A. Sword

“…Here, we used whole genome sequencing population genomics to unravel novel patterns of population structure, linkage, and selection across the genome of a notorious agricultural pest, the fall armyworm. …”
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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). …”
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Adaptive evolution of stress response genes in parasites aligns with host niche diversity by Armando J. Cruz-Laufer, Maarten P. M. Vanhove, Lutz Bachmann, Maxwell Barson, Hassan Bassirou, Arnold R. Bitja Nyom, Mare Geraerts, Christoph Hahn, Tine Huyse, Gyrhaiss Kapepula Kasembele, Samuel Njom, Philipp Resl, Karen Smeets, Nikol Kmentová

“…We comparatively investigated antioxidant, heat shock, osmoregulatory, and behaviour-related genes (foraging) in two model parasitic flatworm lineages with contrasting ecological diversity, Cichlidogyrus and Kapentagyrus (Platyhelminthes: Monopisthocotyla), through whole-genome sequencing of 11 species followed by in silico exon bait capture as well as phylogenetic and codon analyses. …”
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Multidrug-Resistant Salmonella enterica Serovar Rissen Clusters Detected in Azores Archipelago, Portugal by Leonor Silveira, Miguel Pinto, Joana Isidro, Ângela Pista, Patrícia Themudo, Luís Vieira, Jorge Machado, João Paulo Gomes

“…In the present study, we analyzed by whole genome sequencing (WGS) all clinical, animal, food, and environmental isolates received up to 2017 in the Portuguese Reference Laboratories. …”
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Auditory Phenotype of a Novel Missense Variant in the CEACAM16 Gene in a Large Russian Family With Autosomal Dominant Nonsyndromic Hearing Loss by Tatiana G. Markova, Natalia N. Alekseeva, Oxana P. Ryzhkova, Olga L. Shatokhina, Anna A. Orlova, Viktoriia V. Zabnenkova, Olga S. Groznova, Olesya V. Sagaydak, Svetlana S. Chibisova, Alexander V. Polyakov, George A. Tavartkiladze

“…Genetic testing was performed, including whole-genome sequencing for the proband’s son and Sanger sequence analysis for the proband and for all available family members. …”
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Genomic characteristics and molecular epidemiology of MRSA from medical centers in Mexico: Results from the Invifar network. by Gabriela Echaniz-Avilés, Luis Ángel Núñez-García, Eduardo Rodríguez-Noriega, Consuelo Velázquez-Acosta, Luis Esaú López-Jácome, Eduardo López-Gutiérrez, Talia Pérez-Vicelis, Cristina Torres-Báez, Ulises Garza-Ramos, Nadia Rodríguez-Medina, Juan Manuel Barajas-Magallón, Rosario Vázquez-Larios, Aldo Rafael Silva-Gamiño, Rafael Franco-Cendejas, Adolfo Gómez-Quiroz, Elvira Garza-González

“…This study aims to determine the genomic characteristics of MRSA using whole-genome sequencing (WGS) data from medical centers in Mexico and to explore the associations between antimicrobial resistance genes and virulence factors.…”
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Antimicrobial Susceptibility of <i>Glaesserella parasuis</i> to Macrolides and Characterization of <i>erm</i>(T)-Carrying Mobile Elements on Chromosome by Peng Zhang, Changmin Li, Shuna Shang, Ting Huang, Junqi Liu, Qianwen Ge, Xiaoping Liao, Liangxing Fang, Yang Yu

“…Erythromycin-resistant isolates were sequenced using whole-genome sequencing. Further analysis of these sequences revealed the genetic basis of macrolide resistance in <i>G. parasuis</i>. …”
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