Differential stress transcriptome landscape of historic and recently emerged hypervirulent strains of Clostridium difficile strains determined using RNA-seq

Joy Scaria, Chunhong Mao, Jenn-Wei Chen, Sean P. McDonough, Bruno Sobral, Yung Fu Chang

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

C. difficile is the most common cause of nosocomial diarrhea in North America and Europe. Genomes of individual strains of C. difficile are highly divergent. To determine how divergent strains respond to environmental changes, the transcriptomes of two historic and two recently isolated hypervirulent strains were analyzed following nutrient shift and osmotic shock. Illumina based RNA-seq was used to sequence these transcriptomes. Our results reveal that although C. difficile strains contain a large number of shared and strain specific genes, the majority of the differentially expressed genes were core genes. We also detected a number of transcriptionally active regions that were not part of the primary genome annotation. Some of these are likely to be small regulatory RNAs.

Original languageEnglish
Article numbere78489
JournalPloS one
Volume8
Issue number11
DOIs
Publication statusPublished - 2013 Nov 7

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Clostridium difficile
Clostridium
Transcriptome
transcriptome
Genes
RNA
Genome
Osmotic Pressure
North America
Diarrhea
genome
genes
Food
osmotic stress
Nutrients
diarrhea
nutrients

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

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abstract = "C. difficile is the most common cause of nosocomial diarrhea in North America and Europe. Genomes of individual strains of C. difficile are highly divergent. To determine how divergent strains respond to environmental changes, the transcriptomes of two historic and two recently isolated hypervirulent strains were analyzed following nutrient shift and osmotic shock. Illumina based RNA-seq was used to sequence these transcriptomes. Our results reveal that although C. difficile strains contain a large number of shared and strain specific genes, the majority of the differentially expressed genes were core genes. We also detected a number of transcriptionally active regions that were not part of the primary genome annotation. Some of these are likely to be small regulatory RNAs.",
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Differential stress transcriptome landscape of historic and recently emerged hypervirulent strains of Clostridium difficile strains determined using RNA-seq. / Scaria, Joy; Mao, Chunhong; Chen, Jenn-Wei; McDonough, Sean P.; Sobral, Bruno; Chang, Yung Fu.

In: PloS one, Vol. 8, No. 11, e78489, 07.11.2013.

Research output: Contribution to journalArticle

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