Pantoea gossypiicola


Citation

Formal styling
Pantoea gossypiicola 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:31355

Nomenclature

Rank
Species
Syllabication
gos.sy.pi.i.co'la
Etymology
N.L. neut. n. Gossypium, the scientific botanical genus name for cotton; L. fem. n. suff. -cola, inhabitant, dweller; N.L. fem. n. gossypiicola, inhabitant of Gossypium, referring to the isolation source of the strain for the designated nomenclatural type, from the leaves of cotton plants
Nomenclatural type
NCBI Assembly: GCF_008632075.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Based on the BioSample metadata available for genomes in this group, all strains of this species were recovered as epiphytes from diseased cotton leaves (Gossypium hirsutum), from the Punjab province of Pakistan. This species is supported as distinct and exclusive through phylogenomics and is supported by the GTDB. The minimum pairwise ANI of genomes within this species is 99.25% and the ANI to the most similar genomes outside of the species is approximately 94%. Three clonal lineages can be distinguished based on phylogeny and ANI. However, based on reverse ecology analysis using PopCOGenT, all strains of the species cluster belong to the same population suggesting that the clonal lineages have not adapted to separate ecological niches. The nomeclatural type for the species is the genome of strain B-8Ts, available under the GenBank assembly accession number GCA_008632075.1.
Classification
Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea gossypiicola
Parent
Pantoea ncbigtdb

Genomics

Accession
NCBI Assembly:GCF_008632075.1
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.25%
  • Quality: 98.75
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 19 amino acids
Sequencing depth
201.28 ×
Source
Other features
  • G+C Content: 54.75%
  • Coding Density: 86.55%
  • Codon Table: 11
  • N50: 268,461 bp
  • Contigs: 47
  • Largest Contig: 498,612 bp
  • Assembly Length: 4,936,004 bp
  • Ambiguous Assembly Fraction: 8.1e-05%
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

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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