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Pantoea symbiotica

Citation

Formal styling
Pantoea symbiotica Crosby et al., 2023
Effective publication
Crosby et al., 2023
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:xfaladud (validated)
Canonical URL
https://seqco.de/i:31363

Nomenclature

Rank
Species
Syllabication
sym.bi.o'ti.ca
Etymology
N.L. fem. adj. symbiotica, living together, symbiotic
Nomenclatural type
NCBI Assembly: GCF_900114175.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
This species includes nine genomes that belong to P. symbiotica sp. nov. The clade corresponding to this group is a sister clade of the "P. endophytica" clade. Pairwise ANI between the eight genomes is over 97%, while ANI between them and "P. endophytica" genomes, which represent the most closely related known species, is approximately 93%, showing that these strains do in fact represent a separate species. The strains were isolated from poplar (Populus deltoides) roots along the Caney Fork River in Tennessee, USA; Eastern cottonwood poplar roots on the Yadkin River in North Carolina, USA (Brown et al. 2012); from fungi in New York State, USA (Wong et al. 2020); and as endophytes of grapevine. Based on these isolation sources, this species appears to be adapted to the rhizosphere. The nomenclatural type for the species is the genome of strain YR512Ts, available under the GenBank assembly accession number GCF_900114175.1.
Classification
Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea symbiotica
Parent
Pantoea ncbigtdb

Genomics

Accession
NCBI Assembly:GCF_900114175.1
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 99.84%
  • Contamination: 0.91%
  • Quality: 95.29
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 18 amino acids
Sequencing depth
273.0 ×
Source
Other features
  • G+C Content: 54.57%
  • Coding Density: 89.24%
  • Codon Table: 11
  • N50: 402,499 bp
  • Contigs: 27
  • Largest Contig: 766,167 bp
  • Assembly Length: 5,277,081 bp
  • Ambiguous Assembly Fraction: 0.011%
Submitter comments
Quality assessed with CheckM v. 1. rRNA prediction performed with barrnap v. 0.9, and tRNA prediction performed with tRNAscan-SE v. 2.0.9.
Automated checks
Complete
See additional details
Last modified 6 days ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered by
Palmer, Marike over 1 year ago
Submitted by
Palmer, Marike over 1 year ago
Curators
Endorsed by
Chuvochina, Maria over 1 year ago
Validated by
Rodriguez-R, Luis M 12 months ago
Date of priority
2023-11-15 01:31 PM (UTC)

Publications
1

Citation Title
Crosby et al., 2023, Frontiers in Microbiology Genomic delineation and description of species and within-species lineages in the genus Pantoea
Effective publication


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