Works in BMC Genomics, 2025, Vol 26, Issue 1

Results: 607

K1 Klebsiella pneumoniae is more conserved than K2 for both virulence plasmid and chromosome.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11624-8

By:

Dai, Piaopiao;
Huang, Tingting;
Ye, Xinru;
Mi, Shuli;
Zhang, Jin;
Luo, Xinhua;
Hu, Dakang;
Zhang, Haifang

Publication type:

Article

CanASM: a comprehensive database for genome-wide allele-specific DNA methylation identification and annotation in cancer.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11849-7

By:

Zhao, Jianmei;
Zhao, Zeyu;
Li, Hongfei;
Yu, Haojie;
Lin, Hao;
Chen, Hanqi;
Li, Xuecang;
Liu, Di;
Wang, Yiming;
Wang, Guohua

Publication type:

Article

Molecular mechanisms underlying leaf enlargement in spaceflight-mutated 'Deqin'alfalfa.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11845-x

By:

Kuang, Qian;
Ding, Rui;
Huang, Die;
He, Chenggang;
Jiang, Hua

Publication type:

Article

Whole-transcriptome sequencing reveals the global molecular responses and ceRNA regulatory network involved in programmed cell death of rice cultivars zyk639 and zyk-lm.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11844-y

By:

Zhang, Haipeng;
Zheng, Han;
Liang, Weifang;
Zhang, Junjie;
Zhao, Hongyu;
Li, Jianzhong;
Zhou, Yujie;
Xie, Liujie;
Yu, Chulang;
Dai, Binfeng;
Zhong, Liequan;
Hou, Fan;
Wang, Chengyu;
Chen, Jianping;
Yang, Yong

Publication type:

Article

Comparative genomic and functional analyses of Microbacterium paraoxydans BHS25 reveal key metabolic adaptations for survival in arsenic-contaminated soil ecosystems.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11811-7

By:

Mannan, Ayman Bin Abdul;
Bukharid, Momtaz Zamila;
Hossain, M. Anwar;
Sultana, Munawar

Publication type:

Article

Genomic functional annotation and comparative analysis of ABC transporter protein family genes in nine types of Chironomidae insects.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11847-9

By:

Liu, Wenbin;
Zhou, Anmo;
Shao, Ziming;
Nie, Jiaxin;
Ge, Xinyu;
Yan, Chuncai;
Gao, Shaobo;
Wang, Yiwen

Publication type:

Article

Karyotypic analysis of 62,587 Han Chinese infertile couples undergoing assisted reproductive technology treatments: insights into chromosomal variations.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11851-z

By:

Zhu, Shiheng;
Zhang, Qian;
Hu, Mengchun;
Zhang, Yaxuan;
Sun, Anmiao;
Gao, Xuan;
Chen, Hong;
Yan, Junhao

Publication type:

Article

Genome-wide identification and expression analysis of the HvGATA gene family under abiotic stresses in barley (Hordeum vulgare L.).

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11834-0

By:

Zhao, Yan;
Yin, Chengxin;
Xing, Ruixi;
Zeng, Jianbin;
Dai, Xuehuan;
Xu, Dengan;
Liu, Wenxing;
Ma, Wujun

Publication type:

Article

Genome assembly and comparative analysis of Alternaria Linariae reveal novel genes associated with host colonization and virulence.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11819-z

By:

Paudel, Rajan;
Muzhinji, Norman;
Pandey, Anju;
Panthee, Dilip R.;
Dean, Ralph A.;
Louws, Frank J.;
Adhikari, Tika B.

Publication type:

Article

Assessing the performance of 28 pathogenicity prediction methods on rare single nucleotide variants in coding regions.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11787-4

By:

Heo, Jee Yeon;
Kim, Ju Han

Publication type:

Article

Uncovering genetic mechanisms associated with harmful use of alcohol in admixed Latin Americans.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11691-x

By:

Amaral, Edson H. B.;
Britto, Gabriela de S. G.;
de São Pedro, Raquel B.;
Moreira, Alberto O.;
Scliar, Marília O.;
Lyra, Ricardo;
Lima, Natália P.;
Feitosa, Caroline A.;
Figueiredo, Camila A. V.;
Pitangueira, Helena M.;
da Silva, Thiago Magalhães;
Vasconcelos, Luydson R. S.;
Carmo, Rodrigo F.;
Barreto, Maurício L.;
Tarazona-Santos, Eduardo;
Horta, Bernardo L.;
Brunialti-Godard, Ana L.;
Oliveira, Pablo R. S.

Publication type:

Article

Mechanism of Myh3 gene regulation of intramuscular fat content in Beijing black pigs via the MAPK signaling pathway.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11528-7

By:

Luo, Yunyan;
Xu, Gaoxiao;
Zhang, Chunguang;
Wen, Zuochen;
Chu, Han;
Dai, Yuxing;
Hong, Liang;
Zhang, Jianbin;
Vignon, Akpaca Samson;
Sun, Chao;
Zhang, Longchao;
Pu, Lei

Publication type:

Article

Multi-tool copy number detection highlights common body size-associated variants in miniature pig breeds from different geographical regions.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11446-8

By:

Berghöfer, Jan;
Khaveh, Nadia;
Mundlos, Stefan;
Metzger, Julia

Publication type:

Article

BenchAMRking: a Galaxy-based platform for illustrating the major issues associated with current antimicrobial resistance (AMR) gene prediction workflows.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-024-11158-5

By:

Strepis, Nikolaos;
Dollee, Dennis;
Vrins, Donny;
Vanneste, Kevin;
Bogaerts, Bert;
Carrillo, Catherine;
Bharat, Amrita;
Horan, Kristy;
Sherry, Norelle L.;
Seemann, Torsten;
Howden, Benjamin P.;
Hiltemann, Saskia;
Chindelevitch, Leonid;
Stubbs, Andrew P.;
Hays, John P.

Publication type:

Article

Sex-biased expression of sex-linked transcripts in spiny frogs with homomorphic sex chromosomes.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11846-w

By:

Xiao, Yu;
Xia, Yun;
Zeng, Xiaomao

Publication type:

Article

Transcriptome profiling reveals key genes in eggplant (Solanum melongena) roots under salt stress.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11802-8

By:

Sun, Hongmei;
Wang, Yong;
Cao, Lianbin;
Wang, Yihan;
Wei, Zhaoyang;
Song, Li;
Jiang, Jun;
Liu, Junhe;
Tian, Shilin

Publication type:

Article

Correction: Dissection of genetic basis underlying heat stress response of Apis cerana.

Published in:

2025

By:

Li, Ao-Mei;
Pang, Chun-Xiu;
Cai, Xiao-Lin;
Zhuo, Fu-Chang;
Hu, Bo;
Huang, Xue-Hua;
Huang, Jia-Xing;
Lu, Yu-Ming

Publication type:

Correction Notice

Genome-wide identification and expression pattern of the phytochrome-interacting factors (PIFs) family in three alfalfa varieties.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11826-0

By:

Cui, Ting;
Wang, Yong;
Niu, Kuiju;
Ma, Huiling

Publication type:

Article

Dissection of genetic basis underlying heat stress response of Apis cerana.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11714-7

By:

Li, Ao-Mei;
Pang, Chun-Xiu;
Cai, Xiao-Lin;
Zhuo, Fu-Chang;
Hu, Bo;
Huang, Xue-Hua;
Huang, Jia-Xing;
Lu, Yu-Ming

Publication type:

Article

Comparative transcriptomic analysis reveals the important role of hepatic fatty acid metabolism in the acute heat stress response in chickens.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11832-2

By:

Mei, Zi;
Song, Zhenquan;
Zhou, Haobo;
Zheng, Bin;
Xiong, Yiwei;
Sheng, Zheya;
Gong, Yanzhang

Publication type:

Article

Complete chloroplast genome of two Brachycorythis (Orchidaceae) species from China: comparative analysis and phylogenetic implications.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11791-8

By:

Ma, Dong;
Tao, Kaifeng;
Xia, Yanqiong;
Luo, Yan;
Li, Lu

Publication type:

Article

Evidence of early genomic selection in Holstein Friesian across African and European ecosystems.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11828-y

By:

Gao, Junxin;
Gonzalez-Prendes, Rayner;
Liu, Ying;
Kantanen, Juha;
Ginja, Catarina;
Ghanem, Nasser;
Kugonza, Donald Rugira;
Makgahlela, Mahlako;
Bovenhuis, Henk;
Groenen, Martien A.M.;
Crooijmans, Richard P.M.A.

Publication type:

Article

Dynamic transcriptome landscape of oat grain development.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11827-z

By:

Wang, Ting;
Han, Bing

Publication type:

Article

Identification of candidate proteins influencing spermatogenesis in Shandong black cattle via integrated multiomics analysis.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11825-1

By:

Zhao, Qiuyue;
Liu, Ruili;
Miao, Xiuping;
Mei, Yanfang;
Wang, Xiuyuan;
Ma, Jiaxu;
Zou, Lei;
Zhang, Renzheng;
Bai, Xuejin;
Dong, Yajuan

Publication type:

Article

Complete chloroplast genomes of 25 mulberry plants: insight into genome characteristics, comparative analysis and phylogenetic relationships.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11823-3

By:

Yang, Jinhong;
Jiang, Wei;
Huang, Jiayue;
Peng, Yunwu;
Yang, Fang;
Kong, Weiqing

Publication type:

Article

Joint analysis of whole-genome methylation and transcriptome in avian pullorum disease and validation of gene function.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11821-5

By:

Wu, Jiongwen;
Liang, Weiming;
Liu, Aijun;
Wang, Xiaomeng;
Fan, Zhexia;
Ma, Xuerong;
Chen, Shuya;
Fang, Cheng;
Zhang, Xiquan;
Luo, Qingbin

Publication type:

Article

Brassinosteroid-mediated carotenoid regulation enhances chilling tolerance in pepper.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11820-6

By:

Li, Jie;
Li, Jian;
Luo, Jianghong;
Li, Juan;
Sohail, Hamza;
Zhu, Keyan;
Yang, Ping

Publication type:

Article

NuclampFISH enables cell sorting based on nuclear RNA expression for chromatin analysis.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11818-0

By:

Liu, Yifang;
Qiu, Yuchen;
Nian, Keqing;
Rouhanifard, Sara H.

Publication type:

Article

Assembly and comparative analysis of the complete mitochondrial genome of Cardiocrinum giganteum: a primitive Liliaceae group with significant scientific research value.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11817-1

By:

Zhao, Zhiheng;
Huang, Liyun;
Huang, Xiaolu;
Liao, Jianming;
Zeng, Guangyu;
Liu, Dan

Publication type:

Article

Transcriptome and co-expression network analysis reveal the genetic basis of cell wall components in maize stalks.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11816-2

By:

He, Yao;
Deng, Zhike;
He, Shijiang;
Qi, Zhaojie;
Chang, Hengshuo;
Liu, Peng;
Chen, Zhong;
Zou, Chaoying;
Shen, Yaou;
Ma, Langlang

Publication type:

Article

Genome-wide characterization of monoacylglycerol lipase (MAGL) gene family in soybean and functional analysis of GmMAGLs in storage lipid metabolism and drought resistance.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11813-5

By:

Jing, Haiqing;
Sun, Yan;
Wang, Bicheng;
Ma, Juhua;
Wan, Kun;
Li, Zhanqian;
Zhou, Yali;
Li, Runzhi;
Zhang, Haiping;
Xue, Jinai

Publication type:

Article

Transcriptome analysis of two photo-thermo-sensitive genic male-sterile lines reveal GA-mediated regulatory mechanism for rice panicle exsertion.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11809-1

By:

Fang, Pengpeng;
Zhou, Yi;
Zhang, Li;
Zhang, Wuhan;
He, Qiang;
Lan, Duo;
Zeng, Jia;
Deng, Huafeng;
Shu, Fu;
Sun, Pingyong

Publication type:

Article

Genome-wide identification of SWEET gene family and functional analysis of BcSWEET1-2 associated with flowering in flowering Chinese cabbage (Brassica campestris).

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11808-2

By:

Huang, Xinmin;
He, Liming;
Chen, Yuyao;
Liu, Yin;
Liu, Jinfeng;
Lu, Guangyuan;
Chen, Riyuan;
Zhu, Yunna;
Song, Shiwei;
He, Qinqin

Publication type:

Article

RNA binding protein HuR regulated by OIP5-AS1 may be involved in maternal transcript degradation during the human maternal-to-zygotic transition.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11807-3

By:

Liu, Yan-na;
Li, Ke-Yi;
Wei, Hao;
Li, Wen-xiu;
Zhang, Yue-hua;
Qiu, Jia-jun;
Zeng, Fanyi;
Yan, Jing-bin

Publication type:

Article

Genome-wide association study of Northern corn leaf blight (NCLB) resistance using temperate and subtropical maize recombinant inbred lines.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11806-4

By:

Gong, Xiaodong;
Jiang, Fuyan;
Shaw, Ranjan K.;
Sun, Jiachen;
Dai, Tao;
Bi, Yaqi;
Pan, Yanhui;
Kong, Jiao;
Zong, Haiyang;
Yang, Xiaoping;
Ijaz, Babar;
Fan, Xingming

Publication type:

Article

Assessing the role of key genes involved in the reproductive success of the honey bee parasite Varroa destructor.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11805-5

By:

Muntaabski, Irina;
Salvador, Ricardo;
Russo, Romina M.;
Wulff, Juan P.;
Landi, Lucas;
Liendo, María C.;
Lanzavecchia, Silvia B.;
Scannapieco, Alejandra C.

Publication type:

Article

Mechanisms underlying the estradiol mediated protection of yak oviduct epithelial cells against ER-Ca<sup>2+</sup> imbalance.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11804-6

By:

Ye, Xiaolin;
Wang, Meng;
Pan, Yangyang;
Li, Tianhao;
Wang, Jinglei;
Zhao, Ling;
Zhang, Rui;
Cui, Yan;
Yu, Sijiu

Publication type:

Article

Alternative splicing of squid is associated with sex-ratio allocation in the wasp Copidosomopsis nacoleiae.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11800-w

By:

Ouyang, Huili;
Li, Xuesheng;
Chen, Dongyu;
Zheng, Xia-Lin;
Lu, Wen;
Wang, Xiaoyun

Publication type:

Article

Genome-wide identification and stress-responsive expression profiling of the TCP gene family in Cenchrus fungigraminus under drought and cold stress.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11798-1

By:

Ke, Shijie;
He, Xin;
Zhang, Mengmeng;
Luo, Lin;
Chen, Yuxin;
Cui, Yixue;
Huang, Yelin

Publication type:

Article

A first nuclear and mitochondrial genomic portrait of Robinson Crusoe's (Juan Fernández Island) spiny lobster Jasus frontalis (Crustacea: Decapoda: Achelata).

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11794-5

By:

Baeza, J. Antonio;
Baker, Alyssa;
Kamal, Sadia A.;
Richards, Vincent P.

Publication type:

Article

Unraveling the genetic diversity and adaptive traits of laboratory pig breeds within the perspective of whole - genome resequencing.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11790-9

By:

Yuan, Haonan;
Li, Changwen;
Zhao, Shengguo;
Yang, Yanan;
Chao, Zhe;
Xia, Changyou;
Quan, Jinqiang;
Gao, Caixia

Publication type:

Article

Genomic surveillance reveals geographical heterogeneity and differences in known and novel insecticide resistance mechanisms in Anopheles arabiensis across Kenya.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11788-3

By:

Polo, Brian;
Bennett, Kelly L.;
Barasa, Sonia;
Brenas, Jon;
Agumba, Silas;
Mwangangi, Joseph;
Wachira, Lucy;
Kitur, Stanley;
Matoke-Muhia, Damaris;
Mburu, David M.;
Ramaita, Edith;
Juma, Elijah O.;
Mbogo, Charles;
Ochomo, Eric;
Clarkson, Chris S.;
Miles, Alistair;
Kamau, Luna

Publication type:

Article

Single-cell transcriptome of mouse hippocampus identifies neural precursor-like cells, and reveals IL15Rα knock out-mediated neuron remodeling.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11785-6

By:

Luo, Yanting;
Nie, Yadan;
Huang, Xuemei;
Wang, Haixia;
Sun, Zuoli;
Yang, Jian;
He, Yi

Publication type:

Article

Integrated transcriptome and metabolome analyses unraveled critical roles of small intestine during the weaning period of Vespertilio sinensis.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11784-7

By:

Li, Zixuan;
Guo, Wei;
Chu, Yujia;
Tan, Xiao;
Wang, Hui;
Feng, Jiang;
Liu, Tong

Publication type:

Article

Comprehensive transcriptome analysis reveals MSTRG.19853.1/ssc-miR-361-3p/NPPA axis is related to hypoxic adaptation in Tibetan pigs.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11783-8

By:

Li, Pan;
Cheng, Wei;
Pubu, Zhandui;
Shang, Peng;
Zhang, Hao;
Zhang, Bo

Publication type:

Article

Targeted metabolomic and transcriptomic analyses provide insights into flavonoid biosynthesis in the grain of Foxtail millet.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11780-x

By:

Ye, Zhenyan;
Qin, Na;
Fu, Senjie;
Zhang, Huifang;
Zhu, Cancan;
Dai, Shutao;
Jing, Ya;
Wei, Xin;
Wang, Chunyi;
Ju, Le;
Li, Junxia

Publication type:

Article

Comparative transcriptome analysis reveals various host responses to sacbrood virus infection in Apis cerana and Apis mellifera.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11779-4

By:

Chang, Zih-Ting;
Huang, Yu-Feng;
Chen, Tzu-Han;
Chen, Li-Hung;
Ko, Chung-Yu;
Nai, Yu-Shin;
Chen, Yue-Wen

Publication type:

Article

Analysis of NUDIX enzymes across fungi reveals previously unrecognized diversity.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11778-5

By:

Pasterny, Zofia;
Barua, Drishtee;
Mancera, Eugenio;
Muszewska, Anna

Publication type:

Article

Core histone families of mollusca: systematic identification, evolutionary insights, and functional analysis.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11776-7

By:

Guan, Yalin;
Chen, Xiaomei;
Zhu, Xuan;
Liu, Fuyun;
Ma, Yuanting;
Han, Wentao;
Yang, Rui;
Li, Yuli;
Bao, Lisui;
Wang, Shi;
Bao, Zhenmin;
Wang, Jing

Publication type:

Article

CRISPRware: a software package for contextual gRNA library design.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11775-8

By:

Malekos, Eric;
Montano, Christy;
Carpenter, Susan

Publication type:

Article