Caulobacter vibrioides
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA203017 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:We used deep RNA sequencing to obtain high coverage RNA-Seq data of five C. crescentus cell cycle stages, each with three biological replicates. We found that 1,586 genes (over a third of the genome) display significant differential expression between stages. This gene list, which contains many genes previously unknown for their cell cycle regulation, includes almost half of the genes involved in primary metabolism, suggesting that these "house-keeping" genes are not constitutively transcribed during the cell cycle, as often assumed. Gene and module co-expression clustering reveal co-regulated pathways and suggest functionally coupled genes. In addition, an evolutionary analysis of the cell cycle network shows a high correlation between co-expression and co-evolution. Most co-expression modules have strong phylogenetic signals, with broadly conserved genes and clade-specific genes predominating different substructures of the cell cycle co-expression network. We also found that conserved genes tend to determine the expression profile of their module. We describe the first phylogenetic and single-nucleotide-resolution transcriptomic analysis of a bacterial cell cycle network. In addition, the study suggests how evolution has shaped this network and provides direct biological network support that selective pressure is not on individual genes but rather on the relationship between genes, which highlights the importance of integrating phylogenetic analysis into biological network studies. Examination of 5 typical cell cycle types (5 samples), each with 3 biological replicates
2013-05-15 | E-GEOD-46915 | biostudies-arrayexpress
Project description:Ribosome Profiling Reveals Translational Control During the Caulobacter crescentus cell cycle
| PRJNA282016 | ENA
Project description:The bacterial cell-cycle regulator GcrA is a σ70 co-factor that drives gene expression from a subset of methylated promoters.
| PRJNA298529 | ENA
Project description:We used deep RNA sequencing to obtain high coverage RNA-Seq data of five C. crescentus cell cycle stages, each with three biological replicates. We found that 1,586 genes (over a third of the genome) display significant differential expression between stages. This gene list, which contains many genes previously unknown for their cell cycle regulation, includes almost half of the genes involved in primary metabolism, suggesting that these "house-keeping" genes are not constitutively transcribed during the cell cycle, as often assumed. Gene and module co-expression clustering reveal co-regulated pathways and suggest functionally coupled genes. In addition, an evolutionary analysis of the cell cycle network shows a high correlation between co-expression and co-evolution. Most co-expression modules have strong phylogenetic signals, with broadly conserved genes and clade-specific genes predominating different substructures of the cell cycle co-expression network. We also found that conserved genes tend to determine the expression profile of their module. We describe the first phylogenetic and single-nucleotide-resolution transcriptomic analysis of a bacterial cell cycle network. In addition, the study suggests how evolution has shaped this network and provides direct biological network support that selective pressure is not on individual genes but rather on the relationship between genes, which highlights the importance of integrating phylogenetic analysis into biological network studies.
2013-05-15 | GSE46915 | GEO
Project description:DnaA coordinates replication initiation and cell cycle transcription in Caulobacter crescentus
| PRJNA92711 | ENA
Project description:A kinase-phosphatase switch transduces environmental information into a bacterial cell cycle circuit
| PRJNA354380 | ENA
Project description:Cytokinesis signals truncation of the PodJ polarity factor by a cell cycle-regulated protease
| PRJNA92975 | ENA
Project description:Measuring transcriptional differences between Caulobacter crescentus cultured in nitrate versus ammonium as the sole nitrogen source
| PRJNA126287 | ENA
Project description:The Global Landscape of Transcription Initiation During the Caulobacter Cell Cycle [timecourse]
| PRJNA246337 | ENA