Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex

Mycobacteroides abscessus complex (MABC) is an emerging pathogen that causes human infections and resistance to multiple antibiotics. In this study, the genome data of 1,581 MABC strains were downloaded from NCBI Genome database for resistome analysis. The MABC strains were classified based on phylo...

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Main Author:	Chong, Shay Lee
Format:	Thesis
Published:	2021
Subjects:	QH Natural history
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spelling	my-mmu-ep.111532023-02-24T09:17:11Z Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex 2021-09 Chong, Shay Lee QH Natural history Mycobacteroides abscessus complex (MABC) is an emerging pathogen that causes human infections and resistance to multiple antibiotics. In this study, the genome data of 1,581 MABC strains were downloaded from NCBI Genome database for resistome analysis. The MABC strains were classified based on phylogenomic analysis and examined to identify the differences in antibiotic resistance proteins (ARPs) distribution among MABC subspecies. In addition, evolutionary analysis was performed on resistomes to evaluate the impact of evolution on the resistance of MABC. Multiple Biopython and Bash scripts were coded to handle and manage the genomes big data. A total of 395 putative ARPs, distributed among 28 antibiotic classes in accordance with CARD and ARG-ANNOT were predicted. The ARPs most frequently identified in MABC were those associated with resistance to multiple antibiotic classes, beta-lactams, and aminoglycosides. After excluding ARPs that had undergone recombination, two ARPs were predicted to be influenced by diversifying selection and 202 experienced purifying selection. The wide occurrence of purifying selection suggested that the amino acid diversity of commonly shared ARPs in MABC may have been reduced to achieve protein stability. The unequal distribution of ARPs in members of the MABC complex could be due to horizontal gene transfer or ARPs pseudogenization events. Most (81.5%) of the ARPs were observed in the accessory genome and 72.2% ARPs were highly homologous to proteins associated with mobile genetic elements such as plasmids, prophages, and viruses. On the other hand, with TBLASTN search, only 18 of the ARPs were identified as pseudogenes. Altogether, this study suggested an important role of horizontal gene transfer in shaping the resistome of MABC. The present study provides insights into the antibiotic resistomes in MABC and the evolutionary forces exerted on the resistomes. These findings would be useful in designing new therapeutic strategies and potential discovery of new antibiotics. 2021-09 Thesis http://shdl.mmu.edu.my/11153/ http://erep.mmu.edu.my/ masters Multimedia University Faculty of Information Science and Technology EREP ID: 9882
institution	Multimedia University
collection	MMU Institutional Repository
topic	QH Natural history
spellingShingle	QH Natural history Chong, Shay Lee Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex
description	Mycobacteroides abscessus complex (MABC) is an emerging pathogen that causes human infections and resistance to multiple antibiotics. In this study, the genome data of 1,581 MABC strains were downloaded from NCBI Genome database for resistome analysis. The MABC strains were classified based on phylogenomic analysis and examined to identify the differences in antibiotic resistance proteins (ARPs) distribution among MABC subspecies. In addition, evolutionary analysis was performed on resistomes to evaluate the impact of evolution on the resistance of MABC. Multiple Biopython and Bash scripts were coded to handle and manage the genomes big data. A total of 395 putative ARPs, distributed among 28 antibiotic classes in accordance with CARD and ARG-ANNOT were predicted. The ARPs most frequently identified in MABC were those associated with resistance to multiple antibiotic classes, beta-lactams, and aminoglycosides. After excluding ARPs that had undergone recombination, two ARPs were predicted to be influenced by diversifying selection and 202 experienced purifying selection. The wide occurrence of purifying selection suggested that the amino acid diversity of commonly shared ARPs in MABC may have been reduced to achieve protein stability. The unequal distribution of ARPs in members of the MABC complex could be due to horizontal gene transfer or ARPs pseudogenization events. Most (81.5%) of the ARPs were observed in the accessory genome and 72.2% ARPs were highly homologous to proteins associated with mobile genetic elements such as plasmids, prophages, and viruses. On the other hand, with TBLASTN search, only 18 of the ARPs were identified as pseudogenes. Altogether, this study suggested an important role of horizontal gene transfer in shaping the resistome of MABC. The present study provides insights into the antibiotic resistomes in MABC and the evolutionary forces exerted on the resistomes. These findings would be useful in designing new therapeutic strategies and potential discovery of new antibiotics.
format	Thesis
qualification_level	Master's degree
author	Chong, Shay Lee
author_facet	Chong, Shay Lee
author_sort	Chong, Shay Lee
title	Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex
title_short	Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex
title_full	Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex
title_fullStr	Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex
title_full_unstemmed	Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex
title_sort	computational drug resistomes analyses of mycobacteroides abscessus complex
granting_institution	Multimedia University
granting_department	Faculty of Information Science and Technology
publishDate	2021
_version_	1776101399326621696

Computational Drug Resistomes Analyses of Mycobacteroides Abscessus Complex

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