Abstract
Nocardia farcinica is the leading pathogen responsible for nocardiosis, a life-threatening infection primarily affecting immunocompromised patients. In this study, the genomic sequence of a clinically isolated N. farcinica sample was sequenced. Subsequently, the assembled genome was annotated to identify antimicrobial resistance and virulence genes, as well as plasmid and prophages. The analysis of the entire genome size was 6,021,225 bp, with a GC content of 70.78% and consists of 103 contigs and N50 values of 292,531 bp. The genome analysis revealed the presence of several antimicrobial resistance genes, including RbpA, mtrA, FAR-1, blaFAR-1, blaFAR-1_1, and rox. In addition, virulence genes such as relA, icl, and mbtH were also detected. The present study signifies that N. farcinica genome is pivotal for the understanding of antimicrobial resistance and virulence genes is crucial for comprehending resistance mechanism, and developing effective strategies to combat bacterial infections effectively, especially adhesins and toxins. This study aids in identifying crucial drug targets for combating multidrug-resistant N. farcinica in the future.
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Data availability
We deposited at the NCBI databases raw reads under the SRA are SRX17912461. The associated bioproject and biosample accession numbers are PRJNA890792 and SAMN31293886.
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The author thank MHRD—RUSA 2.0, New Delhi (F.24e51/2014-U), TANSCHE (RGP/2019-20/ALU/HECP-0049 dated: 27/04/2021), DST-INDO-TAIWAN (GITA/DST/TWN/P-86/2019), Department of Biotechnology Bioinformatics Centre (BIC)-No. BT/PR40154/BTIS/137/34/2021, DBT-NNP-N0.BT/PR40156/BTIS/137/54/2023, DST-Fund for Improvement of S&T Infrastructure in Universities & Higher Educational Institutions (FIST) (SR/FST/LSI-667/2016) (C), and DST-Promotion of University Research and Scientific Excellence (PURSE phase II) (No. SR/PURSE Phase 2/38(G), 2017), NH greatly acknowledges the Department of Science and Technology (DST), for financial assistance through DST/INSPIRE Fellowship/2019/IF190083. Policy (TNMulti-Gen). RR thankfully acknowledges the Indian Council of Medical Research [AMR/Fellowship/24/2022-ECD-II] for a Senior Research Fellowship. MA sincerely acknowledges the Indian Council of Medical Research, New Delhi for providing financial assistance through Research Associate (AMR/Fellowship/39/2022-ECD-II).
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SN: Conceptualizations, data curation, formal analysis, visualization, writing—original draft, writing—review and editing, RR: Conceptualizations and data curation, NH: writing—review and editing, AM: AST analysis, JJ: Conceptualizations, methodology, supervision, funding acquisition, writing—review and editing, CJ and JDK: resources, sample collection, and sequencing.
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Nathar, S., Rajmichael, R., Jeyaraj Pandian, C. et al. Exploring Nocardia’s ecological spectrum and novel therapeutic frontiers through whole-genome sequencing: unraveling drug resistance and virulence factors. Arch Microbiol 206, 76 (2024). https://doi.org/10.1007/s00203-023-03799-z
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DOI: https://doi.org/10.1007/s00203-023-03799-z