Journal Article

Comparative Genomics among Closely Related Streptomyces Strains Revealed Specialized Metabolite Biosynthetic Gene Cluster Diversity

Thibessard, Annabelle, ANR-07-BLAN-0096,StreptoFlux,Gene flux in Streptomyces: conjugative transfer, chromosomal recombination, and impact of biotic factors., IMPACT BIOMOLECULES, Leblond, Pierre, Lespinet, Olivier, Dynamique des Génomes et Adaptation Microbienne (DynAMic) ; Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), European Project: 609398,EC:FP7:PEOPLE,FP7-PEOPLE-2013-COFUND,AGREENSKILLSPLUS, Institut de Biologie Intégrative de la Cellule (I2BC) ; Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Vicente, Cláudia M, Lorenzi, Jean-Noël, Benhadj, Mabrouka, Aigle, Bertrand, Université Badji Mokhtar [Annaba] = Badji Mokhtar University [Annaba] = (عنابة) جامعة باجي مختار–عنابة (UBMA), Hotel, Laurence, Gacemi-Kirane, Djamila, ANR-13-BSV6-0009,MiGenIs,Recherche de nouveaux gènes du métabolisme secondaire par exploration d'ilots génomiques, ANR-15-IDEX-0004,LUE,Isite LUE, French National Res

2018

Overview

Specialized metabolites are of great interest due to their possible industrial and clinical applications. The increasing number of antimicrobial resistant infectious agents is a major health threat and therefore, the discovery of chemical diversity and new antimicrobials is crucial. Extensive genomic data from Streptomyces spp. confirm their production potential and great importance. Genome sequencing of the same species strains indicates that specialized metabolite biosynthetic gene cluster (SMBGC) diversity is not exhausted, and instead, a pool of novel specialized metabolites still exists. Here, we analyze the genome sequence data from six phylogenetically close Streptomyces strains. The results reveal that the closer strains are phylogenetically, the number of shared gene clusters is higher. Eight specialized metabolites comprise the core metabolome, although some strains have only six core gene clusters. The number of conserved gene clusters common between the isolated strains and their closest phylogenetic counterparts varies from nine to 23 SMBGCs. However, the analysis of these phylogenetic relationships is not affected by the acquisition of gene clusters, probably by horizontal gene transfer events, as each strain also harbors strain-specific SMBGCs. Between one and 15 strain-specific gene clusters were identified, of which up to six gene clusters in a single strain are unknown and have no identifiable orthologs in other species, attesting to the existing SMBGC novelty at the strain level.

• Publisher: MDPI,CCSD,MDPI AG
• Subject: Antibiotics / Antiinfectives and antibacterials / Antimicrobial agents / Bacteriology / Biochemistry, Molecular Biology / biosynthetic gene cluster / Communication / Gene clusters / Gene sequencing / Gene transfer / Genomes / Genomics / Health risks / Horizontal transfer / Life Sciences / Metabolites / Microbiology and Parasitology / Microorganisms / Natural products / Nucleotide sequence / Phylogenetics / Phylogeny / Ribosomal DNA / RNA polymerase / specialized metabolites / strain / Streptomyces / Taxonomy
• ISBN: 0004570621000