Genomic epidemiology and evolution of Bordetella pertussis under the vaccination pressure of acellular vaccines in Beijing, China, 2020–2023 by Zhen Li, Fei Xiao, Yue Hou, Bin Jia, Ji Zhuang, Yang Cao, Jianxin Ma, Jianhong Zhao, Zengquan Xu, Zhe Jia, Fang Liu, Lin Pang, Jie Liu

“…The dominant antigen genotype among the 60 isolates was ptxP3/prn2/ptxA1/fim2-1/fim3-1/tcfA2 (88.3%), differing from the prevalent genotype ptxP-1/prn-1/ptxA-1 in Beijing prior to 2019 and the vaccine strain genotype ptxP-1/prn-1/ptxA-2/fim2-1/fim3-1/tcfA2. …”
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Taxonomic and functional richness of fish in temperate and tropical reefs of the Mexican Pacific by Rebeca Torres-García, Georgina Ramírez-Ortiz, Estefani De León-Siller, Rodrigo Beas-Luna, Julio Lorda, Luis Malpica-Cruz, Manuel Velasco-Lozano

“…At the regional level, low RED (<3 species·FE–1) and high FV (>55% of FEs represented by a single species) were observed. …”
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Extensive folding variability between homologous chromosomes in mammalian cells by Ibai Irastorza-Azcarate, Alexander Kukalev, Rieke Kempfer, Christoph J Thieme, Guido Mastrobuoni, Julia Markowski, Gesa Loof, Thomas M Sparks, Emily Brookes, Kedar Nath Natarajan, Stephan Sauer, Amanda G Fisher, Mario Nicodemi, Bing Ren, Roland F Schwarz, Stefan Kempa, Ana Pombo

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Genome-wide characterization of the cytochrome P450 gene family in Solanum melongena and functional analysis of SmCYP82C1 under cold stress by Yanhong Lan, Fangyi Gong, Xiaojun Liu, Duchen Liu, Genyun Liang, Chun Li, Feng Xia, Yifan Li, Chao Fang, Peng cai

“…Furthermore, transgenic lines exhibited upregulated expression of cold-signaling regulators (CBF1/2/3, ICE1) and the stress–responsive marker COR47, suggesting activation of conserved cold-adaptation pathways. …”
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Genome-wide identification and functional characterization of LBD gene family in four Cymbidium species (Orchidaceae) and potential regulatory role of CsiLBD27 in floral developmen... by Yonglu Wei, Zengyu Lin, Jianpeng Jin, Wei Zhu, Jie Gao, Jie Li, Qi Xie, Chuqiao Lu, Genfa Zhu, Fengxi Yang

“…Conclusions Collectively, this study provides the first comprehensive insight into the evolutionary dynamics, regulatory mechanisms, and functional roles of LBD genes in Cymbidium. …”
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Whole-genome resequencing to investigate the genetic diversity and mechanisms of plateau adaptation in Tibetan sheep by Xue Li, Buying Han, Dehui Liu, Song Wang, Lei Wang, Quanbang Pei, Zian Zhang, Jincai Zhao, Bin Huang, Fuqiang Zhang, Kai Zhao, Dehong Tian

“…This study provides valuable insights into the evolutionary processes of Tibetan sheep in extreme environments. …”
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Cloning, phylogenetic analysis, tissue expression profiling, and functional roles of NPC1L1 in chickens, quails, and ducks by Xin Shu, Ziwei Chen, Hui Wang, Bingjie Xu, Li Liu, Jilong Zhang, Xiaotong Zheng, Jianfei Chen

“…In this study, we successfully cloned the full NPC1L1 mRNA sequence in chicken, quail, and duck, including the entire 5′ and 3′ untranslated regions, utilizing rapid amplification of cDNA ends methods. …”
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Mitochondrial genome insights into the spatio-temporal distribution and genetic diversity of Dendrobium hancockii Rolfe (Orchidaceae) by Zhenyu Hou, Zhenyu Hou, Mengting Wang, Mengting Wang, Mengting Wang, Yu Jiang, Yu Jiang, Qingyun Xue, Qingyun Xue, Wei Liu, Wei Liu, Zhitao Niu, Zhitao Niu, Xiaoyu Ding, Xiaoyu Ding

“…IntroductionWith its distinctive evolutionary rate and inheritance patterns separate from the nuclear genome, mitochondrial genome analysis has become a prominent focus of current research. …”
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TORC1 Regulates Thermotolerance via Modulating Metabolic Rate and Antioxidant Capacity in Scallop <i>Argopecten irradians irradians</i> by Longfei Chu, Ancheng Liu, Jiaxi Chang, Junhao Zhang, Xiujiang Hou, Xinghai Zhu, Qiang Xing, Zhenmin Bao

“…We then conducted structural characterization and phylogenetic analysis of the <i>A. i. irradians</i> TORC1 (AiTORC1) subunits to determine their structural features and evolutionary relationships. Next, we analyzed the spatiotemporal expressions of AiTORC1-coding genes during various embryo/larvae developmental stages and across different tissues in healthy adult scallops. …”
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Genome-wide identification of SWEET gene family and functional analysis of BcSWEET1-2 associated with flowering in flowering Chinese cabbage (Brassica campestris) by Xinmin Huang, Liming He, Yuyao Chen, Yin Liu, Jinfeng Liu, Guangyuan Lu, Riyuan Chen, Yunna Zhu, Shiwei Song, Qinqin He

“…Conclusions This study systematically identified the BcSWEET gene family in flowering Chinese cabbage and characterized its physicochemical properties, evolutionary relationships, and expression patterns. …”
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Comparative Analysis of Ca²⁺/Cation Antiporter Gene Family in <i>Rosa roxburghii</i> and Enhanced Calcium Stress Tolerance via Heterologous Expression of RrCA... by Tuo Zeng, Liyong Zhu, Wenwen Su, Lei Gu, Hongcheng Wang, Xuye Du, Bin Zhu, Caiyun Wang, Di Wu

“…However, the roles and evolutionary significance of the CaCA superfamily members in <i>R. roxburghii</i> remain poorly understood. …”
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Genotyping by sequencing reveals the genetic diversity and population structure of Peruvian highland maize races by Carlos I. Arbizu, Carlos I. Arbizu, Isamar Bazo-Soto, Joel Flores, Rodomiro Ortiz, Raul Blas, Pedro J. García-Mendoza, Ricardo Sevilla, José Crossa, Alexander Grobman

“…Peruvian maize exhibits abundant morphological diversity, with landraces cultivated from sea level (sl) up to 3,500 m above sl. Previous research based on morphological descriptors, defined at least 52 Peruvian maize races, but its genetic diversity and population structure remains largely unknown. …”
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Comprehensive genomic study of Plasmodium falciparum in Sierra leone: genetic variation and resistance patterns by Xin-jie Zhan, Shen-Bo Chen, Tian-yu Wang, Yi-wen Duan, Hai-Mo Shen, Jun-Hu Chen, Jing-jing Xie

“…Population structure was assessed using PCA, NJ trees, and STRUCTURE analysis, alongside comparisons with a global dataset from the pf3k project. Genetic diversity was evaluated using metrics such as $$\:\widehat\pi$$ , $$\:\widehat{\theta}$$ ω, Tajima’s D, and iHS. …”
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A rare deleterious missense mutation in the AXIN2 gene in Chinese women with polycystic ovary syndrome by Ying Zhang, Yu Chen, Fa-Ying Liu, Jing-Wen Fu, Xian-Xian Liu, Jun Tan, Ou-Ping Huang, Yang Zou

“…The pathogenicity of AXIN2 variant was further analyzed in silico.Results We totally identified 7 genetic variants of AXIN2 in this study, including 4 synonymous and 3 missense. Among them, we find a rare deleterious missense variant [p.R714W (c.2140C > T)]. …”
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Phylogenetic taxonomy of the Zambian Anopheles coustani group using a mitogenomics approach by Soha Usmani, Mary E. Gebhardt, Limonty Simubali, Kochelani Saili, Westone Hamwata, Hunter Chilusu, Mbanga Muleba, Conor J. McMeniman, Anne C. Martin, William J. Moss, Douglas E. Norris, Reneé L. M. N. Ali

“…Bayesian inferred phylogenies and molecular dating estimations were perfomed on the concatenated protein coding genes using the Bayesian Evolutionary Analysis by Sampling Trees 2 (BEAST 2) platform. …”
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Characteristics and Phylogenetic Analysis of the Complete Plastomes of <i>Anthogonium gracile</i> and <i>Eleorchis japonica</i> (Epidendroideae, Orchidaceae) by Xuyong Gao, Yuming Chen, Xiaowei Xu, Hongjiang Chen, Bingcong Xing, Jianli Pan, Minghe Li, Zhuang Zhou

“…Selection pressure analysis indicated that 68 protein-coding genes underwent purifying selection (Ka/Ks < 1), suggesting evolutionary conservation of plastome protein-coding genes. …”
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Research of urban agglomerations in the aspect of implementation of the administrative and territorial reform in Ukraine (case study of Kharkiv region) by Kostiantyn Niemets, Kateryna Sehida, Liudmyla Niemets, Kateryna Kravchenko, Yevheniia Telebienieva, Liudmyla Kliuchko, Volodymyr Redin

“…It was established that Kharkiv region occupies mediocre places in terms of formation of the united territorial communities, there were 23 ones in the oblast (3 of them are city, 12 town, 8 rural ones) by the end of 2019. …”
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Comprehensive Identification and Unveiling Key Nitrate-Transporting Proteins in Oat (Avena sativa L.) by Rong Cheng, Qiang Xiao, Jie Gong, Renwei Sun, Yinke Du, Wei Zhao, Wei Zheng, Shiqing Gao

“…Bioinformatics analysis was performed using the MEGA 11 and TBtools software to elucidate the physicochemical properties, evolutionary relationships, chromosomal localization, and gene structures. …”
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Phylogenomics of novel clones of Aeromonas veronii recovered from a freshwater lake reveals unique biosynthetic gene clusters by Opeyemi U. Lawal, Noah Bryan, Valeria R. Parreira, Rebecca Anderson, Yanhong Chen, Melinda Precious, Lawrence Goodridge

“…Although virulence gene content differed between human and non-human pathogenic strains, type III secretion systems was associated with human pathogenic isolates. …”
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Exogenous Jaagsiekte sheep retrovirus (JSRV) Inner Mongolia strain: whole-genome characterization and viral particle packaging by Pei Zhang, Pei Zhang, Yu Wang, Yu Wang, Xujie Duan, Xujie Duan, Sixu Chen, Sixu Chen, Xiaoyue Du, Xiaoyue Du, Anyu Bao, Anyu Bao, XinQi Ma, XinQi Ma, Yufei Zhang, Yufei Zhang, Shuying Liu, Shuying Liu

“…Specific reverse transcription primers were designed using the low-identity region of the internal and external genome, combined with long fragment PCR and 3′RACE technology, and the full-length genome of exogenous JSRV from Inner Mongolia was successfully obtained.ResultsExogenous molecular characteristics were found in the long terminal repeat(LTR)-U3 region, gag-variable region 1/2(VR1/VR2) and env-VR3, and was 98.8% identical to the Chinese JSRV-C1, which was significantly higher than that of foreign isolates (93.05–95.84%) and enogenous Jaagsiekte sheep retrovirus (enJSRV) (88.73–92.26%). …”
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