Project description:The majority of bacterial genomes have high coding efficiencies, but there are an few genomes of the intracellular bacteria that have low gene density. The genome of the endosymbiont Sodalis glossinidius contains almost 50% pseudogenes containing mutations that putatively silence them at the genomic level. We have applied multiple omic strategies: combining single molecule DNA-sequencing and annotation; stranded RNA-sequencing and proteome analysis to better understand the transcriptional and translational landscape of Sodalis pseudogenes, and potential mechanisms for their control. Between 53% and 74% of the Sodalis transcriptome remains active in cell-free culture. Mean sense transcription from Coding Domain Sequences (CDS) is four-times greater than that from pseudogenes. Core-genome analysis of six Illumina sequenced Sodalis isolates from different host Glossina species shows pseudogenes make up ~40% of the 2,729 genes in the core genome, suggesting are stable and/or Sodalis is a recent introduction across the Glossina genus as a facultative symbiont. These data further shed light on the importance of transcriptional and translational control in deciphering host-microbe interactions, and demonstrate that pseudogenes are more complex than a simple degrading DNA sequence. For this reason, we show that combining genomics, transcriptomics and proteomics represents an important resource for studying prokaryotic genomes with a view to elucidating evolutionary adaptation to novel environmental niches.

2020-05-26 | PXD007068 | Pride

Sodalis praecaptivus strain:HS2

Project description:Sodalis praecaptivus strain:HS2 Genome sequencing and assembly

| PRJNA275861 | ENA

Sodalis sp. dw_23 strain:dw_23

Project description:Sodalis sp. dw_23 strain:dw_23 Genome sequencing

| PRJNA599932 | ENA

Sodalis praecaptivus

Project description:Sodalis praecaptivus overview

| PRJNA307285 | ENA

Proteome of "Candidatus Kuenenia Stuttgartiensis" strain CSTR1 growing planctonically in semi-CSTR reactor

Project description:The dataset provides the whole proteome of the anammox bacterium "Candidatus Kuenenia Stuttgartiensis" strain CSTR1 growing planctonically in semi-CSTR reactor. The bacteria were growing at high growth rate (0.33 d-1) (reactor HRT 3d).

2020-11-11 | PXD018553 | Pride

unclassified Sodalis strain:SPI-1

Project description:unclassified Sodalis strain:SPI-1 Genome sequencing and assembly

| PRJNA238473 | ENA