Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in Vietnam
Objectives: The aim of this study was to report the draft genome sequences of two multidrug-resistant bacteria (Bacteroides thetaiotaomicron F9-2 and Escherichia coli 09-02E) isolated from stool samples of a healthy resident in Vietnam. Methods: Genome sequences were determined using MiSeq and MinIO...
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doaj-4746ecb9c2154c4a96a4bedaacf4cee52021-05-20T07:49:13ZengElsevierJournal of Global Antimicrobial Resistance2213-71652020-06-01216567Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in VietnamMashkoor Mohsin0Kaori Tanaka1Ryuji Kawahara2Shinji Kondo3Hideki Noguchi4Daisuke Motooka5Shota Nakamura6Diep Thi Khong7Thang Nam Nguyen8Trong Nang Hoang9Yoshimasa Yamamoto10Division of Anaerobe Research, Life Science Research Center, Gifu University, Gifu, Japan; Institute of Microbiology, University of Agriculture, Faisalabad, PakistanDivision of Anaerobe Research, Life Science Research Center, Gifu University, Gifu, JapanDepartment of Microbiology, Osaka Institute of Public Health, Osaka, JapanJoint Support-Center for Data Science Research, Research Organization of Information and Systems, Mishima, JapanJoint Support-Center for Data Science Research, Research Organization of Information and Systems, Mishima, JapanGenome Information Research Center, Research Institute for Microbial Diseases, Osaka University, Osaka, JapanGenome Information Research Center, Research Institute for Microbial Diseases, Osaka University, Osaka, JapanCenter of Medical-Pharmaceutical Science and Technology Services, Thai Binh University of Medicine and Pharmacy, Thai Binh, Viet NamCenter of Medical-Pharmaceutical Science and Technology Services, Thai Binh University of Medicine and Pharmacy, Thai Binh, Viet NamCenter of Medical-Pharmaceutical Science and Technology Services, Thai Binh University of Medicine and Pharmacy, Thai Binh, Viet NamDivision of Anaerobe Research, Life Science Research Center, Gifu University, Gifu, Japan; Graduate School of Pharmaceutical Sciences, Osaka University, Suita, Japan; Corresponding author. Present address: Life Science Research Center, Gifu University, 1-1 Yanagido, Gifu 501-1194, Japan.Objectives: The aim of this study was to report the draft genome sequences of two multidrug-resistant bacteria (Bacteroides thetaiotaomicron F9-2 and Escherichia coli 09-02E) isolated from stool samples of a healthy resident in Vietnam. Methods: Genome sequences were determined using MiSeq and MinION platforms. Genome assembly was performed using Platanus Assembler v.1.2.4 and Canu v.1.7. The DDBJ Fast Annotation and Submission Tool were used for genome annotation. Results: The genome of B. thetaiotaomicron F9-2 comprised 6 283 774 bp with a GC content of 42.7% and 4802 protein coding sequences (CDS), whereas the genome of E. coli 09-02E comprised 5 246 320 bp with a GC content of 50.6% and 4991 protein CDS. Both strains harboured common antimicrobial resistance genes, such as those for sulfonamides (sul2) and aminoglycosides (strA, strB). However, the sul2–strA–strB cassette was located on the chromosome of B. thetaiotaomicron F9-2, whereas it was located on a plasmid in E. coli 09-02E. These genes were flanked by different insertion sequences. Conclusion: Considering their diversities in the human gut resistome, these strains would be of considerable interest for detailed comparative genomic analysis. Notably, the same sul2 cassette was found in facultative and obligate anaerobic bacterial isolates (resident in humans). However, the different location of the cassette indicates a possible mechanism of gene transfer among gut microbes.http://www.sciencedirect.com/science/article/pii/S2213716520300679Whole-genome sequencingBacteroides thetaiotaomicronEscherichia coliAntimicrobial resistance geneGut microbesAnaerobe |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Mashkoor Mohsin Kaori Tanaka Ryuji Kawahara Shinji Kondo Hideki Noguchi Daisuke Motooka Shota Nakamura Diep Thi Khong Thang Nam Nguyen Trong Nang Hoang Yoshimasa Yamamoto |
spellingShingle |
Mashkoor Mohsin Kaori Tanaka Ryuji Kawahara Shinji Kondo Hideki Noguchi Daisuke Motooka Shota Nakamura Diep Thi Khong Thang Nam Nguyen Trong Nang Hoang Yoshimasa Yamamoto Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in Vietnam Journal of Global Antimicrobial Resistance Whole-genome sequencing Bacteroides thetaiotaomicron Escherichia coli Antimicrobial resistance gene Gut microbes Anaerobe |
author_facet |
Mashkoor Mohsin Kaori Tanaka Ryuji Kawahara Shinji Kondo Hideki Noguchi Daisuke Motooka Shota Nakamura Diep Thi Khong Thang Nam Nguyen Trong Nang Hoang Yoshimasa Yamamoto |
author_sort |
Mashkoor Mohsin |
title |
Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in Vietnam |
title_short |
Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in Vietnam |
title_full |
Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in Vietnam |
title_fullStr |
Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in Vietnam |
title_full_unstemmed |
Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in Vietnam |
title_sort |
whole-genome sequencing and comparative analysis of the genomes of bacteroides thetaiotaomicron and escherichia coli isolated from a healthy resident in vietnam |
publisher |
Elsevier |
series |
Journal of Global Antimicrobial Resistance |
issn |
2213-7165 |
publishDate |
2020-06-01 |
description |
Objectives: The aim of this study was to report the draft genome sequences of two multidrug-resistant bacteria (Bacteroides thetaiotaomicron F9-2 and Escherichia coli 09-02E) isolated from stool samples of a healthy resident in Vietnam. Methods: Genome sequences were determined using MiSeq and MinION platforms. Genome assembly was performed using Platanus Assembler v.1.2.4 and Canu v.1.7. The DDBJ Fast Annotation and Submission Tool were used for genome annotation. Results: The genome of B. thetaiotaomicron F9-2 comprised 6 283 774 bp with a GC content of 42.7% and 4802 protein coding sequences (CDS), whereas the genome of E. coli 09-02E comprised 5 246 320 bp with a GC content of 50.6% and 4991 protein CDS. Both strains harboured common antimicrobial resistance genes, such as those for sulfonamides (sul2) and aminoglycosides (strA, strB). However, the sul2–strA–strB cassette was located on the chromosome of B. thetaiotaomicron F9-2, whereas it was located on a plasmid in E. coli 09-02E. These genes were flanked by different insertion sequences. Conclusion: Considering their diversities in the human gut resistome, these strains would be of considerable interest for detailed comparative genomic analysis. Notably, the same sul2 cassette was found in facultative and obligate anaerobic bacterial isolates (resident in humans). However, the different location of the cassette indicates a possible mechanism of gene transfer among gut microbes. |
topic |
Whole-genome sequencing Bacteroides thetaiotaomicron Escherichia coli Antimicrobial resistance gene Gut microbes Anaerobe |
url |
http://www.sciencedirect.com/science/article/pii/S2213716520300679 |
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