Phylogeny and divergence of the 100 most common Salmonella serovars available in the NCBI Pathogen Detection database by Linghuan Yang, Hilal Samut, Leonie Kemmerling, Renato Hohl Orsi, Martin Wiedmann, Ruixi Chen, Cristina Resendiz-Moctezuma

“…To address these limitations and to advance the understanding of Salmonella’s evolutionary patterns, we (i) identified the phylogenetic grouping (i.e., mono-, para-, or polyphyly) of the 100 most common Salmonella serovars analyzing 63,204 genomes available in the NCBI Pathogen Detection database, (ii) identified, for each polyphyletic serovar, the lineages that contain the majority of genomes, and (iii) inferred the antigen divergence between the five most common serovars (i.e., Salmonella Enteritidis, Typhimurium, Newport, I 4,[5],12:i:-, and Infantis) and their respective closely-related serovars. …”
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Chromosome-level genome assembly and annotation of Japanese anchovy (Engraulis japonicus) by Shufang Liu, Le Wang, Ruixiang Wang, Huan Wang, Ang Li, Changting An, Zining Meng, Zhimeng Zhuang

“…However, the lack of genomic resources hampers our understanding of its genetic diversity and differentiation, as well as the evolutionary dynamics. Here, we firstly report a complex chromosome-level genome assembly of E. japonicus with a large size of 1.4 Gb, with features of high repetitive sequences (54.9%), high heterozygosity (2.3%) and a number of protein-coding genes (24,405). …”
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Subject based feature selection for hybrid brain computer interface using genetic algorithm and support vector machine by Nida Mateen, Mehreen Naeem, Muhammad Jawad Khan, Talha Yousaf, Ahsan Ali, Wael A. Altabey, Mohammad Noori, Sallam A Kouritem

“…These results highlight the importance of personalized feature selection in hybrid BCIs and demonstrate the viability of evolutionary algorithms for real-time, low-latency brain–machine applications.…”
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Research on Topic Mining and Evolution Trends of Functional Agriculture Based on the BERTopic Model by Qiao Lin, Zhulin Xin, Shuang Peng, Ruixue Zhao, Yingli Nie, Youtao Chen, Xuebin Yin, Guojian Xian, Qiang Zhang

“…Based on the BERTopic model, this study analyzes 15,744 scientific papers in the field of functional agriculture from 1995 to 2024 to uncover core themes and evolutionary trends in global functional agriculture, and particularly focuses on revealing the developmental trajectory in China. …”
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Phylogeny and species diversity of Armillaria in China based on morphological, mating test, and GCPSR criteria by Guo-Fu Qin, Wen-Min Qin, Han-Chen Wang, Jun Zhao, Kari Korhonen, Jian Chen, Yu-Cheng Dai, Yuan Yuan

“…Fifteen Chinese Phylogenetic Species (CPS) were recognised based on Independent Evolutionary Lineage (IEL) recognition and concatenated six-gene analysis (actin, h3h, hisps, LSU rDNA, rpb1, and tef1α). …”
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MRSA Profiles Reveal Age- and Gender-Specificity in a Tertiary Care Hospital: High Burden in ICU Elderly and Emerging Community Patterns in Youth by Kamaleldin B. Said, Khalid Alshammari, Ruba M. Elsaid Ahmed, Fawwaz Alshammari, Ahmed H. Jadani, Ihab Rakha, Salem A. Almijrad, Anwar E. Almallahi, Bader Alkharisi, Naif M. Altamimi, Tarig Mahmoud, Nada A. Abozaid, Amal D. Alshammari

“…Respiratory specimens constituted 37% and had the highest MRSA rate (42%), followed by blood (24.5%) and wounds (10.3%). In contrast, MSSA dominated wounds (20.3%). …”
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Progressive Adaptation of Subtype H6N1 Avian Influenza Virus in Taiwan Enhances Mammalian Infectivity, Pathogenicity, and Transmissibility by Zuoyi Zheng, Xifeng Chen, Rutian Zheng, Zhigang Yan, Long Li, Rirong Chen, Lifeng Li, Yongmei Liu, Yi Guan, Huachen Zhu

“…In ferrets, Hu/13 showed relatively efficient transmission, infecting all direct physical-contact and two out of three airborne-contact ferrets, whereas Ck/09 failed to transmit. …”
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Genome-wide characterization of GRAS gene family and their expression profiles under diverse biotic and abiotic stresses in Amorphophallus konjac by Haoliang Shi, Ming Yang, Zhongsi Liu, Jianrong Zhao, Ying Qi, Jianwei Guo, Penghua Gao, Feiyan Huang, Jiani Liu, Lei Yu, Lifang Li

“…Protein-protein functional associations analysis suggested that the top three functionally associated proteins were RGA, PAT1-2, and NSP2 in Arabidopsis thaliana. …”
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Function and structure of broadly neutralizing antibodies against SARS-CoV-2 Omicron variants isolated from prototype strain infected convalescents by Dan Li, Caiqin Hu, Junwei Su, Shuo Du, Ying Zhang, Wanqi Ni, Li Ren, Yanling Hao, Yi Feng, Changzhong Jin, Shuo Wang, Xinxian Dai, Zheng Wang, Biao Zhu, Junyu Xiao, Yiming Shao

“…Methods Broadly neutralizing antibodies were isolated using single cell sorting from three COVID-19 convalescents infected with prototype SARS-CoV-2 strain. …”
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Molecular Epidemiology and Genetic Diversity of Orientia tsutsugamushi From Patients and Small Mammals in Xiangyun County, Yunnan Province, China by Li Chen, Yi‐Chen Kong, Jia‐Wei Tian, Pei‐Yu Han, Song Wu, Chen‐Jie He, Ti‐Lian Ren, Bo Wang, Lian Qin, Yun‐Zhi Zhang

“…Nine full‐length 56‐kDa TSA genes were identified, comprising four distinct genotypes: Karp‐like (n = 3), Kato‐like (n = 3), Gilliam (n = 2), and TA763 (n = 1). …”
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Robust prediction of chaotic systems with random errors using dynamical system deep learning by Zixiang Wu, Jianping Li, Hao Li, Mingyu Wang, Ning Wang, Guangcan Liu

“…The performance of the DSDL is tested on three example systems, namely the Lorenz system, hyperchaotic Lorenz system and conceptual ocean–atmosphere coupled Lorenz system. …”
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New evidence for the east–west spread of the highly pathogenic avian influenza H5N1 virus between Central Asian and east Asian-Australasian flyways in China by Weiyue Meng, Qiqi Yang, Bram Vrancken, Zhuo Chen, Dongping Liu, Lixia Chen, Xiang Zhao, Sarah François, Tian Ma, Ruyi Gao, Wendong Ru, Yunfeng Li, Hongxuan He, Guogang Zhang, Huaiyu Tian, Jun Lu

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Two outbreak cases involving ST65-KL2 and ST11-KL64 hypervirulent carbapenem-resistant Klebsiella pneumoniae: similarity and diversity analysis by Feilong Zhang, Zhihua Li, Ziyao Li, Xinmeng Liu, Zichen Lei, Xianxia Zhuo, Xinrui Yang, Jiankang Zhao, Yulin Zhang, Binghuai Lu

“…In this study, ST65-KL2 and ST11-KL64 hypervirulent and carbapenem-resistant K. pneumoniae (hvCRKP) were identified from two different outbreak cases: (1) clonal spreading of ST65-KL2 in five patients within transplantation wards spanning three months; and (2) clonal transmission of ST11-KL64 in ten patients across 10 months. …”
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Comparative genomics uncovers organellar genome structural divergence in Caryophyllales and reveals widespread non-coding transcription in Bougainvillea glabra organellar by Shuo Zhang, Shengxin Chang, Xinge Lin, Shisong Xu, Qingyun Leng, Haiyan Li, Hernán Ariel López, Junmei Yin, Zhiqiang Wu, Junhai Niu

“…The plastome of B. glabra was assembled into a 154.7 kb circular molecule with a typical quadripartite structure, while the mitogenome was assembled into three stable circular molecules measuring 160.7 kb, 97.6 kb, and 64.3 kb, respectively. …”
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Pyricularia pennisetigena and Pyricularia oryzae isolates from Paraguay's wheat-growing regions and the impact on wheat by Cinthia Carolina Cazal-Martínez, Yessica Magaliz Reyes-Caballero, Alice Rocio Chávez, Pastor Enmanuel Pérez-Estigarribia, Man Mohan Kohli, Alcides Rojas, Andrea Alejandra Arrua, Juliana Moura-Mendes, Ramón Souza-Perera, José Juan Zúñiga Agilar, Emile Gluck-Thaler, Horacio Lopez-Nicora, Julio Cesar Masaru Iehisa

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Isolation and characterization of a novel coltivirus from Haemaphysalis concinna ticks in Northeastern China by Yu-Hong Yang, Ji-Xu Li, Rui-Chen Wang, Qi-Kai Yin, Shi-Hong Fu, Kai Nie, Qian-Qian Cui, Song-Tao Xu, Qiang Wei, Fan Li, Xing-Zhou Li, Huan-Yu Wang

“…Methods: SW-13 and Vero cells were used to isolate WLTRV through three blind passages, while seven mammalian cell lines assessed viral growth. …”
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Dynamic gas supply mechanism and theoretical production modes of free gas-rich deep coal reservoirs by Shida CHEN, Taiyuan ZHANG, Dazhen TANG, Hao XU, Shu TAO, Song LI, Shuling TANG

“…Their overall production capacity can be divided into three stages primarily: rapid addition, relative stability, and slow decline. …”
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Survey of Piroplasmids in Wild Mammals, Unconventional Pets, and Ticks from Goiás State, Midwestern Brazil by Raphaela Bueno Mendes Bittencourt, Ana Cláudia Calchi, Lucianne Cardoso Neves, Nicolas Jalowitzki de Lima, Gabriel Cândido dos Santos, Ennya Rafaella Neves Cardoso, Warley Vieira de Freitas Paula, Luciana Batalha de Miranda Araújo, Jessica Rocha Gonçalves, Elisângela de Albuquerque Sobreira, Luiz Alfredo Martins Lopes Baptista, Hermes Ribeiro Luz, Marcos Rogério André, Filipe Dantas-Torres, Felipe da Silva Krawczak

“…While the phylogenetic analysis of amino acid sequences of the cytochrome c oxidase subunit III separated <i>Theileria</i> genotypes detected in <i>S. gouazoubira</i> from <i>T. cervi</i>, <i>hsp70</i>-based phylogenetic inferences clustered the genotypes detected in <i>Tapirus terrestris</i> with <i>Theileria terrestris</i>, suggesting host-specific evolutionary lineages. …”
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Cloning and function prediction of full-length cDNA for cathepsin E derived from medaka (Oryzias latipes) by WANG Jiaqing, DONG Huiming, LI Zhengang, LI Shaoming, WANG Ruonan, FU Yujie

“…The OlCtpE protein contained three N-linked glycosylation sites,“NPTI”(amino acids 26-29),“NFSV”(amino acids 95-98) and “NLTV”(amino acids 162-165). …”
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Insights into the Stearoyl-Acyl Carrier Protein Desaturase (SAD) Family in Tigernut (<i>Cyperus esculentus</i> L.), an Oil-Bearing Tuber Plant by Zhi Zou, Xiaowen Fu, Chunqiang Li, Xiaoping Yi, Jiaquan Huang, Yongguo Zhao

“…<i>C. esculentus SAD</i> genes (<i>CeSADs</i>) were shown to constitute two evolutionary groups (i.e., FAB2 and AAD) and four out of 12 orthogroups identified in this study, i.e., FAB2a, FAB2b, FAB2c, and AAD1. …”
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