Thesis

Comparative genomics to understand specialised metabolism in Micromonospora

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Awarding institution
  • University of Strathclyde
Date of award
  • 2023
Thesis identifier
  • T16741
Person Identifier (Local)
  • 201877517
Qualification Level
Qualification Name
Department, School or Faculty
Abstract
  • Hyphal, sporulating members of the Actinomycetota (actinomycetes) – genera suchas Micromonospora and Streptomyces – are notable for production of multiple usefulantibiotic natural products. The aim of this project was to screen actinomycete isolatesfrom the Atacama Desert and Scottish soil for production of natural product antibioticswhich inhibit the growth of Pseudomonas aeruginosa, a frequently multidrug resistantpathogen, and to sequence the genomes of producing organisms to identifybiosynthetic gene clusters (BGCs) which drove that activity.Here we report the sequence of four actinomycetes – one Streptomyces isolate fromGlasgow Botanic Gardens (S. sp. GBG 9AT) and three Micromonospora(Micromonospora sp. O3, Micromonospora sp. O5, and Micromonospora sp. PH63)isolated from Atacama Desert Soil. Multiple Sequence Alignment based phylogenyand average nucleotide identity (ANI) calculations identified S. sp. GBG 9AT asStreptomyces xanthophaeus, a well characterized streptomycete. The samemethodology identified the three Micromonospora isolates as three novelgenospecies. All organisms were BGC rich.We also sought out to examine possible regulation of these BGCs. Of well-knowndevelopmental regulators conserved within Streptomyces, we identify the masterregulator BldD as the only universally conserved regulator within the threeMicromonospora. In addition, the three strains are predicted to lack functional BldA,a developmentally regulated tRNA which controls morphological differentiation andantibiotic production. Finally, we analysed the loci of BGCs in single contig assembliesof Micromonospora and identify two distinct populations of BGCs occupying the oriCproximal and oriC-distal regions of the chromosome, a distribution distinct from thatof Streptomyces.This work shows a genomic landscape in Micromonospora which is distinct from thatof previously studied actinomycetes and lays the groundwork for future studies of theevolution of antibiotic production in these organisms.
Advisor / supervisor
  • Herron, Paul
Resource Type
DOI
Date Created
  • 2022

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