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Pantoea varia

Citation

Formal styling
Pantoea varia 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:31357

Nomenclature

Rank
Species
Syllabication
va'ri.a
Etymology
L. fem. adj. varia, varied, corresponding to the varying sources of isolation for members of this species
Nomenclatural type
NCBI Assembly: GCF_900115075.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
This species consists of the genomes of two strains: OV426, isolated during characterization of Populus root and rhizosphere microbial communities in Tennessee, USA, and AF015A5, isolated from an indoor dust sample in Oregon, USA (GCF_004798195.1). The two genomes have a pairwise ANI of approximately 97% and thus clearly belong to the same species. The genome of strain OV426 does not contain the enterobactin biosynthesis cluster, while it does contain the pagRI genes encoding the autoinducer system (Sulja et al. 2022). This strain also contains a Hrp-2a T3SS, but its functionality has not been examined (Moretti et al. 2021). The nomenclatural type for the species is the genome of OV426Ts, available under the NCBI assembly accession number GCF_900115075.1.
Classification
Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea varia
Parent
Pantoea ncbigtdb

Genomics

Accession
NCBI Assembly:GCF_900115075.1
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.49%
  • Quality: 97.55
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 18 amino acids
Sequencing depth
269.0 ×
Source
Other features
  • G+C Content: 55.18%
  • Coding Density: 87.29%
  • Codon Table: 11
  • N50: 568,987 bp
  • Contigs: 12
  • Largest Contig: 2,306,547 bp
  • Assembly Length: 4,751,258 bp
  • Ambiguous Assembly Fraction: 0.012%
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


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