PROJECT INFORMATION | |
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GOLD Project ID
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Gp0100822
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Project Name
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Formosa agariphila KMM 3901
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Other Names
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Legacy ER Project ID
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76237
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Legacy GOLD ID
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Gi0076237, Gi0076237
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NCBI BioProject Name | Formosa agariphila |
NCBI BioProject Accession
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PRJEB3965 |
NCBI Locus Tag
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BN863
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NCBI BioSample Accession
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PI | Mann, Alexander |
Added By |
JGI automated process
on 2014-07-25 |
Last Modified By |
Michelle Isbandi
on 2014-08-01 |
Project Comments |
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Project Status
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Permanent Draft
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Project Relevance
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Environmental |
Sequencing Center
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Max Planck Institute for Marine Microbiology
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Collaborating Institute
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Funding Agency
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Project Description
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In recent years, representatives of the Bacteroidetes have been increasingly recognized as specialists for the degradation of macromolecules. Formosa constitutes a Bacteroidetes genus within the class Flavobacteria, whose members have been found in marine habitats with high levels of organic matter, such as in association with algae, invertebrates and fecal pellets. Here we report on the generation and analysis of the genome of the Formosa agariphila type strain KMM 3901T, an isolate from the green algae Acrosiphonia sonderi. F. agariphila is a facultative anaerobe with the capacity for mixed acid fermentation and denitrification. Its genome harbors 129 proteases and 88 glycoside hydrolases, indicating a pronounced specialization on the degradation of proteins, polysaccharides and glycoproteins. 65 of the glycoside hydrolases are organized in at least 13 distinct polysaccharide utilization loci, where they are clustered with TonB-dependent receptors, SusD-like proteins, sensors/transcription factors, transporters and oftentimes sulfatases. These loci play a pivotal role in bacteroidetal polysaccharide biodegradation, and in the case of F. agariphila revealed the capacity to degrade a wide range of algal polysaccharide from green, red and brown algae and thus a strong adaption towards an algae-associated lifestyle.
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Is JGI Project |
No
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Project Information Visibility
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Public |
PROJECT TYPE | |
Specimen
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Organism |
Nucleic Acid
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DNA |
Sequencing Strategy
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Whole Genome Sequencing
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EXTERNAL PROJECT LINKS | |
JGI Data Utilization Status
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JGI Award DOI
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Genome Publications
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Applied and environmental microbiology
79(21):6813-22
The genome of the alga-associated marine flavobacterium Formosa agariphila KMM 3901T reveals a broad potential for degradation of algal polysaccharides.
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Other Publications
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Ignored Publications
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Unassigned Publications
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SRA Experiment |
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PROJECT COMPOSITION | |
Study |
The genome of the algae-associated marine flavobacterium Formosa agariphila KMM 3901T reveals a broad potential for the degradation of algal polysaccharides |
Organism |
Formosa agariphila KMM 3901 |
Analysis Projects |
Formosa agariphila KMM 3901 |
Number of Analysis Projects (AP) |
1 |
Number of Derived Analyis Projects (DAP) |
0
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SEQUENCING INFORMATION | |
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Sequencing Status
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Complete |
Sequencing Quality (MIGS-31) |
Level 2: High-Quality Draft |
Finishing Goal
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Contamination Screening Input
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DNA Amplification Method
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Single Cell Lysis Protocol
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Single Cell Lysis Approach
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Sequencing Comments
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DNA Amplification Kit
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Sequencing Technology
(MIGS-29)
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Library Method
(MIGS-28)
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Library Layout
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Library Screening Method
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Number Of Reads
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Read Size
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Vector
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GC Percent |
33
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Chromosome Count |
1
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Plasmid Count |
0
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ORGANISM NAME | |
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GOLD Organism ID |
Go0100822 |
Organism Name |
Formosa agariphila KMM 3901
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Other names (alias, synonyms, short names, common names) |
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Organism Domain |
BACTERIAL
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Phylogeny |
BACTEROIDETES
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Genus |
Formosa
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Genus Synonyms |
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Species |
Formosa agariphila
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Subspecies |
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Species Synonyms |
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Strain |
KMM 3901
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Strain Synonyms |
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Serovar/Cultivar |
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Culture Collection ID |
KMM 3901
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Type Strain |
Yes
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Exemplar DOI |
10.1601/ex.9857
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Exemplar Name |
Formosa agariphila
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Taxon DOI |
10.1601/tx.9857
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Biosafety Level |
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Organism Comments |
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Cultured |
Yes
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Culture Type |
Isolate
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Organism Type |
Natural
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Uncultured Type |
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Commercial Strain |
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Commercial Strain Comments |
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ORGANISM TAXONOMY
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NCBI Taxonomy ID |
1347342 |
NCBI Superkingdom |
Bacteria
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NCBI Kingdom |
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NCBI Phylum |
Bacteroidetes
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NCBI Class |
Flavobacteriia
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NCBI Order |
Flavobacteriales
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NCBI Family |
Flavobacteriaceae
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NCBI Genus |
Formosa
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NCBI Species |
Formosa agariphila
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ISOLATION CLASSIFICATION | |
Ecosystem |
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Ecosystem Category |
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Ecosystem Type |
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Ecosystem Subtype |
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Specific Ecosystem |
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ORGANISM EXTERNAL REFERENCES | |
Strain Info ID |
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Genbank 16S ID |
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GENERAL PROPERTIES | |
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Oxygen Requirement |
Facultative
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Cell Shape |
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Motility |
Motile
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Sporulation |
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Temperature Range |
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Salinity |
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pH |
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Cell Diameter |
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Cell Length |
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Color |
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Gram Staining |
Gram-
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Biotic Relationships |
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Symbiotic Physical Interaction |
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Symbiotic Relationship |
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Symbiont Name |
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Symbiont Taxon ID |
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Cell Arrangements |
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Diseases |
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Known Habitats |
Marine Algae |
Metabolisms |
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Phenotypes |
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Energy Sources |
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CYANOBACTERIA METADATA | |
Filaments |
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Filament Type |
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Differentiated Cells |
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Position Of Heterocysts |
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Cysts |
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Mode Of Reproduction |
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Trichome |
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Trichome Type |
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Carotenoids |
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Pigments |
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Phage Infectivity |
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Phage Type |
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Restriction Enzyme |
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Toxin Production |
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Toxin Type |
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Secondary Metabolites |
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Developmental Cycle |
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Branching |
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Gas Vesicles |
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Gas Vesicle Type |
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Diagnostic Inclusion Body Information |
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Extracellular Structures |
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Bloom Forming |
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Pigment Type |
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Complementary chromatic adaptation (CCA) |
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Medium Types |
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