A comprehensive update to the Mycobacterium tuberculosis H37Rv reference genome

Author:

Chitale PoonamORCID,Lemenze Alexander D.,Fogarty Emily C.,Shah Avi,Grady Courtney,Odom-Mabey Aubrey R.,Johnson W. Evan,Yang Jason H.,Eren A. Murat,Brosch Roland,Kumar Pradeep,Alland David

Abstract

AbstractH37Rv is the most widely used M. tuberculosis strain. Its genome is globally used as the M. tuberculosis reference sequence. We developed Bact-Builder, a pipeline that leverages consensus building to generate complete and highly accurate gap-closed bacterial genomes and applied it to three independently sequenced cultures of a parental H37Rv laboratory stock. Two of the 4,417,942 base-pair long H37Rv assemblies were 100% identical, with the third differing by a single nucleotide. Compared to the existing H37Rv reference, the new sequence contained approximately 6.4 kb additional base pairs encoding ten new regions. These regions included insertions in PE/PPE genes and new paralogs of esxN and esxJ, which were differentially expressed compared to the reference genes. Additional sequencing and assembly with Bact-Builder confirmed that all 10 regions were also present in widely accepted strains of H37Rv: NR123 and TMC102. Bact-builder shows promise as an improved method to perform extremely accurate and reproducible de novo assemblies of bacterial genomes. Furthermore, our findings provide important updates to the primary tuberculosis reference genome.

Publisher

Cold Spring Harbor Laboratory

Reference69 articles.

1. Global tuberculosis report 2020. https://www.who.int/publications/i/item/9789240013131.

2. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence

3. Designation of Strain H37Rv as the Neotype of Mycobacterium tuberculosis

4. Steenken, W. , Oatway, W. H. & Petroff, S. A. BIOLOGICAL STUDIES OF THE TUBERCLE BACILLUS III. DISSOCn∼TION AND PATHOGENICITY OF THE R AND S VARIANTS OF TItE HU∼C-AN TUBERCLE BACILLUS (I∼7)*.

5. Variation among Genome Sequences of H37Rv Strains of Mycobacterium tuberculosis from Multiple Laboratories

同舟云学术

1.学者识别学者识别

2.学术分析学术分析

3.人才评估人才评估

"同舟云学术"是以全球学者为主线,采集、加工和组织学术论文而形成的新型学术文献查询和分析系统,可以对全球学者进行文献检索和人才价值评估。用户可以通过关注某些学科领域的顶尖人物而持续追踪该领域的学科进展和研究前沿。经过近期的数据扩容,当前同舟云学术共收录了国内外主流学术期刊6万余种,收集的期刊论文及会议论文总量共计约1.5亿篇,并以每天添加12000余篇中外论文的速度递增。我们也可以为用户提供个性化、定制化的学者数据。欢迎来电咨询!咨询电话:010-8811{复制后删除}0370

www.globalauthorid.com

TOP

Copyright © 2019-2024 北京同舟云网络信息技术有限公司
京公网安备11010802033243号  京ICP备18003416号-3