JSONPDF

Pantoea communis

Citation

Formal styling
Pantoea communis 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:31366

Nomenclature

Rank
Species
Syllabication
com.mu'nis
Etymology
L. fem. adj. communis, common or widespread, referring to the broad global distribution of members of this species
Nomenclatural type
NCBI Assembly: GCF_011752685.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
This species consists of seven genome-sequenced strains. The genomes are monophyletic with phylogenomic analyses. This clade shares an ancestor with the genomes of the GTDB species "Pantoea rwandensis_B". The minimal pairwise ANI among the seven genomes is as low as 97%. ANI between the seven genomes and and the closest relative is approximately 94%, showing that the two clades represent two different, but closely related, species. Isolation sources include insects, like stink bugs (Plautia stali, Sibaria englemani, Taurocerus sp.), and an ant (Atta laevigata) fungus garden, as well as plants (Garcinia morella) and other environmental sources. Overall, this species shares plants and insects as isolation sources with many other Pantoea species, and no adaptation to any specific environment is evident.
Classification
Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea communis
Parent
Pantoea ncbigtdb

Genomics

Accession
NCBI Assembly:GCF_011752685.1
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 1.58%
  • Quality: 92.1
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 2 23S rRNAs (up to 42.0%)
  • tRNAs for 20 amino acids
Sequencing depth
108.0 ×
Source
Other features
  • G+C Content: 53.67%
  • Coding Density: 87.14%
  • Codon Table: 11
  • N50: 233,234 bp
  • Contigs: 88
  • Largest Contig: 795,707 bp
  • Assembly Length: 5,857,934 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
Last modified about 1 month ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered by
Palmer, Marike over 1 year ago
Submitted by
Palmer, Marike over 1 year ago
Curators
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)

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