Transcriptome analysis of cyst formation in Rhodospirillum centenum reveals large global changes in expression during cyst development

BMC Genomics
Qian Dong, Carl E Bauer

Abstract

Rhodospirillum centenum is a photosynthetic member of the Gram-negative Azospirillum clade members of which exhibit a complex developmental life-cycle featuring morphologically distinct cell types. Under periods of nutrient deprivation, replicative vegetative cells differentiate into metabolically dormant cysts that survive harsh environmental stresses such as desiccation. Encystment involves a multi-stage developmental process that includes the rounding of cells, production of large intracellular storage granules of poly-hydroxybutyrate (PHB) and the excretion of a protective exopolysaccharide coating that envelops dormant cysts. To study the process of cyst development, we performed RNA-seq studies on cells that were induced to undergo cyst development. To assay for temporal changes in gene expression, RNA was extracted at 4, 24, 48, 72, 96 hours during development and subjected to deep sequence analysis. These results show that 812 genes exhibit log2 ≥ 1.5-fold changes in expression over a 96 hour cyst induction period demonstrating large global changes in gene expression during cyst development. Notable changes in expression occurred in numerous genes involved in cell wall and lipid biosynthesis, metabolic enzymes, and nume...Continue Reading

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Methods Mentioned

BETA
RNA-seq
chip
environmental stresses
environmental stress
RNA Seq
phase contrast microscopy

Software Mentioned

Cufflinks
Bowtie
Integrative Genomics Viewer
Cuffdiff
GALAXY
METAMORPH
FASTQ Quality Trimmer

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