Volume 7 Issue 2
Feb.  2021
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Xiaolin Liu, Yue Ma, Jun Wang. Genetic variation and function: revealing potential factors associated with microbial phenotypes[J]. Biophysics Reports, 2021, 7(2): 111-126. doi: 10.52601/bpr.2021.200040
Citation: Xiaolin Liu, Yue Ma, Jun Wang. Genetic variation and function: revealing potential factors associated with microbial phenotypes[J]. Biophysics Reports, 2021, 7(2): 111-126. doi: 10.52601/bpr.2021.200040

Genetic variation and function: revealing potential factors associated with microbial phenotypes

doi: 10.52601/bpr.2021.200040
Funds:  This work was supported by National Key Research and Development Program of China (2018YFC2000500), the Strategic Priority Research Program of the Chinese Academy of Sciences (XDB29020000), the National Natural Science Foundation of China (31771481, 91857101). Thanks to all those who has contributed to this work.
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  • Corresponding author: junwang@im.ac.cn (J. Wang)
  • Received Date: 24 August 2020
  • Accepted Date: 09 March 2021
  • Publish Date: 28 February 2021
  • Innovations in sequencing technology have generated voluminous microbial and host genomic data, making it possible to detect these genetic variations and analyze the function influenced by them. Recently, many studies have linked such genetic variations to phenotypes through association or comparative analysis, which have further advanced our understanding of multiple microbial functions. In this review, we summarized the application of association analysis in microbes like Mycobacterium tuberculosis, focusing on screening of microbial genetic variants potentially associated with phenotypes such as drug resistance, pathogenesis and novel drug targets etc.; reviewed the application of additional comparative genomic or transcriptomic methods to identify genetic factors associated with functions in microbes; expanded the scope of our study to focus on host genetic factors associated with certain microbes or microbiome and summarized the recent host genetic variations associated with microbial phenotypes, including susceptibility and load after infection of HIV, presence/absence of different taxa, and quantitative traits of microbiome, and lastly, discussed the challenges that may be encountered and the apparent or potential viable solutions. Gene-function analysis of microbe and microbiome is still in its infancy, and in order to unleash its full potential, it is necessary to understand its history, current status, and the challenges hindering its development.
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