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)

Canonical 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 PSNIH6^Ts 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

• SRA: SRX3652526

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

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Last modified about 1 month ago

Metadata

Outside links and data sources

• NCBI Taxonomy: 2080494
• GTDB Genome: GCF_002920175.1
• GTDB Tree: s__Pantoea alvi
• Global Biodiversity Information Facility (GBIF)
• Wikispecies: Pantoea alvi (see reference source)

Search sequences

• Seach in NCBI Nucleotide
• NCBI Genomes table

Local history

• This name was last modified 11 months ago
• Submission process status
• Quality checks before valid publication

Registered by

Palmer, Marike over 1 year ago

Submitted by

Palmer, Marike over 1 year ago

Curators

• Rodriguez-R, Luis M
• Chuvochina, Maria

Endorsed by

Chuvochina, Maria over 1 year ago

Validated by

Rodriguez-R, Luis M about 1 year ago

Date of priority

2023-11-15 01:31 PM (UTC)