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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Next Generation Sequencing Analysis of Saccharopolyspora erytharea transcriptomes

ABSTRACT: We report the high-throughput profiling of saccharopolyspora erythraea life cycle in bioreactors. RNA was harvested at seven time-points from bioreactors, three points immediately before, one during and three following the metabolic switch (as evidenced by biomass cell dry weight). We prepared unstranded RNA libraries and sequenced 363 million reads for a total of 32.7Gb and a mean ~4,000 fold coverage of the genome. Our comprehensive sequencing showed the S.erythraea genome to be prevalently transcribed, with at least 85.8% of genome sequence from either strand being transcribed. We sequenced a bioreactor fermentation at seven time points.

ORGANISM(S): Saccharopolyspora erythraea

SUBMITTER: Esteban Marcellin

PROVIDER: E-GEOD-39722 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Saccharopolyspora erythraea's genome is organised in high-order transcriptional regions mediated by targeted degradation at the metabolic switch.

Marcellin Esteban E Mercer Tim R TR Licona-Cassani Cuauhtemoc C Palfreyman Robin W RW Dinger Marcel E ME Steen Jennifer A JA Mattick John S JS Nielsen Lars K LK

BMC genomics 20130116

<h4>Background</h4>Actinobacteria form a major bacterial phylum that includes numerous human pathogens. Actinobacteria are primary contributors to carbon cycling and also represent a primary source of industrial high value products such as antibiotics and biopesticides. Consistent with other members of the actinobacterial phylum, Saccharopolyspora erythraea undergo a transitional switch. This switch is characterized by numerous metabolic and morphological changes.<h4>Results</h4>We performed RNA ...[more]

PMID: 23324121

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