title: Comparative RNA-sequencing of the acarbose producer Actinoplanes sp. SE50/110 cultivated in different growth media.
abstract: Actinoplanes sp. SE50/110 is known as the producer of the alpha-glucosidase inhibitor acarbose, a potent drug in the treatment of type-2 diabetes mellitus. We conducted the first whole transcriptome analysis of Actinoplanes sp. SE50/110, using RNA-sequencing technology for comparative gene expression studies between cells grown in maltose minimal medium, maltose minimal medium with trace elements, and glucose complex medium. We first studied the behavior of Actinoplanes sp. SE50/110 cultivations in these three media and found that the different media had significant impact on growth rate and in particular on acarbose production. It was demonstrated that Actinoplanes sp. SE50/110 grew well in all three media, but acarbose biosynthesis was only observed in cultures grown in maltose minimal medium with and without trace elements. When comparing the expression profiles between the maltose minimal media with and without trace elements, only few significantly differentially expressed genes were found, which mainly code for uptake systems of metal ions provided in the trace element solution. In contrast, the comparison of expression profiles from maltose minimal medium and glucose complex medium revealed a large number of differentially expressed genes, of which the most conspicuous genes account for iron storage and uptake. Furthermore, the acarbose gene cluster was found to be highly expressed in maltose-containing media and almost silent in the glucose-containing medium. In addition, a putative antibiotic biosynthesis gene cluster was found to be similarly expressed as the acarbose cluster.
authors.affiliation: Senior Research Group for Genome Research of Industrial Microorganisms, Center for Biotechnology, Bielefeld University, Universitätsstraße 27, 33615 Bielefeld, Germany. PSchwien@CeBiTec.Uni-Bielefeld.de
authors.forename: Patrick
authors.initials: P
authors.lastname: Schwientek
authors.forename: Sergej
authors.initials: S
authors.lastname: Wendler
authors.forename: Armin
authors.initials: A
authors.lastname: Neshat
authors.forename: Christina
authors.initials: C
authors.lastname: Eirich
authors.forename: Christian
authors.initials: C
authors.lastname: Rückert
authors.forename: Andreas
authors.initials: A
authors.lastname: Klein
authors.forename: Udo F
authors.initials: UF
authors.lastname: Wehmeier
authors.forename: Jörn
authors.initials: J
authors.lastname: Kalinowski
authors.forename: Jens
authors.initials: J
authors.lastname: Stoye
authors.forename: Alfred
authors.initials: A
authors.lastname: Pühler
mesh_terms: D020909:Acarbose / Q000378:metabolism*; D001483:Base Sequence; D003470:Culture Media; D020869:Gene Expression Profiling / Q000379:methods; D005798:Genes, Bacterial / Q000235:genetics*; D005947:Glucose / Q000378:metabolism; D006094:Gram-Positive Bacteria / Q000235:genetics* / Q000254:growth & development* / Q000378:metabolism; D008320:Maltose / Q000378:metabolism; D005810:Multigene Family / Q000235:genetics; D014176:Protein Biosynthesis; D012313:RNA / Q000235:genetics*; D017423:Sequence Analysis, RNA / Q000379:methods; D014131:Trace Elements / Q000378:metabolism; D014158:Transcription, Genetic; D059467:Transcriptome
chemical_list: D003470:Culture Media; D014131:Trace Elements; D012313:RNA; D008320:Maltose; D005947:Glucose; D020909:Acarbose
keywords: Acarbose; Actinoplanes; Differential expression; RNA-sequencing; Transcriptomics