Sphingomonas colombiensis

Citation

Formal styling

Sphingomonas colombiensis Díaz-García et al., 2024

Effective publication

Díaz-García et al., 2024

SeqCode status

Valid (SeqCode)

Register List

seqco.de/r:-kiq_w89 (validated)

Cannonical URL

https://seqco.de/i:24102

Nomenclature

Rank

Species

Syllabication

co.lom.bi.en'sis

Etymology

N.L. fem. adj. colombiensis, belonging to Colombia

Nomenclatural type

INSDC Nucleotide: CP119315

Nomenclatural status

Validly published under the SeqCode

Taxonomy

Description

A species established on the basis of MiGA taxonomic novelty analyses, AAI, dDDH, 16S rRNA gene phylogenetic reconstruction and the type material is the genome MAG_27. Genomic metrics include ANI (85.46), AAI (66.97) and dDDH d4 (20.8). The MAG was reconstructed from lignocellulolytic bacterial consortium and encoded for 59 CAZymes, 10 of them involved in lignocellulose degradation. In addition, putative genes for PET hydrolisis were found within the MAG.

Classification

Bacteria » Pseudomonadota » Alphaproteobacteria » Sphingomonadales » Sphingomonadaceae » Sphingomonas » Sphingomonas colombiensis

Parent

Sphingomonas

Genomics

Accession

INSDC Nucleotide:CP119315

Type

Metagenome-Assembled Genome (MAG)

Estimated Quality Metrics

• Completeness: 97.91%
• Contamination: 1.1%
• Quality: 92.41

Ribosomal and transfer RNA genes

• 2 16S rRNAs (up to 100.0%)
• 2 23S rRNAs (up to 100.0%)
• tRNAs for 20 amino acids

Sequencing depth

20.0 ×

Source

• BioSample: SAMN33481877
• BioSample: SAMN33438288

Other features

• G+C Content: 64.65%
• Coding Density: 90.69%
• Codon Table: 11
• N50: 3,811,216 bp
• Contigs: 1
• Largest Contig: 3,811,216 bp
• Assembly Length: 3,811,216 bp
• Ambiguous Assembly Fraction: 0.0%

Submitter comments

Dfast was used to identify rRNA genes. Completion and contamination were estimated by CheckM.

Automated checks

Complete

See additional details

Metadata

Outside links and data sources

• Global Biodiversity Information Facility (GBIF)

Search sequences

• NCBI Nucleotide

Local history

• This name was last modified 3 months ago
• Submission process status
• Quality checks before valid publication

Registered by

Díaz-García, Laura about 1 year ago

Submitted by

Díaz-García, Laura 12 months ago

Curators

• Palmer, Marike (nomenclature) (genomics)

Endorsed by

Palmer, Marike 11 months ago

Validated by

Palmer, Marike 3 months ago