PROJECT INFORMATION
GOLD Project ID
Gp0316967  
Project Name
Carboxydocella thermautotrophica 041  
Other Names
  
Legacy GOLD ID
  
NCBI BioProject Name Carboxydocella thermautotrophica 041 genome sequencing
NCBI BioProject ID 300638
NCBI BioProject Accession PRJEB11520
NCBI Locus Tag
CTH  
NCBI BioSample Accession SAMN07757920
PI
Added By JGI automated process on 2018-05-24
Last Modified By JGI automated process on 2018-05-25
Project Comments
  
Project Status
Complete and Published  
Project Relevance
  
Sequencing Center Baltic Federal University
Collaborating Institute
  
Funding Agency
  
Project Description
Genus Carboxydocella forms a deeply branching family Incertae Sedis XVI in the class Clostridia and is represented by.three species capable of different modes of anaerobic metabolism, autotrophic or organotrophic. The type strain of the type species, Carboxydocella thermautotrophica, was first described as an obligate chemolithoautotroph growing exclusively by hydrogenogenic CO-oxidation. Here we describe a novel strain of C. thermautotrophica designated 019 isolated form a core sample taken at a thermal field at Uzon Caldera, Kamchatka. Metabolism of new isolate is much more versatile, together with the ability to hydrogengenic CO oxidation sharing some features with other Сarboxydocella species, e.g., the ability to organotrophic growth, acetogenesis, nitrate and Fe(III) reduction, the capacities absent in the type strain of this species. Ferric iron-containing silicate minerals glauconite and diatomite could also be used as the electron acceptors for strain 019, Fe being reduced to Fe(II) in the form of siderite. To give insights into these important metabolic features of C. thermautotrtophica, genomes of both strains of the species were sequenced using Illumina and PGM technologies. Genome analysis revealed both strains to possess gene clusters encoding an energy-converting hydrogenase and a CO-dehydrogenase (CODH), similar to those previously described in thermophilic hydrogenogenic carboxydothrophs. Six different CODH-encoding genes (maximum among known prokaryotic genomes) have been identified in each strain suggesting crucial role of CO for the metabolism of this organism. Also, a set of ca. 40 multiheme c-type cytochromes highly similar in both genomes has been identified, while only one 17-heme cytochrome gene exclusively appeared in the Fe(III)-reducing strain 019. This gene is proposed to represent a novel type of determinants of dissimilatory Fe(III) reduction in prokaryotes. Our results represent the first genome analysis of the deep phylogenetic branch Clostridia Incertae Sedis XVI family and gives insights into metabolic diversity of Carboxydocella thermautotrophica with special emphasis on its energy metabolism which might have significant ecological implications in hot terrestrial sedimentary habitats.  
Is JGI Project
No  
Project Information Visibility Public
PROJECT TYPE
Specimen Organism
Nucleic Acid DNA
Sequencing Strategy
Whole Genome Sequencing  
EXTERNAL PROJECT LINKS
Project Information
  
Database
  
Genome Publications
  
Other Publications
  
SRA Experiment
  
PROJECT COMPOSITION
Study Carboxydocella thermautotrophica 041 genome sequencing
Organism Carboxydocella thermautotrophica 041
Analysis Projects Carboxydocella thermautotrophica 041
Number of Analysis Projects (AP)
1  
Number of Derived Analyis Projects (DAP)
0  
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31) Level 6: Finished
Finishing Goal
  
Sequencing Comments
  
Sequencing Technology (MIGS-29) Illumina MiSeq
Library Method (MIGS-28)
  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0452546
Organism Name
Carboxydocella thermautotrophica 041  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
FIRMICUTES  
Genus
Carboxydocella  
Genus Synonyms
  
Species
Carboxydocella thermautotrophica  
Subspecies
  
Species Synonyms
  
Strain
041  
Strain Synonyms
  
Serovar/Cultivar
  
Culture Collection ID
  
Type Strain
  
Exemplar DOI
10.1601/ex.4486  
Exemplar Name
Carboxydocella thermautotrophica  
Taxon DOI
10.1601/tx.4486  
Biosafety Level
  
Organism Comments
  
Cultured
Yes  
Culture Type
Isolate  
Organism Type
Natural  
Uncultured Type
  
Commercial Strain
  
Commercial Strain Comments
  
ORGANISM TAXONOMY
NCBI Taxonomy ID 178899
NCBI Superkingdom
Bacteria  
NCBI Kingdom
  
NCBI Phylum
Firmicutes  
NCBI Class
Clostridia  
NCBI Order
Clostridiales  
NCBI Family
Clostridiales Family XVI. Incertae Sedis  
NCBI Genus
Carboxydocella  
NCBI Species
Carboxydocella thermautotrophica  
ISOLATION CLASSIFICATION
Ecosystem
  
Ecosystem Category
  
Ecosystem Type
  
Ecosystem Subtype
  
Specific Ecosystem
  
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
Gram+  
Biotic Relationships
  
Symbiotic Physical Interaction
  
Symbiotic Relationship
  
Symbiont Name
  
Symbiont Taxon ID
  
Cell Arrangements
  
Diseases
  
Known Habitats
  
Metabolisms
  
Phenotypes
  
Energy Sources
  

 

 

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