Pantoea alvi


Citation

Formal styling
Pantoea alvi Crosby et al., 2023
Effective publication
Crosby et al., 2023
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:xfaladud (validated)
Cannonical URL
https://seqco.de/i:31369

Nomenclature

Rank
Species
Syllabication
al'vi
Etymology
L. gen. n. alvi, of the bowels, referring to the putative association of this species with the gastrointestinal tract of humans
Nomenclatural type
NCBI Assembly: GCF_002920175.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
This species comprises two genomes, PSNIH6 and UMGS54. The corresponding clade is a sister-clade of P. septica. PSNIH6, the strain whose genome serves as nomenclatural type, was isolated from hospital plumbing in the USA, while MAG UMGS54 was assembled from the metagenome of a human gut sample. The two genomes have a pairwise ANI of over 99.75%. Therefore, P. alvi sp. nov. may occupy a similar ecological niche to its sister species P. septica. The genome of PSNIH6Ts is the nomenclatural type for the species.
Classification
Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea alvi
Parent
Pantoea ncbigtdb

Genomics

Accession
NCBI Assembly:GCF_002920175.1
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 99.99%
  • Contamination: 0.18%
  • Quality: 99.09
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 19 amino acids
Sequencing depth
72.0 ×
Source
Other features
  • G+C Content: 57.91%
  • Coding Density: 86.24%
  • Codon Table: 11
  • N50: 347,536 bp
  • Contigs: 70
  • Largest Contig: 524,186 bp
  • Assembly Length: 5,351,126 bp
  • Ambiguous Assembly Fraction: 0.0%
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

Metadata

Outside links and data sources
Search sequences
Local history
Registered by
Palmer, Marike 12 months ago
Submitted by
Palmer, Marike 10 months ago
Curators
Endorsed by
Chuvochina, Maria 10 months ago
Validated by
Rodriguez-R, Luis M 6 months ago

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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