Transcriptome Landscape of Mycobacterium smegmatis

Frontiers in Microbiology

Shan-Ho Chou¹  Han Mei²  Fang Chen²  Binda T. Andongma²  Xinfeng Li²  Xiaojian Cao²  Qing Tang²  Zhaoqing Yu²  Jin He² 

[1] Institute of Biochemistry and NCHU Agricultural Biotechnology Center, National Chung Hsing University, Taichung, Taiwan;State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China;

关键词: Mycobacterium smegmatis;    transcriptome;    transcriptional start site;    leaderless mRNA;    gene structural re-annotation;    operon;   

DOI  :  10.3389/fmicb.2017.02505

来源: DOAJ

【 摘 要 】

The non-pathogenic bacterium Mycobacterium smegmatis mc2155 has been widely used as a model organism in mycobacterial research, yet a detailed study about its transcription landscape remains to be established. Here we report the transcriptome, expression profiles and transcriptional structures through growth-phase-dependent RNA sequencing (RNA-seq) as well as other related experiments. We found: (1) 2,139 transcriptional start sites (TSSs) in the genome-wide scale, of which eight samples were randomly selected and further verified by 5′-RACE; (2) 2,233 independent monocistronic or polycistronic mRNAs in the transcriptome within the operon/sub-operon structures which are classified into five groups; (3) 47.50% (1016/2139) genes were transcribed into leaderless mRNAs, with the TSSs of 41.3% (883/2139) mRNAs overlapping with the first base of the annotated start codon. Initial amino acids of MSMEG_4921 and MSMEG_6422 proteins were identified by Edman degradation, indicating the presence of distinctive widespread leaderless features in M. smegmatis mc2155. (4) 150 genes with potentially wrong structural annotation, of which 124 proposed genes have been corrected; (5) eight highly active promoters, with their activities further determined by β-galactosidase assays. These data integrated the transcriptional landscape to genome information of model organism mc2155 and lay a solid foundation for further works in Mycobacterium.

【 授权许可】

Unknown