Chin J Plant Ecol ›› 2020, Vol. 44 ›› Issue (生态技术与方法专辑): 0-0.doi: 10.17521/cjpe.2019.0222


Techniques and methods of microbiomics and their applications

Gui-Feng GAO1,2, 1,2   

  1. 1. Institute of Soil Science, Chinese Academy of Sciences
    2. Institute of Soil Science, Chinese Academy of Sciences
  • Received:2019-08-19 Revised:2020-01-29 Online:2020-02-24 Published:2020-03-20

Abstract: Microbiome is the combination of all microorganisms and their genetic information in a specific envi-ronment or ecosystem, which contains abundant microbial resources. A comprehensive and systematic analysis of the structure and function of microbiome will provide new ideas in solving the core issues in the fields of energy, ecological environment, industrial and agricultural production and human health. However, the study of microbiome is largely depending on the development of relevant technologies and methods. Prior to the advent of high-throughput sequencing technology, microbial research was based on techniques such as isolation, pure-culture and fingerprint. However, due to technical deficiencies, people's understanding of microorganisms is very limited. Since the 21st century, the revolutionary advances in the technology of high-throughput sequencing and mass spectrometry have greatly improved our understanding on the structure and ecological functions of environmental microbiome. However, the application of microbiomics technology in microbial research still faces many challenges. In addition, the descriptive studies focus on the structure and diversity of the microbiome have already matured, and the study of microbiomics is facing a critical transition period from quantity to quality and from structure to function. Hence, this paper will introduce the basic concepts of microbiomics and a brief history of its development firstly. Secondly, it introduces the related technologies and methods of microbiomics and its development process, and further expounds the applications and main problems of microbiomics technology and methods in ecological study. Finally, this paper expounds the frontier direction of the development of microbiomics technology and methods in the future from the technical, theoretical and application levels, and proposes the priority development areas of microbiome research in the future.

Key words: microbiomics, high-throughput sequencing, mass spectrometry, ecological study

[1] Ben-Feng HAN Xin Zhou Xue Zhang. Verification of virus identity and host association using genomics technologies [J]. Biodiv Sci, 2020, 28(5): 0-0.
[2] Qi Lu,Qiang Hu,Xiaogang Shi,Senlong Jin,Sheng Li,Meng Yao. Metabarcoding diet analysis of snow leopards (Panthera uncia) in Wolong National Nature Reserve, Sichuan Province [J]. Biodiv Sci, 2019, 27(9): 960-969.
[3] Zhang Xue, Li Xing’an, Su Qinzhi, Cao Qina, Li Chenyi, Niu Qingsheng, Zheng Hao. A curated 16S rRNA reference database for the classification of honeybee and bumblebee gut microbiota [J]. Biodiv Sci, 2019, 27(5): 557-566.
[4] Chen Zhixiang, Yao Xueying, Stephen R. Downie, Wang Qizhi. Assembling and analysis of Sanicula orthacantha chloroplast genome [J]. Biodiv Sci, 2019, 27(4): 366-372.
[5] JIANG Yu-Ling, CHEN Xu-Hui, MIAO Qing, QU Bo. Difference in fungal communities between in roots and in root-associated soil of nine orchids in Liaoning, China [J]. Chin J Plant Ecol, 2019, 43(12): 1079-1090.
[6] Xiaojuan Deng, Jianli Liu, Xingfu Yan, Peigui Liu. Community composition of bacteria associated with ascocarps of Tuber indicum using traditional culture method and Roche 454 high-throughput sequencing [J]. Biodiv Sci, 2018, 26(12): 1318-1324.
[7] Qiaoli Li, Na Yan, Qiong Song, Junzhan Guo. Complete Chloroplast Genome Sequence and Characteristics Analysis of Morus multicaulis [J]. Chin Bull Bot, 2018, 53(1): 94-103.
[8] Aihua Zhao,Xiaojun Du,Jing Zang,Shouren Zhang,Zhihua Jiao. Soil bacterial diversity in the Baotianman deciduous broad-leaved forest [J]. Biodiv Sci, 2015, 23(5): 649-657.
[9] Zili Wu, Mengyao Yu, Lu Chen, Jing Wei, Xiaoqin Wang, Yong Hu, Yan Yan, Ping Wan. Transcriptome Analysis of Physcomitrella patens Response to Cadmium Stress by Bayesian Network [J]. Chin Bull Bot, 2015, 50(2): 171-179.
[10] Xingxing Liu, Xi Zhang, Xiali Guo, Shangji Gong, Xiangmei Jiang, Yuxin Fu, Liping Luo. Multivariate Analyses of Volatile Chemical Composition in Leaves of Different Cinnamomum camphora Chemotypes [J]. Chin Bull Bot, 2014, 49(2): 161-166.
[11] Yuanfeng Cai,Zhongjun Jia. Progress in environmental transcriptomics based on next-generation high-throughput sequencing [J]. Biodiv Sci, 2013, 21(4): 401-410.
[12] Xin Sun,Ying Gao,Yunfeng Yang. Recent advancement in microbial environmental research using metagenomics tools [J]. Biodiv Sci, 2013, 21(4): 393-400.
[13] Miao Dong, Yue Huang, Wenduo Chen, Tao Xu, Qiulei Lang. Use of Degradome Sequencing in Study of Plant MicroRNAs [J]. Chin Bull Bot, 2013, 48(3): 344-353.
[14] Pengfei Wang, Qianqian Wang, Xianen Li, Minjian Qin. Metabolites Research of Corydalis yanhusuo Tubers with Gas Chromatography-mass Spectrometry [J]. Chin Bull Bot, 2012, 47(2): 149-154.
[15] Tao Wang;Xurong Mei;Xiuli Zhong*;Yuzhong Li. The Profiling Method of Lipidomics and Its Applications [J]. Chin Bull Bot, 2010, 45(02): 249-257.
Full text



[1] Cui Gao;Yuxia Chen;Ying Bao;Min Feng;Anming Lu. Studies on Sexual Organs and Embryological Development Morphology of Speirantha gardenii (Convallariaceae)[J]. Chin Bull Bot, 2010, 45(06): 705 -712 .
[2] Jiang Gao-ming. The Impact of Globae Increasing of CO2 on Plants[J]. Chin Bull Bot, 1995, 12(04): 1 -7 .
[3] Zhang Jun Han Bi-wen. Advance in the Study of Histochemical Localization for[J]. Chin Bull Bot, 1995, 12(专辑3): 131 -142 .
[4] Tang Yan-cheng. A Short Guide to the International Code of Botanical Nomenclature V.[J]. Chin Bull Bot, 1984, 2(04): 51 -57 .
[5] Xu Ji. The Protective Protein of Nitrogenase Against Oxygen Damage-Fe-S Protein[J]. Chin Bull Bot, 1986, 4(12): 1 -4 .
[6] . [J]. Chin Bull Bot, 2001, 18(05): 633 .
[7] Huang Zhao-xiang;Zheng Zhen-gui and Zhu Du. Ecological Effect of Taxodium ascendens-Oryza sativa Ecosystem(I) The Growing Characteristic of Taxodium Ascendens in the Ecosystem[J]. Chin Bull Bot, 1996, 13(02): 48 -51 .
[8] Zhihong Xu;Jiayang Li. Plant Hormones Research in China: Past, Present and Future[J]. Chin Bull Bot, 2006, 23(5): 433 -442 .
[9] GU Rui-Sheng;LIU Qun-Lu;CHEN Xue-Mei and JIANG Xiang-Ning. Comparison and Optimization of the Methods on Protein Extraction and SDS-PAGE in Woody Plants[J]. Chin Bull Bot, 1999, 16(02): 171 -177 .
[10] Jiang Gao-ming. LI-6400 Portable Photosynthesis System: Principle, Function, Basic Operation and Main Problems and Solutions During Measurement[J]. Chin Bull Bot, 1996, 13(增刊): 72 -76 .