Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomics
Background: Shewanella algae is a zoonotic pathogen that poses a serious health threat to immunocompromised hosts. Treatment of S. algae infections is challenging due to the pathogen's intrinsic resistance to a variety of β-lactam antibiotics. Therapeutic options have become further limited by...
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Elsevier
2021-08-01
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Series: | Journal of Microbiology, Immunology and Infection |
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Online Access: | http://www.sciencedirect.com/science/article/pii/S1684118220301146 |
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doaj-768313a013c848ff9432f354fc74eec6 |
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record_format |
Article |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Chien-Hao Tseng Jan-Fang Cheng Shi-Yu Chen Wen-Huei Chen Zhi-Yuan Shi Yu-Hui Lin Che-An Tsai Shih-Ping Lin Yung-Chun Chen Yu-Chia Lin Yao-Ting Huang Po-Yu Liu |
spellingShingle |
Chien-Hao Tseng Jan-Fang Cheng Shi-Yu Chen Wen-Huei Chen Zhi-Yuan Shi Yu-Hui Lin Che-An Tsai Shih-Ping Lin Yung-Chun Chen Yu-Chia Lin Yao-Ting Huang Po-Yu Liu Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomics Journal of Microbiology, Immunology and Infection Shewanella algae DNA Gyrase Quinolones Susceptibility |
author_facet |
Chien-Hao Tseng Jan-Fang Cheng Shi-Yu Chen Wen-Huei Chen Zhi-Yuan Shi Yu-Hui Lin Che-An Tsai Shih-Ping Lin Yung-Chun Chen Yu-Chia Lin Yao-Ting Huang Po-Yu Liu |
author_sort |
Chien-Hao Tseng |
title |
Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomics |
title_short |
Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomics |
title_full |
Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomics |
title_fullStr |
Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomics |
title_full_unstemmed |
Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomics |
title_sort |
detection of s83v gyra mutation in quinolone-resistant shewanella algae using comparative genomics |
publisher |
Elsevier |
series |
Journal of Microbiology, Immunology and Infection |
issn |
1684-1182 |
publishDate |
2021-08-01 |
description |
Background: Shewanella algae is a zoonotic pathogen that poses a serious health threat to immunocompromised hosts. Treatment of S. algae infections is challenging due to the pathogen's intrinsic resistance to a variety of β-lactam antibiotics. Therapeutic options have become further limited by the emergence of quinolone-resistant strains. Currently, there are few studies concerning the genetic and molecular mechanisms underlying acquired quinolones resistance in S. algae. qnrA was once proposed as the candidate gene related to quinolones resistance in S. algae. However, recent studies demonstrated qnrA are highly conservative and does not confer resistance to quinolones in S. algae. Methods: A total of 27 non-duplicated isolates of S. algae strains were examined. MICs of ciprofloxacin were determined using Vitek 2. Whole genome sequencing was performed using MiSeq platform. Comprehensive Antibiotic Resistance Database and ResFinder were used for annotation of quinolones resistance genes. Multiple sequence alignment by EMBOSS Clustal Omega were used to identified mutation in quinolone resistance-determining regions. To investigation of the alteration of protein structure induced by mutation, in silico molecular docking studies was conducted using Accryl Discovery studio visualizer. Results: All S. algae harbored the quinolone-resistance associated genes (qnrA, gyrA, gyrB, parC, and parE) regardless its resistance to ciprofloxacin. Comparison of these genomes identified a nonsynonymous mutation (S83V) in chromosome-encoded gyrase subunits (GyrA) in quinolone-resistant strain. We found this mutation disrupts the water-metal ion bridge, reduces the affinity of the quinolone-enzyme complex for the metal ions and therefore decrease the capability of quinolones to stabilize cleavage complexes. Conclusions: The study provides insight into the quinolone resistance mechanisms in S. algae, which would be helpful for the evolution of antibiotic resistance in this bacterium. |
topic |
Shewanella algae DNA Gyrase Quinolones Susceptibility |
url |
http://www.sciencedirect.com/science/article/pii/S1684118220301146 |
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doaj-768313a013c848ff9432f354fc74eec62021-08-22T04:28:36ZengElsevierJournal of Microbiology, Immunology and Infection1684-11822021-08-01544658664Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomicsChien-Hao Tseng0Jan-Fang Cheng1Shi-Yu Chen2Wen-Huei Chen3Zhi-Yuan Shi4Yu-Hui Lin5Che-An Tsai6Shih-Ping Lin7Yung-Chun Chen8Yu-Chia Lin9Yao-Ting Huang10Po-Yu Liu11Division of Infectious Diseases, Department of Internal Medicine, Taichung Veterans General Hospital, Taichung, TaiwanDepartment of Energy, Joint Genome Institute, Walnut Creek, CA, USADepartment of Computer Science and Information Engineering, National Chung Cheng University, Chia-Yi, TaiwanDepartment of Computer Science and Information Engineering, National Chung Cheng University, Chia-Yi, TaiwanInfection Control Center, Taichung Veterans General Hospital, Taichung, TaiwanDivision of Infectious Diseases, Department of Internal Medicine, Taichung Veterans General Hospital, Taichung, TaiwanDivision of Infectious Diseases, Department of Internal Medicine, Taichung Veterans General Hospital, Taichung, TaiwanDivision of Infectious Diseases, Department of Internal Medicine, Taichung Veterans General Hospital, Taichung, TaiwanDepartment of Critical Care Medicine, Taichung Veterans General Hospital, Taichung, TaiwanDivision of Infectious Diseases, Chiayi Branch, Taichung Veterans General Hospital, Chia-Yi, 600, TaiwanDepartment of Computer Science and Information Engineering, National Chung Cheng University, Chia-Yi, Taiwan; Corresponding author. Department of Computer Science and Information Engineering, National Chung Cheng University, 168 University Rd., Min-Hsiung, Chia-Yi, 62102, Taiwan.Division of Infectious Diseases, Department of Internal Medicine, Taichung Veterans General Hospital, Taichung, Taiwan; Rong Hsing Research Center for Translational Medicine, National Chung Hsing University, Taichung, Taiwan; Ph.D. Program in Translational Medicine, National Chung Hsing University, Taichung, Taiwan; Corresponding author. Division of Infectious Diseases, Department of Internal Medicine, Taichung Veterans General Hospital, No.1650 Taiwan Boulevard Sect. 4, Xitun Dist, Taichung City, 40705, Taiwan.Background: Shewanella algae is a zoonotic pathogen that poses a serious health threat to immunocompromised hosts. Treatment of S. algae infections is challenging due to the pathogen's intrinsic resistance to a variety of β-lactam antibiotics. Therapeutic options have become further limited by the emergence of quinolone-resistant strains. Currently, there are few studies concerning the genetic and molecular mechanisms underlying acquired quinolones resistance in S. algae. qnrA was once proposed as the candidate gene related to quinolones resistance in S. algae. However, recent studies demonstrated qnrA are highly conservative and does not confer resistance to quinolones in S. algae. Methods: A total of 27 non-duplicated isolates of S. algae strains were examined. MICs of ciprofloxacin were determined using Vitek 2. Whole genome sequencing was performed using MiSeq platform. Comprehensive Antibiotic Resistance Database and ResFinder were used for annotation of quinolones resistance genes. Multiple sequence alignment by EMBOSS Clustal Omega were used to identified mutation in quinolone resistance-determining regions. To investigation of the alteration of protein structure induced by mutation, in silico molecular docking studies was conducted using Accryl Discovery studio visualizer. Results: All S. algae harbored the quinolone-resistance associated genes (qnrA, gyrA, gyrB, parC, and parE) regardless its resistance to ciprofloxacin. Comparison of these genomes identified a nonsynonymous mutation (S83V) in chromosome-encoded gyrase subunits (GyrA) in quinolone-resistant strain. We found this mutation disrupts the water-metal ion bridge, reduces the affinity of the quinolone-enzyme complex for the metal ions and therefore decrease the capability of quinolones to stabilize cleavage complexes. Conclusions: The study provides insight into the quinolone resistance mechanisms in S. algae, which would be helpful for the evolution of antibiotic resistance in this bacterium.http://www.sciencedirect.com/science/article/pii/S1684118220301146Shewanella algaeDNA GyraseQuinolonesSusceptibility |