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Qianhui Zhu, Arslan Dovletgeldiyev, Chen Shen, Kexin Li, Songnian Hu, Zilong He*,Comparative genomic analysis of Fusobacterium nucleatum reveals high intra-species diversity and cgmlst marker construction. Gut Pathogens 2023 (Q2: IF=4.2)
Qianhui Zhu, Jinrui Hu, Na Liu, Qiuhui Qi, Xiaoli Du, Zhigang Cui, Yan Sun, Yadong Liu,Songnian Hu, Linhuan Wu, Haijian Zhou*, Zilong He*, Juncai Ma*. Large-scale genomic survey and characterization of mcr genes carried by food borne Cronobacter isolates. Msystems. 2023 (Q1: IF=6.4)
Qianhui Zhu, Shenghan Gao, Binghan Xiao, Zilong He*, Songnian Hu*.Plasmer: an accurate and sensitive bacterial plasmid prediction tool based on machine-learning of shared k-mers and genomic features. Microbiology Spectrum. 2023 (Q1: IF=9.209)
Yahui Guo, Xiaojie Yu, Jixiao Wang, De Hua, Yuanhai You, Qingbo Wu, Qinglong Ji, Jianzhong Zhang, Liefei Li, Yuan Hu, Zhonghui Wu, Xiaoyue Wei, Lianqun Jin, Fanliang Meng, Yuhua Yang, Xiaofeng Hu, Lijin Long, Songnian Hu, Heyuan Qi, Juncai Ma, Wenwen Bei, Xiaomei Yan*, Haibin Wang *, Zilong He *. A Food poisoning caused by ST7 Staphylococcal aureus harboring sea gene in Hainan Province, China, Frontiers in Microbiology. 2023 (Q1:IF=6.064)
Xin Ma, Kexin Li, Fang Li, Jing Su, Weiwei Meng, Hui Sun, Jiazheng Sun, Yonghe Yuan, Yujia Lin, Songnian Hu, Xuefang Xu, Zilong He*.Tracing the foodborne botulism events of Clostridium botulinum in Xinjiang by using core genome sequence typing scheme,Microbiology Spectrum. 2022 (Q1: IF=9.209)
Na Liu, Danping Liu, Kexin Li, Songnian Hu, Zilong He*. The pan-genome analysis of Staphylococcus aureus reveals key factors influencing genomic plasticity, Microbiology Spectrum. 2022 (Q1: IF=9.209)
Zhuoning Tang, Sen Yang, Zilong He* Defining the baseline of pulmonary microbiota in healthy populations and influencing factors, 2022 International Conference on Gene Expression in Pneumonia and Influenza. 2022 (EI)
Li Wang#, Tao Yu#, Yaxin Zhu, Yingfeng Luo, Fan Dong, Xuemei Lin, Wenzhong Zhao, Zilong He*, Songnian Hu*, Zhiyang Dong*. Amplicon-based sequencing and co-occurence network analysis reveals notable differences of microbial community structure in healthy and dandruff scalps, BMC genomics. 2022 (Q2: IF=3.969)
Na Liu# , Xin Zheng# , Qianhui Zhu, Zilong He*, Songnian Hu* . The dissemination of NDM-1 in Acinetobacter baumannii strains, Current Microbiology. 2022 (Q4, IF: 2.19)
Mianzhi Yao#, Qianhui Zhu#, Jin Zou, Abebe Mekuria Shenkutie, Songnian Hu, Jiuxin Qu *, Zilong He*, Polly Hangmei Leung*. Genomic characterization of an uropathogenic Escherichia coli ST405 harboring blaCTX-M-15-encoding IncFIA-FIB plasmid, blaCTX-M-24-encoding IncI1 plasmid, and phage-like plasmid, Frontiers in Microbiology. 2022 (Q1, IF: 5.64)
Kexin Li#, Qianhui Zhu#, Fan Jiang#, Huixia Li, Jingying Liu, Tao Yu, Yiyang Du, Li Yang*, Zilong He*, Songnian Hu*. Monitoring microbial communities in intensive care units over one year in China, Science of the Total Environment.2021 (Q1,IF: 7.96)
Chen Shen#, Qianhui Zhu #, Fan Dong, Wei Wang, Bo Fan, Kexin Li,Jun Chen,Songnian Hu, Zilong He*, Chengxian Li*. Identifying two novel clusters in calcium oxalate stones with urinary tract infection using 16S rDNA sequencing, Frontiers in cellular and infection microbiology. 2021 (Q2, IF: 5.30)
Yu Kang#, Lina Yuan#, Xing Shi#, Yanan Chu#, Zilong He#, Xinmiao Jia, Qiang Lin, Qin Ma, Jian Wang, Jingfa Xiao, Songnian Hu, Zhancheng Gao, Fei Chen and Jun Yu. A fine-scale map of genome-wide recombination in divergent Escherichia coli population, Briefings in Bioinformatics.2020 （Q1, IF:8.99）
Jing Zhang#, Zilong He#, JinTian Xu#, Shuting Song#, Qianhui Zhu, Guoguo Wu, Ying Guan, Xiaonong Wu, Rong Yue, Yue Wang, Tao Yu, Songnian Hu, Fuping Lu, Huitu Zhang, Semi-rational mutagenesis of an industrial Streptomyces fungicidicus strain for improved enduracidin productivity, Applied Microbiology and Biotechnology 2020. （Q1, IF:3.53）
Na L. Gao#, Zilong He#, Qianhui Zhu#, Puzi Jiang, Songnian Hu*, Wei-Hua Chen*, Selection for Cheaper Amino Acids Drives Nucleotide Usage at Translation Start in Eukaryotic Genes, Genomics, Proteomics & Bioinformatics 2021.（Q1, IF:6.615）
Le Xue#, Zilong He#, Xiaochun Bi, Wei Xu, Ting Wei, Shuangxiu Wu*, Songnian Hu*. Transcriptomic profiling reveals MEP pathway contributing to ginsenoside biosynthesis in Panax ginseng. BMC genomics 2019 (Q1, IF:3.501)
Yao Zhai#, Zilong He#, Yu Kang, Haiying Yu, Jianfeng Wang, Pengcheng Du, Zhao Zhang, Songnian Hu*, Zhancheng Gao*, Complete nucleotide sequence of pH11, an IncHI2 plasmid conferring multi-antibiotic resistance and multi-heavy metal resistance genes in a clinical Klebsiella pneumoniae isolate. Plasmid 2016（Q3, IF:1.732）
Zilong He#,Chengwei Zhang#, Wanfei Liu#, Qiang Lin, Ting Wei, Hasan AwadAljohi*, Wei-hua Chen*, Songnian Hu*, DRDB: An online date palm genomic resource database. Frontiers in plant science 2017（Q1, IF:4.298）
Zilong He, Huangkai Zhang, Shenghan Gao, Martin J. Lercher, Wei-Hua Chen*, Songnian Hu*, Evolview v2: an online visualization and management tool for customized and annotated phylogenetic trees. Nucleic Acids Research 2016（Q1, IF:9.202）
参与作者文章
Chaorong Tang#, Meng Yang#, Yongjun Fang#, Yingfeng Luo#, Shenghan Gao, Xiaohu Xiao, Zewei An, Binhui Zhou, Bing Zhang, Xinyu Tan, Hoong-Yeet Yeang, Yunxia Qin, Jianghua Yang, Qiang Lin, Hailiang Mei, Pascal Montoro, Xiangyu Long, Jiyan Qi, Yuwei Hua, Zilong He, Min Sun, Wenjie Li, Xia Zeng, Han Cheng, Ying Liu, Jin Yang, Weimin Tian, Nansheng Zhuang, Rizhong Zeng, Dejun Li, Peng He, Zhe Li, Zhi Zou, Shuangli Li, Chenji Li, Jixiang Wang, Dong Wei, Chao-Qiang Lai, Wei Luo, Jun Yu*, Songnian Hu* & Huasun Huang*, The rubber tree genome reveals new insights into rubber production and species adaptation. Nature Plant 2016（Q1, IF:10.3）
Shuai Wang#, Sen Wang#, Yingfeng Luo, Lihua Xiao, Xuenong Luo, Shenghan Gao, Yongxi Dou, Huangkai Zhang, Aijiang Guo, Qingshu Meng, Junling Hou, Bing Zhang, Shaohua Zhang, Meng Yang, Xuelian Meng, Hailiang Mei, Hui Li, Zilong He, Xueliang Zhu, Xinyu Tan, Xing-quan Zhu, Jun Yu, Jianping Cai, Guan Zhu, Songnian Hu* & Xuepeng Cai*, Comparative genomics reveals adaptive evolution of Asian tapeworm in switching to a new intermediate host. Nature Communication 2016（Q1, IF:11.329）
Ting Wei, Zilong He, XinYu Tan, Xue Liu, XiaoYuan, Yingfeng Luo*, Songnian Hu*, An integrated RNA-Seq and network study reveals a complex regulation process of rice embryo during seed germination. Biochemical and Biophysical Research Communications 2015（Q2, IF:2.466）
Yatao Guo, Yao Zhai, Zhao Zhang, Daixi Li, Zhanwei Wang, Jingquan Li, Zilong He, Songnian Hu, Yu Kang* and Zhancheng Gao*, Complete Genomic Analysis of a Kingdom-Crossing Klebsiella variicola Isolate. Frontiers in microbiology 2018（Q1, IF:4.019）
Chaoran Dong#, Jiemei Chen#, Jilin Zheng#, Yiming Liang#, Tao Yu#, Yupeng Liu, Feng Gao, Jie Long, Hangyu Chen, Qianhui Zhu, Zilong He, Songnian Hu, Chuan He, Jian Lin*, Yida Tang*, Haibo Zhu*, 5-Hydroxymethylcytosine signatures in circulating cell-free DNA as diagnostic and predictive biomarkers for coronary artery disease. Clinical Epigenetics 2020（Q1, IF:5.028）
Dai-Xi Li, Yao Zhai, Zhao Zhang, Ya-Tao Guo, Zhan-Wei Wang, Zi-Long He, Song-Nian Hu, Yu-Sheng Chen, Yu Kang, Zhan-Cheng Gao, Genetic factors related to the widespread dissemination of ST11 extensively drug-resistant carbapenemase-producing Klebsiella pneumoniae strains within hospital. Chin Med J (Engl). 2020（Q1, IF:1.585）
Yao Zhai, Daixi Li, Pengcheng Du, Zhao Zhang, Zilong He, Yatao Guo, Yusheng Chen, Yu Kang, Songnian Hu, Zhancheng Gao, Complete sequences of two new KPC-harboring plasmids in Klebsiella pneumoniae ST11 strains in China. J Glob Antimicrob Resist 2020 (Q2, IF:2.706)
Guo Guangxin, Kexin Li, Qianhui Zhu, Chunyan Zhao, Chao Li, Shun Zhou, Zilong He, Songnian Hu, Bin Xia, Yichao Ren, Improvements of immune genes and gut microbial composition of juvenile turbot (Scophthalmus maximus) with dietary oregano oil and probiotics. Aquaculture 2021 (Q1,IF: 4.242)
《宏基因组测序病原微生物监测生物信息学分析规范化管理专家共识》，中华检验医学杂志, 2021年9月44卷第9期，鲁辛辛，胡松年，王玫，贺子龙，杨继勇，谷丽，隋文君
Xu Gong, Hongwei Geng, Yun Yang, Shuyi Zhang, Zilong He, Yubo Fan, Fengyi Yin , Zhifa Zhang, Guo-Qiang Chen, Metabolic engineering of commensal bacteria for gut butyrate delivery and dissection of host-microbe interaction. METABOLIC ENGINEERING 2023 (Q1, IF:8.4)
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