Pantoea rara


Citation

Formal styling
Pantoea rara 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:31356

Nomenclature

Rank
Species
Syllabication
ra'ra
Etymology
L. fem. adj. rara, sporadic or uncommon, referring to the sporadic isolation and recovery from disparate sources of members of this species
Nomenclatural type
NCBI Assembly: GCA_002419935.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
This species consists of the genomes of strain WMus005, isolated from the oral cavity of a wild house mouse (Mus musculus) in the United Kingdom, and the metagenome-assembled genome (MAG) UBA5707 recovered from a metagenomic sample taken from the New York City subway system. Pairwise ANI of the two genomes is over 99% and they thus clearly belong to the same species, with all comparisons to other species below species delineation guidelines. The nomenclatural type for the species is the genome UBA5707Ts, available under the assembly accession number GCA_002419935.1.
Classification
Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea rara
Parent
Pantoea gtdb

Genomics

Accession
NCBI Assembly:GCA_002419935.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 97.87%
  • Contamination: 0.36%
  • Quality: 96.07
Ribosomal and transfer RNA genes
  • 0 16S rRNAs
  • 0 23S rRNAs
  • tRNAs for 18 amino acids
Sequencing depth
40.92 ×
Source
Other features
  • G+C Content: 54.96%
  • Coding Density: 87.81%
  • Codon Table: 11
  • N50: 464,666 bp
  • Contigs: 14
  • Largest Contig: 1,392,764 bp
  • Assembly Length: 4,248,722 bp
  • Ambiguous Assembly Fraction: 0.009%
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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