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 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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