Unravelling the interplay of antimicrobial resistance and stress response in the saline desert metagenomes of Gujarat, India

IF 1 Q4 GENETICS & HEREDITY

Gene Reports Pub Date : 2025-04-02 DOI:10.1016/j.genrep.2025.102216

R. Sahana , Vishal Mevada , Urvisha Beladiya , Dhaval Prajapati , Himani Gandhi , Rajesh Patel

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引用次数: 0

Abstract

The metagenomic analysis of the present study states the intricate community of salt-tolerant bugs living in saline soils from Kutch, Gujarat. Metagenomics sequencing has already been explored in this region for community analysis. However, we analyzed the metagenome of a saline desert and compared it with publicly available published metagenomes to identify common antimicrobial resistance found in the saline desert. The bioinformatics-based analysis revealed the presence of various antibiotic resistance (AMR) genes in Escherichia coli EF-Tu mutants, which confer resistance to several compounds, including Pulvomycin, FosG, rsmA, qacJ, and qacG. Additionally, the vanW gene in the vanI cluster and the vanY gene in the vanM cluster were identified. These mutants exhibit different resistance mechanisms, such as antibiotic inactivation (VanA — VIM-VIA), alteration of antibiotic targets (cfr and VanB), and the involvement of antibiotic efflux pumps, etc. The prevalence of AMR genes related to efflux pump indicates the importance of this genes (copR, bcrA, cesC, merA, narA, tetA, trxLHR and yfeB) toward salt tolerance and antibiotic resistance. This effect was robust even when human impacts were not substantial, illustrating the overwhelming adaptability of these organisms. The variable presence of these genes throughout the samples highlights an environmental effect on their distribution, suggesting a resistance mechanism. This work paves the way to understanding antimicrobial resistance genes produced in these pristine, human-untouched places.

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来源期刊

Gene Reports Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

3.30

自引率

7.70%

发文量

246

审稿时长

49 days

期刊介绍： Gene Reports publishes papers that focus on the regulation, expression, function and evolution of genes in all biological contexts, including all prokaryotic and eukaryotic organisms, as well as viruses. Gene Reports strives to be a very diverse journal and topics in all fields will be considered for publication. Although not limited to the following, some general topics include: DNA Organization, Replication & Evolution -Focus on genomic DNA (chromosomal organization, comparative genomics, DNA replication, DNA repair, mobile DNA, mitochondrial DNA, chloroplast DNA). Expression & Function - Focus on functional RNAs (microRNAs, tRNAs, rRNAs, mRNA splicing, alternative polyadenylation) Regulation - Focus on processes that mediate gene-read out (epigenetics, chromatin, histone code, transcription, translation, protein degradation). Cell Signaling - Focus on mechanisms that control information flow into the nucleus to control gene expression (kinase and phosphatase pathways controlled by extra-cellular ligands, Wnt, Notch, TGFbeta/BMPs, FGFs, IGFs etc.) Profiling of gene expression and genetic variation - Focus on high throughput approaches (e.g., DeepSeq, ChIP-Seq, Affymetrix microarrays, proteomics) that define gene regulatory circuitry, molecular pathways and protein/protein networks. Genetics - Focus on development in model organisms (e.g., mouse, frog, fruit fly, worm), human genetic variation, population genetics, as well as agricultural and veterinary genetics. Molecular Pathology & Regenerative Medicine - Focus on the deregulation of molecular processes in human diseases and mechanisms supporting regeneration of tissues through pluripotent or multipotent stem cells.