Chun-Hui Gao’s CV

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Skills

Molecular microbiology
High-throughput sequencing
Microbial ecology
Bioinformatics
Programing
Data visualization

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View online of the full version CV at r.bio-spring.top/cv.

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The source code is available at github.com/gaospecial/cv.

Last updated on 2022-02-25.



Main

Chun-Hui Gao (高春辉)

Ph. D, Microbiology, bioinformatician, data scientist and useR.

I am broadly interested in the data mining, particularly integration and visualization, of biological, industrial and social data sets, which comes from high-throughput screening, Next-Generation Sequencing (NGS), public databases and so on.

Work Experience

Associate Professor

College of Resources and Environment

Huazhong Agricultural University

current - 2021-11

Post-doc Lecturer

College of Resources and Environment

Huazhong Agricultural University

2021-10 - 2016-3

Data Scientist

Beijing Rexinchang Biotechnology Research Institute Co. Ltd

Beijing, CN

2020-10 - 2019-11

Post-doctoral Fellow

School of Life Science

University of Science and Technology of China

2015-5 - 2013-2

Lecturer

School of Food and Biological Engineering

Hubei University of Technology

2012-12 - 2012-7

Education

The SCELSE Summer Course

Singapore Centre for Environmental Life Sciences Engineering

Singapore, SG

2016-7 - 2016-6

PhD., Microbiology

Huazhong Agricultural University

Wuhan, CN

2012-6 - 2007-9

  • Thesis: The characterization of a novel ArsR-type regulator in Mycobacterium tuberculosis and the characterization of molecular basis of isoniazid drug resistance in Mycobacteria

B. S., Biotechnology

Huazhong Agricultural University

Wuhan, CN

2008-7 - 2004-9

Research Summary

Professional Competence

Microbiology

  • Transcriptional regulator
  • Drug resistance
  • Pathogenisis
  • Persistance

Microbial ecology

  • Social interaction
  • Co-culture
  • Multispecies biofilm

NGS

  • (meta-)Genomics
  • (meta-)RNA-seq
  • Microbiome
  • ChIP-seq

Bioinformatics

  • Linux
  • Perl
  • R

Visualization

  • ggplot2
  • ggVennDiagram
  • Reproducible research

Skills

  • Write R package
  • Statistics
  • Illustration
  • Bibliometric
  • Data mining

Regulation of the emergent properties of synthetic community

College of Resources and Environment

Huazhong Agricultural University

2016 - 2021

  • The initial inoculation ratio regulates bacterial coculture interactions and metabolic capacity
  • Emergent transcriptional adaption facilitates convergent succession within a synthetic community
  • Divergent Influence to a Pathogen Invader by Resident Bacteria with Different Social Interactions

Unearthing the mechanism of soil biofilms

College of Resources and Environment

Huazhong Agricultural University

2016 - 2021

  • Bacillus subtilis biofilm development in the presence of soil clay minerals and iron oxides
  • Co-culture of soil biofilm isolates enables the discovery of novel antibiotics
  • Soil biofilms: microbial interactions, challenges, and advanced techniques for ex-situ characterization
  • Impact of metal oxide nanoparticles on in vitro DNA amplification

The regulatory mechanism of drug susceptibility in mycobacteria

State Key Laboratory of Agricultural Microbiology

Huazhong Agricultural University

2012 - 2019

  • InbR, a TetR family regulator, binds with isoniazid and influences multidrug resistance in Mycobacterium bovis BCG
  • OxiR specifically responds to isoniazid and regulates isoniazid susceptibility in mycobacteria
  • Cross-talk between the three furA orthologs in Mycobacterium smegmatis and the contribution to isoniazid resistance

The distribution of type III-A CRISPR-Cas system in Staphylococcus aureus clinical isolates

School of Life Science

University of Science and Technology of China

2014 - 2015

  • Identification and functional study of type III-A CRISPR-Cas systems in clinical isolates of Staphylococcus aureus.

The regulation of secondary metabolite (ε-poly lysine) biosynthesis in Streptomyces albus ZPM

School of Life Science

University of Science and Technology of China

2013 - 2014

  • Identification of genetic variations associated with epsilon-poly-lysine biosynthesis in Streptomyces albulus ZPM by genome sequencing.

The intra-action between three RelBE modules and inter-action between RelBE3/SirR

College of Life Science and Technology

Huazhong Agricultural University

2009 - 2014

  • Characterization of the Interaction and Cross-Regulation of Three Mycobacterium tuberculosis RelBE Modules.
  • Characterization of the interaction between a SirR family transcriptional factor of Mycobacterium tuberculosis, encoded by Rv2788, and a pair of toxin-antitoxin proteins RelJ/K, encoded by Rv3357 and Rv3358.

Novel transcriptional regulator in mycobacteria

College of Life Science and Technology

Huazhong Agricultural University

2009 - 2012

  • An ArsR-like transcriptional factor recognizes a conserved sequence motif and positively regulates the expression of phoP in mycobacteria
  • A TetR-like regulator broadly affects the expressions of diverse genes in Mycobacterium smegmatis
  • Characterization of a Novel ArsR-Like Regulator Encoded by Rv2034 in Mycobacterium tuberculosis

Whole genome protein-protein and TF-promoter interactome in M. tuberculosis

College of Life Science and Technology

Huazhong Agricultural University

2007 - 2009

We used a bacterial two-hybrid method to construct the whole genome protein-protein interaction (PPI) network, and a bacterial one-hybrid method to construct the whole genome transcriptional regulator (TF) - promoter interaction network in M. tuberculosis.

Grants

CNY ￥30（主持）

NSFC 青年科学基金

N/A

2024 - 2022

  • 初始结构和碳源营养调节合成菌群代谢能力的机制研究（32100090）

CNY ￥72.5（主持）

国家重点研发计划子课题

N/A

2021 - 2016

  • 微生物种间相互作用的微生态机制（项目号：2016YFD0800206）

CNY ￥5（主持）

博士后基金面上项目

N/A

2016 - 2013

  • 无序化结构在分枝杆菌广泛调节因子中的功能（2013M541836）

Publications

        Note: Please refer to the online version for all publications.
  • Citation = 1026
  • H-index = 18
  • I10-index = 26

Corresponding Author

Cd(II)-Binding Transcriptional Regulator Interacts with Isoniazid and Regulates Drug Susceptibility in Mycobacteria

Journal of Biochemistry, 2021, 169(1):43–53

N/A

2021

  • Yang, Min; Jia, Shi-Hua; Tao, Hui-Ling; Zhu, Chen; Jia, Wan-Zhong; Hu, Li-Hua; Gao, Chun-Hui

OxiR Specifically Responds to Isoniazid and Regulates Isoniazid Susceptibility in Mycobacteria

FEMS microbiology letters, 2019, 366(10):

N/A

2019

  • Yang, Min; Zhang, Li; Tao, Hui-Ling; Sun, Yuan-Chao; Lou, Zhong-Zi; Jia, Wan-Zhong; Hu, Li-Hua; Gao, Chun-Hui

First (and co-first) Author

中国肠道菌群研究近20年文献大数据分析

中国医药生物技术, 2021, 16(2):166–172

N/A

2021

  • 高春辉; 张秀梅; 李丹宜; 蓝灿辉; 赵杰; 翟运开; 赵萌

Emergent Transcriptional Adaption Facilitates Convergent Succession within a Synthetic Community

ISME Communications, 2021, 1(1):1–5

N/A

  • Gao, Chun-Hui; Cao, Hui; Ju, Feng; Xiao, Ke-Qing; Cai, Peng; Wu, Yichao; Huang, Qiaoyun

ggVennDiagram: An Intuitive, Easy-to-Use, and Highly Customizable R Package to Generate Venn Diagram

Frontiers in Genetics, 2021, 12:1598

N/A

  • Gao, Chun-Hui; Yu, Guangchuang; Cai, Peng

The Initial Inoculation Ratio Regulates Bacterial Coculture Interactions and Metabolic Capacity

ISME Journal, 2021, 15(1):29–40

N/A

  • Gao, Chun-Hui; Cao, Hui; Cai, Peng; S, SJ.

Cross-Talk between the Three furA Orthologs in Mycobacterium Smegmatis and the Contribution to Isoniazid Resistance

The Journal of Biochemistry, 2019, 166(3):237–243

N/A

2019

  • Gao, Chun-Hui; Wei, Wen-Ping; Tao, Hui-Ling; Cai, Li-Kai; Jia, Wan-Zhong; Hu, Lihua; Yang, Min

Divergent Influence to a Pathogen Invader by Resident Bacteria with Different Social Interactions

Microbial Ecology, 2019, 77(1):76–86

N/A

  • Gao, Chun-Hui; Zhang, Ming; Wu, Yichao; Huang, Qiaoyun; Cai, Peng

Impact of Metal Oxide Nanoparticles on in Vitro DNA Amplification

PeerJ, 2019, 7:e7228

N/A

  • Gao, Chun-Hui; Mortimer, Monika; Zhang, Ming; Holden, Patricia A.; Cai, Peng; Wu, Shan; Xin, Yuexing; Wu, Yichao; Huang, Qiaoyun

OxiR Specifically Responds to Isoniazid and Regulates Isoniazid Susceptibility in Mycobacteria

FEMS microbiology letters, 2019, 366(10):

N/A

  • Yang, Min; Zhang, Li; Tao, Hui-Ling; Sun, Yuan-Chao; Lou, Zhong-Zi; Jia, Wan-Zhong; Hu, Li-Hua; Gao, Chun-Hui

Co-Culture of Soil Biofilm Isolates Enables the Discovery of Novel Antibiotics

bioRxiv, 2018, 353755

N/A

2018

  • Gao, Chun-Hui; Cai, Peng; Li, Zhunjie; Wu, Yichao; Huang, Qiaoyun

Identification and Functional Study of Type III-A CRISPR-Cas Systems in Clinical Isolates of Staphylococcus Aureus

International Journal of Medical Microbiology, 2016, 306(8):686–696

N/A

2016

  • Cao, Linyan; Gao, Chun-Hui; Zhu, Jiade; Zhao, Liping; Wu, Qingfa; Li, Min; Sun, Baolin

Identification of Genetic Variations Associated with Epsilon-Poly-Lysine Biosynthesis in Streptomyces Albulus ZPM by Genome Sequencing

Scientific Reports, 2015, 5(1):9201

N/A

2015

  • Wang, Lin; Gao, Chun-Hui; Tang, Nan; Hu, Songnian; Wu, Qingfa

InbR, a TetR Family Regulator, Binds with Isoniazid and Influences Multidrug Resistance in Mycobacterium Bovis BCG

Scientific Reports, 2015, 5(1):13969

N/A

  • Yang, Min; Gao, Chun-Hui; Hu, Jialing; Zhao, Lei; Huang, Qiaoyun; He, Zheng-Guo

Characterization of a Novel ArsR-Like Regulator Encoded by Rv2034 in Mycobacterium Tuberculosis

PLOS ONE, 2012年4月27日, 7(4):e36255

N/A

2012年4月27日

  • Gao, Chun-Hui; Yang, Min; He, Zheng-Guo

A TetR-like Regulator Broadly Affects the Expressions of Diverse Genes in Mycobacterium Smegmatis

Nucleic Acids Research, 2012, 40(3):1009–1020

N/A

2012

  • Yang, Min; Gao, Chun-Hui; Cui, Tao; An, Jingning; He, Zheng-Guo

An ArsR-like Transcriptional Factor Recognizes a Conserved Sequence Motif and Positively Regulates the Expression of phoP in Mycobacteria

Biochemical and Biophysical Research Communications, 2011, 411(4):726–731

N/A

2011

  • Gao, Chun-Hui; Yang, Min; He, Zheng-Guo

Book Chapter

平衡肠道微生态

NA, 2020

N/A

2020

  • 高春辉; 蓝灿辉

土壤有机/生物污染与防控

NA, 2020

N/A

  • 何艳; 徐建明

Teaching Experience

RNA-seq从入门到精通

华中农业大学暑期生物信息学培训班

武汉

2018-7

土壤微生物组

undergraduate students

Wuhan, CN

2018-5

土壤中的多物种生物膜

graduated students

Wuhan, CN

2016-12

Conferences

Oral presentations

二菌株合成菌群收敛演化的分子机制

土壤生物多样性与生物化学过程研讨会

安徽合肥

2021-6-24 - 2021-6-20

Session host

International Symposium on Multiscale Biofilm Interfacial Processes and Soil Health

Wuhan, CN

2021-12-15

关于土壤健康，微生态研究给我带来的3个遐想

第二届土壤生物健康研讨会

海南兴隆

2020-12-27 - 2020-12-24

细菌的江湖——土壤微生物互作研究

华中农业大学资源与环境学院博士后交流会

武汉

2018-9-11

微生物之间的协作有利于细菌的存活和代谢

全国土壤生物生化与土壤健康学术研讨会

上海

2017

土壤生物膜的形成和群落演替

中国土壤学会第十三次全国会员代表大会

西安

2016

Conference abstract

“Divergent influence to pathogen invader by environmental isolates with different social interactions”

The 2nd Global Soil Biodiversity Conference

Nanjing, CN

2017-10-19 - 2017-10-15

Conference participation

第八届全国微生物基因组学学术研讨会

present

Wuhan, CN

2021-7-12 - 2021-7-10

中国肠道大会 2021

present

Nanjing, CN

2021-5-30 - 2021-5-28

第一届生物信息学人才发展论坛

present

Zhuhai, CN

2019-7-28 - 2019-7-27

2019 年“双一流”农科联盟暨学科建设研讨会

present

Wuhan, CN

2019-7-16

深圳市合成生物产业发展研讨会

present

Shenzhen, CN

2019-6-14

中国肠道大会 2019

present

Beijing, CN

2019-5-6 - 2019-5-5

Sino-German Symposium on Microbiomics and Plant Health

present

Wuhan, CN

2018-9-24

未来组学术研讨会

present

Wuhan, CN

2018-8-8

“不忘初心，牢记使命”教工党员培训班

present

Shaoshan, CN

2018-11-25 - 2018-11-24

土壤微生物新理论新技术研讨会暨培训班

present

Nanjing, CN

2018-11-17 - 2018-11-15


School Honors

农业微生物学国家重点实验室优秀研究生

10 each year

Wuhan, CN

2012 - 2011

优秀毕业研究生

n.a.

Wuhan, CN

2012

三好研究生

n.a.

Wuhan, CN

2011 - 2010

三好研究生

n.a.

Wuhan, CN

2009 - 2008

优秀毕业生

5 out of 45

Wuhan, CN

2008

三好学生

10 out of 45

Wuhan, CN

2007 - 2006

优秀团员

5 out of 45

Wuhan, CN

2006 - 2005

三好学生

10 out of 45

Wuhan, CN

2005 - 2004

Other Publications

Seven Facts and Five Initiatives for Gut Microbiome Research

Protein & Cell, 2020, 11(6):391–400

N/A

2020

  • Li, Danyi; Gao, Chun-Hui; Zhang, Faming; Yang, Ruifu; Lan, Canhui; Ma, Yonghui; Wang, Jun

The Exopolysaccharide-eDNA Interaction Modulates 3D Architecture of Bacillus Subtilis Biofilm

BMC Microbiology, 2020, 20(1):115

N/A

  • Peng, Na; Cai, Peng; Mortimer, Monika; Wu, Yichao; Gao, Chun-Hui; Huang, Qiaoyun

Soil Biofilms: Microbial Interactions, Challenges, and Advanced Techniques for Ex-Situ Characterization

Soil Ecology Letters, 2019, 1(3-4):85–93

N/A

2019

  • Cai, Peng; Sun, Xiaojie; Wu, Yichao; Gao, Chun-Hui; Mortimer, Monika; Holden, Patricia A.; Redmile-Gordon, Marc; Huang, Qiaoyun

Extraction of Extracellular Polymeric Substances (EPS) from Red Soils (Ultisols)

Soil Biology and Biochemistry, 2019, 135:283–285

N/A

  • Wang, Shuang; Redmile-Gordon, Marc; Mortimer, Monika; Cai, Peng; Wu, Yichao; Peacock, Caroline L.; Gao, Chun-Hui; Huang, Qiaoyun

Soil Biofilm Formation Enhances Microbial Community Diversity and Metabolic Activity

Environment International, 2019, 132:105116

N/A

  • Wu, Yichao; Cai, Peng; Jing, Xinxin; Niu, Xueke; Ji, Dandan; Ashry, Noha Mohamed; Gao, Chun-Hui; Huang, Qiaoyun

OxiR Specifically Responds to Isoniazid and Regulates Isoniazid Susceptibility in Mycobacteria

FEMS microbiology letters, 2019, 366(10):

N/A

  • Yang, Min; Zhang, Li; Tao, Hui-Ling; Sun, Yuan-Chao; Lou, Zhong-Zi; Jia, Wan-Zhong; Hu, Li-Hua; Gao, Chun-Hui

Impact of Soil Clay Minerals on Growth, Biofilm Formation, and Virulence Gene Expression of Escherichia Coli O157:H7

Environmental Pollution, 2018, 243(B):953–960

N/A

2018

  • Cai, Peng; Liu, Xing; Ji, Dandan; Yang, Shanshan; Walker, Sharon L.; Wu, Yichao; Gao, Chun-Hui; Huang, Qiaoyun

Co-Culture of Soil Biofilm Isolates Enables the Discovery of Novel Antibiotics

bioRxiv, 2018, 353755

N/A

  • Gao, Chun-Hui; Cai, Peng; Li, Zhunjie; Wu, Yichao; Huang, Qiaoyun

Towards a Better Understanding of the Aggregation Mechanisms of Iron (Hydr)Oxide Nanoparticles Interacting with Extracellular Polymeric Substances: Role of pH and Electrolyte Solution

Science of The Total Environment, 2018, 645:372–379

N/A

  • Lin, Di; Cai, Peng; Peacock, Caroline L.; Wu, Yichao; Gao, Chun-Hui; Peng, Wanxi; Huang, Qiaoyun; Liang, Wei

Metabolism, Survival, and Gene Expression of Pseudomonas Putida to Hematite Nanoparticles Mediated by Surface-Bound Humic Acid

Environmental Science-Nano, 2018, 5(3):682–695

N/A

  • Ouyang, Kai; Walker, Sharon L.; Yu, Xiao-Ying; Gao, Chun-Hui; Huang, Qiaoyun; Cai, Peng

Recent Advances in Microbial Electrochemical System for Soil Bioremediation

Chemosphere, 2018, 211:156–163

N/A

  • Wu, Yichao; Jing, Xinxin; Gao, Chun-Hui; Huang, Qiaoyun; Cai, Peng

Survival of Escherichia Coli O157:H7 in Various Soil Particles: Importance of the Attached Bacterial Phenotype

Biology and Fertility of Soils, 2017, 53(2):209–219

N/A

2017

  • Liu, Xing; Gao, Chun-Hui; Ji, Dandan; Walker, Sharon L.; Huang, Qiaoyun; Cai, Peng

Bacillus Subtilis Biofilm Development in the Presence of Soil Clay Minerals and Iron Oxides

npj Biofilms and Microbiomes, 2017, 3(1):4

N/A

  • Ma, Wenting; Peng, Donghai; Walker, Sharon L.; Cao, Bin; Gao, Chun-Hui; Huang, Qiaoyun; Cai, Peng

Effects of Humic Acid on the Interactions between Zinc Oxide Nanoparticles and Bacterial Biofilms

Environmental Pollution, 2017, 231(1):1104–1111

N/A

  • Ouyang, Kai; Yu, Xiao-Ying; Zhu, Yunlin; Gao, Chun-Hui; Huang, Qiaoyun; Cai, Peng

Metal-Free Inactivation of E. Coli O157:H7 by Fullerene/C3N4 Hybrid under Visible Light Irradiation

Ecotoxicology and Environmental Safety, 2017, 136:40–45

N/A

  • Ouyang, Kai; Dai, Ke; Chen, Hao; Huang, Qiaoyun; Gao, Chun-Hui; Cai, Peng

自然环境中的多物种生物膜:研究方法及社群相互作用

农业资源与环境学报, 2017, (01):6–14

N/A

  • 孙晓洁; 高春辉; 黄巧云; 蔡鹏

大肠杆菌表面感应机制研究进展

浙江大学学报(农业与生命科学版), 2017, 43(6):685–690

N/A

  • 王立亮; 高春辉; 吴一超; 黄巧云; 蔡鹏

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