Pantoea superficialis


Citation

Formal styling
Pantoea superficialis 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:31371

Nomenclature

Rank
Species
Syllabication
su.per.fi.ci.a'lis
Etymology
L. fem. adj. superficialis, of or pertaining to a surface
Nomenclatural type
NCBI Assembly: GCA_002299595.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
This species consists of two MAGs, UBA2655 and UBA648, both assembled from a metagenome sampled from a metallic or plastic surface in New York City, USA. It shares an most recent common ancestor with the GTDB taxon "Pantoea mediterraneensis" Marseille-P5165. The ANI between MAG UBA648 and Marseille-P5165 is below 85% showing that they clearly represent two distinct species. The nomenclatural type for this species is the genome UBA648, available under GenBank assembly accession number GCA_002299595.1.
Classification
Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea superficialis
Parent
Pantoea

Genomics

Accession
NCBI Assembly:GCA_002299595.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 96.16%
  • Contamination: 1.1%
  • Quality: 90.66
Ribosomal and transfer RNA genes
  • 0 16S rRNAs
  • 0 23S rRNAs
  • tRNAs for 17 amino acids
Sequencing depth
33.53 ×
Source
Other features
  • G+C Content: 57.15%
  • Coding Density: 87.13%
  • Codon Table: 11
  • N50: 32,523 bp
  • Contigs: 191
  • Largest Contig: 114,927 bp
  • Assembly Length: 3,950,619 bp
  • Ambiguous Assembly Fraction: 0.057%
Submitter comments
Quality assessed with CheckM 1 v. 0.18 (completeness = 96.16%; contamination = 1.1%) with the Enterobacteriaceae marker set consisting of 876 markers, and CheckM 2 v. 0.1.3 (completeness = 85.91%; contamination = 0.89%) 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 about 1 year ago
Submitted by
Palmer, Marike 11 months ago
Curators
Endorsed by
Chuvochina, Maria 11 months ago
Validated by
Rodriguez-R, Luis M 6 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



© 2022-2024 The SeqCode Initiative
  All information contributed to the SeqCode Registry is released under the terms of the Creative Commons Attribution (CC BY) 4.0 license