Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential

Lorena Carro, Imen Nouioui, Vartul Sangal, Jan P. Meier-kolthoff, Martha E. Trujillo, Maria Del Carmen Montero-calasanz, Nevzat Sahin, Darren Lee Smith, Kristi E. Kim, Paul Peluso, Shweta Deshpande, Tanja Woyke, Nicole Shapiro, Nikos C. Kyrpides, Hans-peter Klenk, Markus Göker, Michael Goodfellow

Research output: Contribution to journalArticlepeer-review

41 Citations (Scopus)

Abstract

There is a need to clarify relationships within the actinobacterial genus Micromonospora, the type genus of the family Micromonosporaceae, given its biotechnological and ecological importance. Here, draft genomes of 40 Micromonospora type strains and two non-type strains are made available through the Genomic Encyclopedia of Bacteria and Archaea project and used to generate a phylogenomic tree which showed they could be assigned to well supported phyletic lines that were not evident in corresponding trees based on single and concatenated sequences of conserved genes. DNA G+C ratios derived from genome sequences showed that corresponding data from species descriptions were imprecise. Emended descriptions include precise base composition data and approximate genome sizes of the type strains. antiSMASH analyses of the draft genomes show that micromonosporae have a previously unrealised potential to synthesize novel specialized metabolites. Close to one thousand biosynthetic gene clusters were detected, including NRPS, PKS, terpenes and siderophores clusters that were discontinuously distributed thereby opening up the prospect of prioritising gifted strains for natural product discovery. The distribution of key stress related genes provide an insight into how micromonosporae adapt to key environmental variables. Genes associated with plant interactions highlight the potential use of micromonosporae in agriculture and biotechnology.
Original languageEnglish
Article number525
JournalScientific Reports
Volume8
Issue number1
Early online date11 Jan 2018
DOIs
Publication statusPublished - 1 Dec 2018

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