Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1073673 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The proteome of the SS13 isolate assigned to the Chromatiaceae family was assessed by shotgun proteomics using a pan-proteomics database for the genus Rheinheimera and a whole genome sequencing -derived database.
2024-05-02 | PXD044759 | Pride
Project description:Solanum tuberosum Pan-genome assembly
| PRJNA1074690 | ENA
Project description:RNA-seq of seedlings of four tomato species Solanum habrochaites, Solanum lycopersicum, Solanum pimpinelliolium, and Solanum pennellii. An additional panel of samples include many tissues from Solanum lycopersicum and Solanum pennellii in two light conditions
2013-04-05 | GSE45774 | GEO
Project description:Comparative genomic hybridization between Escherichia coli strains to determine core and pan genome content of clinical and environmental isolates
2012-08-30 | GSE39667 | GEO
Project description:MS2 spectra of Capsicum annuum; Cucurbita pepo; Cucumis sativus; Datura stramonium;
Petunia axillaris; Petunia exserta; Pisum sativum; Solanum arcanum;
Solanum chilense; Solanum dulcamara; Solanum habrochaites; Solanum lycopersicum;
Solanum nigrum; Solanum pennelli; Solanum peruvianum; Solanum pimpinellifolium; Solanum tuberosum; Trifolium pratense; Withania somnifera obtained via liquid chromatograohy / Q exactive mass spectrometry in positive ionisation mode.
2023-01-10 | MSV000091039 | MassIVE
Project description:MS2 spectra of Capsicum annuum; Cucurbita pepo; Cucumis sativus; Datura stramonium;
Petunia axillaris; Petunia exserta; Pisum sativum; Solanum arcanum;
Solanum chilense; Solanum dulcamara; Solanum habrochaites; Solanum lycopersicum;
Solanum nigrum; Solanum pennelli; Solanum peruvianum; Solanum pimpinellifolium; Solanum tuberosum; Trifolium pratense; Trifolium repens; Withania somnifera obtained via liquid chromatograohy / Q exactive mass spectrometry in positive ionisation mode.
2023-01-10 | MSV000091035 | MassIVE
Project description:Solanum lycopersicum RNA degradome sequencing
2012-08-29 | GSE22236 | GEO
Project description:Full title: Probing the pan genome of a foodborne bacterial pathogen Listeria monocytogenes: Implications for its niche adaptation, pathogenesis, and evolution Listeria monocytogenes is a foodborne bacterial pathogen well known for adaptability to diverse environmental and host niches, and a high fatality rate among infected, immuno-compromised individuals. Three genetic lineages have been identified within this species. Strains of genetic lineages I and II account for more than ninety percent of foodborne disease outbreaks worldwide, whereas strains from genetic lineage III are rarely implicated in human infectious for unknown, yet intriguing, reasons. Here we have probed the genomic diversity of 26 L. monocytogenes strains using both whole-genome sequences and a novel 385,000 probe pan-genome microarray, fully tiling the genomes of 20 representative strains. Using these methods to identify genes highly conserved in lineages I and II but rare in lineage III, we have identified 86 genes and 8 small RNAs that play roles in bacterial stress resistance, pathogenicity, and niche, potentially explaining the predominance of L. monocytogenes lineages I and II in foodborne disease outbreaks. Extending gene content analysis to all lineages revealed a L. monocytogenes core genome of approximately 2,350 genes (80% of each individual genome) and a pan-genomic reservoir of >4,000 unique genes. Combined gene content data from both sequences and arrays was used to reconstruct an informative phylogeny for the L. monocytogenes species that confirms three distinct lineages and describes the relationship of 9 new lineage III genomes. Comparative analysis of 18 fully sequenced L. monocytogenes lineage I and II genomes shows a high level of genomic conservation and synteny, indicative of a closed pan-genome, with moderate domain shuffling and sequence drift associated with bacteriophages is present in all lineages. In contrast with lineages I and II, notable genomic diversity and characteristics of an open pan-genome were observed in the lineage III genomes, including many strain-specific genes and a more complex conservation pattern. This indicates that the L. monocytogenes pan-genome has not yet been fully sampled by genome sequencing, and additional sequencing of lineage III genomes is necessary to survey the full diversity of this intriguing species and reveal its mechanisms for adaptability and virulence.
2010-04-06 | GSE20367 | GEO
Project description:Cardioviruses are a genus of picornaviruses that cause severe illnesses in rodents, but little is known about the prevalence, diversity, or spectrum of disease of such agents among humans. We report the identification of a group of human cardioviruses that have been detected and cloned directly from patient specimens (Chiu and DeRisi, et al, PNAS, 2008). This series includes 9 arrays (both raw and normalized data) used to detect cardioviruses in human respiratory and stool specimens. The arrays employed here are capable of pan-viral detection (Wang and DeRisi, et al., PNAS, 2002). Keywords: viral detection, cardiovirus, TMEV, gastroenteritis
2008-09-17 | GSE11569 | GEO