Pantoea deserta

Citation

Formal styling

Pantoea deserta 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:31370

Nomenclature

Rank

Species

Syllabication

de.ser'ta

Etymology

L. fem. part. adj. deserta, deserted, or alone, referring to the species being a sole representative at the time of description

Nomenclatural type

NCBI Assembly: GCF_003813865.1

Nomenclatural status

Validly published under the SeqCode

Taxonomy

Description

This species includes the genome of a single strain, RIT388, isolated from an Ayan tree (Distemonanthus benthamianus) known for its antifungal and antibacterial properties (Soutar and Stavrinides 2019), (Gan et al. 2020). This genome is located on the branch splitting off at the most basal node of the clade that includes P. septica, P. alvi, P. piersonii, and "P. latae".

Classification

Bacteria » Pseudomonadota » Gammaproteobacteria » Enterobacterales » Erwiniaceae » Pantoea » Pantoea deserta

Parent

Pantoea ncbigtdb

Genomics

Accession

NCBI Assembly:GCF_003813865.1

Type

Isolate Genome

Estimated Quality Metrics

• Completeness: 99.99%
• Contamination: 0.28%
• Quality: 98.59

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

57.0 ×

Source

• BioSample: SAMN05327825

Other features

• G+C Content: 56.96%
• Coding Density: 86.71%
• Codon Table: 11
• N50: 221,699 bp
• Contigs: 68
• Largest Contig: 565,900 bp
• Assembly Length: 5,010,327 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

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Last modified about 1 month ago

Metadata

Outside links and data sources

• NCBI Taxonomy: 1869313
• GTDB Genome: GCF_003813865.1
• GTDB Tree: s__Pantoea deserta
• Global Biodiversity Information Facility (GBIF)
• Wikispecies: Pantoea deserta (see reference source)

Search sequences

• Seach in NCBI Nucleotide
• NCBI Genomes table

Local history

• This name was last modified 11 months ago
• Submission process status
• Quality checks before valid publication

Registered by

Palmer, Marike over 1 year ago

Submitted by

Palmer, Marike over 1 year ago

Curators

• Rodriguez-R, Luis M
• Chuvochina, Maria

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)