| Strain Overview | |
|---|---|
| Organism Name | Pseudomonas plecoglossicida NBRC 103162 = DSM 15088 assembly GCF_000730665.1 |
| Species | Pseudomonas plecoglossicida |
| Strain | NBRC 103162 = DSM 15088 assembly GCF_00073066 |
| Description/Title | Human metagenome DNA sample from stool of a female participant in the dbGaP study "The Neonatal Microbiome and NEC" |
| Annotated Genes | 4847 |
| Partial Genes | 124 |
| Host Information | |
|---|---|
| Host Species Taxonomic Name | Plecoglossus altevalis |
| Host Species Common Name | ayu |
| Host Species Taxonomy ID | 61084 |
| Geographic Location | |
|---|---|
| Location Name | Japan: Tokushima |
| Isolation Source | bacterial haemorrhagic ascites |
| Environmental Feature (?) | ayu (Plecoglossus altivelis) |
| Environmental Material (?) | bacterial haemorrhagic ascites |
| Sample Provider | |
|---|---|
| Name | |
| Institution | National Institute of Technology and Evaluation Biological Resource Center |
| Date Collected | NA |
| Database | Scheme | Sequence Type | Alleles | |
|---|---|---|---|---|
| Strains have MLST sequence types assigned when available. They are currently based on schemes at the PubMLST website (https://pubmlst.org/) developed by Keith Jolley (Jolley & Maiden 2010, BMC Bioinformatics, 11:595) that were predicted by the "mlst" software developed by Torsten Seemann (Github https://github.com/tseemann/mlst). | ||||
| Assembly | |
|---|---|
| Assembly DB |
RefSeq
|
| Assembly Accession | Assembly Status | latest |
| Scaffolds | |
| Contigs | 97 |
| Contig N50 | 109902 |
| Assembly Level | Contig |
| Percent GC |
| Cross-References | |
|---|---|
| NCBI BioSample Accession | SAMD00018427 |
| NCBI Taxonomy ID | 646099 |
| NCBI Bioprojects |
| Related Data | |
|---|---|
| Additional Genome Project Info | |
| Sequencing Information | |
| Genome Assembly Information |
| Feature | Count |
|---|---|
| gene | 4787 |
| CDS | 4719 |
| pseudo | 60 |
| tRNA | 60 |
| ncRNA | 4 |
| rRNA | 4 |
| Localization | Count |
|---|---|
| Cytoplasmic | 2143 |
| Cytoplasmic Membrane | 1101 |
| Periplasmic | 146 |
| Outer Membrane | 120 |
| Extracellular | 55 |
| Unknown | 1044 |
| Unknown (This protein may have multiple localization sites) | 110 |
| Genomic | ORF DNA | Intergenic | Amino Acid |
| TSV | CSV | GBK | EMBL | GFF3 | GFF3 + sequence | GTF |