NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE102800 Query DataSets for GSE102800
Status Public on Aug 01, 2018
Title S. meliloti 1021 WT and ΔcspA2 ΔcspA4 whole transcriptome sequencing from free-living and symbiotic nodules
Organism Sinorhizobium meliloti
Experiment type Expression profiling by high throughput sequencing
Summary Rhizobia are soil bacteria that can associate with some legumes and participate in symbiotic nitrogen fixation. Bacterial CspA family members are small, single stranded nucleic acid binding proteins. Differentiation of rhizobial bacteria from a free-living to symbiotic state within legume root nodules follows a massive re-programming of bacterial gene expression. Here, the role of Sinorhizobium meliloti CspA family members in symbiotic development with Medicago sativa (alfalfa) was investigated. We defined expression patterns of CspA family members, identified CspA interacting RNAs, and investigated phenotypes and transcriptional defects associated with cspA deletion strains. We propose that these proteins affect rhizobial physiology through their global control of the cellular RNA secondary structure strength environment and through specific modulation of small non-coding RNA (sRNA) structures involved in cis-regulation of stress responsive sigma factor expression. This work describes an RNA structure mediated mechanism important for bacterial stress adaptation and symbiotic development within a plant host.
 
Overall design Illumina sequencing was performed with isolated total RNA from exponential phase free-living culture and symbiotic nodule tissue 28 dpi
 
Contributor(s) Price JP
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Aug 18, 2017
Last update date May 15, 2019
Contact name Jason Price
E-mail(s) jpp6409@gmail.com
Organization name Washington State University
Street address 100 Dairy Rd
City Pullman
ZIP/Postal code 99163
Country USA
 
Platforms (1)
GPL22710 Illumina HiSeq 2500 (Sinorhizobium meliloti)
Samples (12)
GSM2746583 WT_Nod_1
GSM2746584 WT_Nod_2
GSM2746585 WT_Nod_3
This SubSeries is part of SuperSeries:
GSE102801 Sinorhizobium meliloti CspA family members mediate stability of structured sRNAs contributing to stress adaptation and effective symbiosis with alfalfa
Relations
BioProject PRJNA401532
SRA SRP124671

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE102800_cuffdiff_out_FREE.txt.gz 487.5 Kb (ftp)(http) TXT
GSE102800_cuffdiff_out_NOD.txt.gz 472.8 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap