Pantoea borealis


Citation

Formal styling
Pantoea borealis 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:31361

Nomenclature

Rank
Species
Syllabication
bo.re.a'lis
Etymology
L. fem. adj. borealis, pertaining to the North, boreal
Nomenclatural type
NCBI Assembly: GCA_002454735.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
At least four genomes are available for this species. One genome is of the strain Russ isolated from an indoor trash can in Stillwater, Oklahoma, USA. The other three genomes are MAGs derived from environmental samples of metallic or plastic surfaces on the New York City subway. Pairwise ANI among the 4 genomes is over 99.25% revealing that they belong to a single clonal lineage. The P. borealis clade shares an most recent common ancestor with P. eucrina, and the ANI between genomes of the P. eucrina and this species is approximately 93%. One publication on a representative genome of this species cluster is available and discusses its potential for being an opportunistic human pathogen (Moghadam et al. 2016), however, evidence for pathogenicity isn't available. The nomenclatural type for the species is the MAG UBA6694Ts, available under the GenBank assembly accession number GCA_002454735.1.
Classification
Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea borealis
Parent
Pantoea gtdb

Genomics

Accession
NCBI Assembly:GCA_002454735.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 97.6%
  • Contamination: 0.37%
  • Quality: 95.75
Ribosomal and transfer RNA genes
  • 0 16S rRNAs
  • 0 23S rRNAs
  • tRNAs for 17 amino acids
Sequencing depth
16.04 ×
Source
Other features
  • G+C Content: 56.3%
  • Coding Density: 88.01%
  • Codon Table: 11
  • N50: 123,017 bp
  • Contigs: 41
  • Largest Contig: 267,044 bp
  • Assembly Length: 3,639,900 bp
  • Ambiguous Assembly Fraction: 0.11%
Submitter comments
Quality assessed with CheckM 1 v. 0.18 (completeness = 97.6%; contamination = 0.37%), with the Enterobacteriaceae family marker set consisting of 876 markers, and CheckM 2 v. 0.1.3 (completeness = 98.54%; contamination = 0.0%) with a specific neural network model. 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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