Uncovering potential causal genes for undiagnosed congenital anomalies using an in-house pipeline for trio-based whole-genome sequencing by Jeong-Min Kim, Hye-Won Cho, Dong Mun Shin, Oc-Hee Kim, Jihyun Kim, Hyeji Lee, Gang-Hee Lee, Joon-Yong An, Misun Yang, Heui Seung Jo, Ja-Hyun Jang, Yun Sil Chang, Hyun-Young Park, Mi-Hyun Park

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Genomic Characterization of <i>Laodelphax striatellus</i> Permutotetra-like Virus and Self-Cleavage Function of Viral Capsid Protein by Jun Piao, Jiarui Zhang, Lujie Zhang, Jingai Piao, Haitao Wang, Yilin Xie, Shuo Li

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Genomic insights into pigeon breeding: GWAS for economic traits and the development of a high-throughput liquid phase array chip by Bo Zhang, Jianyuan Ma, Li Shen, Yipu Li, Shuxian Xie, Haoxuan Li, Jing Li, Xianyao Li, Zheng Wang

“…This study integrates phenotypic data from Tarim pigeons and White King pigeons with genomic information, using genome-wide association analysis (GWAS) to identify genetic markers associated with key economic traits, thereby accelerating the breeding process. …”
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Genomic analysis of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) strains isolated in Malaysia by Hooi-Leng Ser, Loh Teng-Hern Tan, Jodi Woan-Fei Law, Vengadesh Letchumanan, Nurul-Syakima Ab Mutalib, Learn-Han Lee

“…In light of that, the genome sequences of these strains isolated in Malaysia suggested that there is currently more than one “type” of strain within the country. …”
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Effect of custom-designed transfection buffer on delivery of genome modification components into primary cells of buffalo, cattle, goats, and sheep by Shreya Malhotra, Priyanka Singh, Aseem Tara, Bosco Jose, Devika Gautam, Ram Prasad, Gaurav Tripathi, Sacchinandan De, Naresh L. Selokar

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Karyotype Analysis and Genome Size Estimation Using Flow Cytometry of the Genus <i>Encyclia</i> Hook. (Orchidaceae: Laeliinae) by Chengcheng Zhou, Qingyun Leng, Jinping Lu, Shisong Xu, Donghui Peng, Junmei Yin, Junhai Niu

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Identification of <i>Bacillus anthracis</i> Strains from Animal Cases in Ethiopia and Genetic Characterization by Whole-Genome Sequencing by Abebe Olani, Domenico Galante, Matios Lakew, Bayeta Senbeta Wakjira, Getnet Abie Mekonnen, Tesfaye Rufael, Tsegaye Teklemariam, Wondwosen Kumilachew, Shimalis Dejene, Ayele Woldemeskel, Adanech Wakjira, Getachew Abichu, Baye Ashenafi, Nigatu Kebede, Aklilu Feleke Haile, Fufa Dawo Bari, Laura Del Sambro, Tadesse Eguale

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Genome-wide association study and candidate gene identification for the cold tolerance at the seedling stage of rapeseed (Brassica napus L.) by Guangyu Wu, Yanda Zhou, Jingyi Zhang, Mengjie Gong, Lixi Jiang, Yang Zhu

“…In this study, we observed the cold tolerance of 217 rapeseed accessions in the field and found a significant negative correlation between cold tolerance grades and malondialdehyde (MDA) content. A genome-wide association study (GWAS) of cold tolerance grades identified four significant loci in the genomic region of one MYB transcription factor BnaA8.MYB60. …”
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Genome-wide association mapping of biochemical traits and its correlation with MYMIV resistance in mungbean (Vigna radiata L. Wilczek) by Manju Kohli, Hina Bansal, Muraleedhar Aski, Gyan P. Mishra, B. R. Shashidhar, Anirban Roy, Soma Gupta, Subodh K. Sinha, Brijesh Kumar Mishra, Nikki Kumari, Atul Kumar, Ranjeet Ranjan Kumar, Ramakrishnan M. Nair, Harsh Kumar Dikshit

“…The key candidate genes include VRADI09G06940 (YMD resistance, TIR-NBS-LRR class, chr. 9), VRADI01G05030 [flavonoid biosynthesis; MYB65 transcription factor (TF); chr. 1], VRADI03G07600 (phenol biosynthesis; GATA TF 16; chr. 3), VRADI04G08470 (ascorbic acid; heat shock protein 70 kDa protein; chr. 4), VRADI04G07510 (FRAP; subtilisin-like protease SBT1.9; chr. 4), and VRADI05G02870 (DPPH; vacuolar protein sorting-associated protein 2; chr. 5). The identified genomic resources will enhance mungbean genomics and facilitate the advancement of genomic-assisted breeding in mungbean.…”
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Genetic analysis of scab disease resistance in common bean (Phaseolus vulgaris) varieties using GWAS and functional genomics approaches by Shadrack Odikara Oriama, Benard W. Kulohoma, Evans Nyaboga, Y. O. Masheti, Reuben Otsyula

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Chromosome-level genome assembly of Triplophysa bombifrons using PacBio HiFi sequencing and Hi-C technologies by Chengxin Wang, Site Luo, Yong Song, Liting Yang, Xinyue Wang, Shengao Chen

“…Abstract Triplophysa bombifrons, a species of bony fish localized in China, has largely been understudied genetically, with limited data available beyond its mitochondrial genome. This study introduces a chromosome-level genome assembly for T. bombifrons, achieved through the integration of PacBio long-read sequencing and Hi-C chromatin interaction mapping. …”
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Priestia flexa as a Novel Urinary Tract Pathogen in Daloa, Côte d’Ivoire: Insights From Genomic Sequencing by Dého Aristide Gbégbé, Okran Beyosse Christophe Kacou, N’goran Parfait N’zi, Djédoux Maxime Angaman

“…International Journal of Genomics…”
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Genomic insights into a multidrug-resistant pandoraea apista clinical isolate carrying blaOXA-153 from China by Lirong Li, Yawen Zhang, Fang He, Ningjun wu

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ParSite is a multicolor DNA labeling system that allows for simultaneous imaging of triple genomic loci in living cells. by Xiaohui He, Yadong Sun, Hanhui Ma

“…However, robust methods for tracking genome organization or genomic interactions over time in living cells are lacking. …”
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Genomic characteristics of ST6115 carbapenem-resistant Klebsiella pneumoniae coharboring blaNDM-1 and blaIMP-4 by Xiaofang Xie, Xiaofang Xie, Yaxuan Zhai, Zhichen Zhu, Feinan Qian, Feinan Qian, Jie Zhu, Qizhao Gao, Hong Du, Hong Du

“…ObjectivesThe aim of this study is to characterize the genomic features of ST6115 carbapenem-resistant Klebsiella pneumoniae (CRKP) co-harboring blaNDM-1 and blaIMP-4.MethodsThe genome sequences of one ST6115 Klebsiella pneumoniae (KP) strain and 12 ST17 KP strain were obtained through whole genome sequencing (WGS). …”
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Comparative genomic analysis revealed that dietary habits affected the adaptation of Bifidobacterium bifidum to the intestinal tract in different geographic populations by Min Li, Jie Yu, Weicheng Li, Qiong Wu, Jiaqi Sun, Zhihong Sun

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The genome sequence of a tachinid fly, Gymnocheta viridis (Fallén, 1810) [version 1; peer review: 2 approved] by Olga Sivell, Maxwell V.L. Barclay, Steven Falk

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A Highly Divergent Mitochondrial Genome in Extant Cape Buffalo From Addo Elephant National Park, South Africa by Deon deJager, Marlo Möller, Eileen Hoal, Paul vanHelden, Brigitte Glanzmann, Cindy Harper, Paulette Bloomer

“…ABSTRACT The reduced cost of next‐generation sequencing (NGS) has allowed researchers to generate nuclear and mitochondrial genome data to gain deeper insights into the phylogeography, evolutionary history and biology of non‐model species. …”
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Genome-Wide Identification and Expression Analysis of PkNRT Gene Family in Korean Pine (<i>Pinus koraiensis</i>) by Xinyu Zhao, Haibo Wu, Boyang Li, Pengyang Wang, Peng Zhang, Hailong Shen, Jianfei Yang

“…Here, we present a comprehensive genome-wide analysis and characterization of the NRT gene family in Korean pine, an invaluable tree species cultivated extensively in northeastern China. …”
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Incomplete human reference genomes can drive false sex biases and expose patient-identifying information in metagenomic data by Caitlin Guccione, Lucas Patel, Yoshihiko Tomofuji, Daniel McDonald, Antonio Gonzalez, Gregory D. Sepich-Poore, Kyuto Sonehara, Mohsen Zakeri, Yang Chen, Amanda Hazel Dilmore, Neil Damle, Sergio E. Baranzini, George Hightower, Teruaki Nakatsuji, Richard L. Gallo, Ben Langmead, Yukinori Okada, Kit Curtius, Rob Knight

“…Abstract As next-generation sequencing technologies produce deeper genome coverages at lower costs, there is a critical need for reliable computational host DNA removal in metagenomic data. …”
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