Primary transcriptome and translatome analysis determines transcriptional and translational regulatory elements encoded in the Streptomyces clavuligerus genome

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Determining transcriptional and translational regulatory elements in GC-rich Streptomyces genomes is essential to elucidating the complex regulatory networks that govern secondary metabolite biosynthetic gene cluster (BGC) expression. However, information about such regulatory elements has been limited for Streptomyces genomes. To address this limitation, a high-quality genome sequence of beta-lactam antibiotic-producing Streptomyces clavuligerus ATCC 27064 is completed, which contains 7163 newly annotated genes. This provides a fundamental reference genome sequence to integrate multiple genome-scale data types, including dRNA-Seq, RNA-Seq and ribosome profiling. Data integration results in the precise determination of 2659 transcription start sites which reveal transcriptional and translational regulatory elements, including -10 and -35 promoter components specific to sigma (sigma) factors, and 5 '-untranslated region as a determinant for translation efficiency regulation. Particularly, sequence analysis of a wide diversity of the -35 components enables us to predict potential sigma-factor regulons, along with various spacer lengths between the -10 and -35 elements. At last, the primary transcriptome landscape of the beta-lactam biosynthetic pathway is analyzed, suggesting temporal changes in metabolism for the synthesis of secondary metabolites driven by transcriptional regulation. This comprehensive genetic information provides a versatile genetic resource for rational engineering of secondary metabolite BGCs in Streptomyces.
Publisher
OXFORD UNIV PRESS
Issue Date
2019-05
Language
English
Article Type
Article
Citation

NUCLEIC ACIDS RESEARCH, v.47, no.12, pp.6114 - 6129

ISSN
0305-1048
DOI
10.1093/nar/gkz471
URI
http://hdl.handle.net/10203/264006
Appears in Collection
BS-Journal Papers(저널논문)
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