PROJECT INFORMATION
GOLD Project ID
Gp0703321  
Project Name
Campylobacter concisus H32O-S2  
Other Names
  
Legacy GOLD ID
  
NCBI BioProject Name This project examined the genomes of C. concisus strains isolated from patients with IBD and healthy controls. We found a secreted superantigen homologue, the Csep1 protein, which was encoded by C. concisus chromosome and a novel plasmid pICON. The prevalence of Csep1 proteins and their polymorphisms were shown to be associated with active IBD. Additionally, the novel plasmid pICON was only found in C. concisus strains isolated from relapsed CD patients with previous ileocecal resection.
NCBI BioProject Accession PRJNA388128
NCBI Locus Tag
G6W42  
NCBI BioSample Accession SAMN14122378
Source Sample ID
PI Unknown
Added By JGI automated process on 2023-01-20
Last Modified By Supratim Mukherjee on 2023-02-11
Project Comments
  
Project Status
Permanent Draft  
Project Relevance Medical
Sequencing Center University of New South Wales (Australia)
Collaborating Institute
  
Funding Agency
  
Project Description
Campylobacter concisus H32O-S2 genome sequencing  
Is JGI Project
No  
Project Information Visibility Public
PROJECT TYPE
Specimen Organism
Nucleic Acid DNA
Sequencing Strategy
Whole Genome Sequencing  
EXTERNAL PROJECT LINKS
JGI Data Utilization Status
  
JGI Award DOI
Genome Publications Microb Genom: genomes identifies genomospecies features, secretion systems and novel plasmids and their association with severe ulcerative colitis.
PubMed: 33111662 DOI: 10.1099/mgen.0.000457
Other Publications
  
Ignored Publications
  
Unassigned Publications Emerg Microbes Infect: 7(1):64 Genomic analysis of oral Campylobacter concisus strains identified a potential bacterial molecular marker associated with active Crohn's disease.
PubMed: 29636463 DOI: 10.1038/s41426-018-0065-6
SRA Experiment
  
PROJECT COMPOSITION
Study Genomes of Campylobacter concisus strains isolated from patients with IBD and healthy controls
Organism Campylobacter concisus H32O-S2
Analysis Projects Campylobacter concisus H32O-S2
Number of Analysis Projects (AP) 1
Number of Derived Analyis Projects (DAP)
0  
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31) Level 2: High-Quality Draft
Finishing Goal
Contamination Screening Input
  
DNA Amplification Method
  
Single Cell Lysis Protocol
  
Single Cell Lysis Approach
  
Sequencing Comments
  
DNA Amplification Kit
  
Sequencing Technology (MIGS-29) Illumina MiSeq
Library Method (MIGS-28)
  
Library Layout
  
Library Screening Method
  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
39.6  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0659031
Organism Name
Campylobacter concisus H32O-S2  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
PROTEOBACTERIA-EPSILON  
Genus
Campylobacter  
Genus Synonyms
  
Species
Campylobacter concisus  
Subspecies
  
Species Synonyms
  
Strain
H32O-S2  
Strain Synonyms
  
Serovar/Cultivar
  
Culture Collection ID
  
Type Strain
  
Exemplar DOI
  
Exemplar Name
  
Taxon DOI
  
Biosafety Level
  
Organism Comments
  
Cultured
Yes  
Culture Type
Isolate  
Organism Type
Natural  
Uncultured Type
  
Commercial Strain
  
Commercial Strain Comments
  
ORGANISM TAXONOMY
NCBI Taxonomy ID 199
NCBI Superkingdom
Bacteria  
NCBI Kingdom
  
NCBI Phylum
Campylobacterota  
NCBI Class
Epsilonproteobacteria  
NCBI Order
Campylobacterales  
NCBI Family
Campylobacteraceae  
NCBI Genus
Campylobacter  
NCBI Species
Campylobacter concisus  
ISOLATION CLASSIFICATION
Ecosystem
Host-associated  
Ecosystem Category
Mammals: Human  
Ecosystem Type
Unclassified  
Ecosystem Subtype
Unclassified  
Specific Ecosystem
Unclassified  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID
GENERAL PROPERTIES
Oxygen Requirement
  
Cell Shape
  
Motility
  
Sporulation
  
Temperature Range
  
Salinity
  
pH
  
Cell Diameter
  
Cell Length
  
Color
  
Gram Staining
  
Biotic Relationships
  
Symbiotic Physical Interaction
  
Symbiotic Relationship
  
Symbiont Name
  
Symbiont Taxon ID
  
Cell Arrangements
  
Diseases
  
Known Habitats
  
Metabolisms
  
Phenotypes
  
Energy Sources
  

 

 

  You are going to add the following user to your project, biosample and study.

 

Contact Name/Email:

Do you want to continue?

 

 

  You are going to remove permissions for the following user to your project, biosample and study.

 

Contact Name/Email:

Do you want to continue?

 

 

  Changing the SP visibility will also change visibility on the following items:

 

Do you want to continue with this visibility change?

 

 

  Checking that this Sequencing Project can be made private:

 

Do you want to continue with this visibility change?

 

 

 

 

 

  Changing the SP Sequencing Strategy will also effect these items:

 

Do you want to continue with this Sequencing Strategy change?