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Pedobacter colombiensis

Citation

Formal styling
Pedobacter 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)
Canonical URL
https://seqco.de/i:24104

Nomenclature

Rank
Species
Syllabication
co.lom.bi.en'sis
Etymology
N.L. masc. adj. colombiensis, belonging to Colombia
Nomenclatural type
INSDC Nucleotide: CP119313.1
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_3858. Genomic metrics include ANI (81.7), AAI (81.02) and dDDH d4 (29.6). The MAG was reconstructed from lignocellulolytic bacterial consortium and encoded for 254 CAZymes, 63 of them involved in lignocellulose degradation. In addition, putative genes for PET and PUR hydrolisis were found within the MAG.
Classification
Bacteria » Bacteroidota » Sphingobacteriia » Sphingobacteriales » Sphingobacteriaceae » Pedobacter » Pedobacter colombiensis
Parent
Pedobacter gtdb

Genomics

Accession
INSDC Nucleotide:CP119313.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.0%
  • Quality: 100.0
Ribosomal and transfer RNA genes
  • 5 16S rRNAs (up to 100.0%)
  • 5 23S rRNAs (up to 100.0%)
  • tRNAs for 20 amino acids
Sequencing depth
20.0 ×
Source
Other features
  • G+C Content: 38.78%
  • Coding Density: 91.6%
  • Codon Table: 11
  • N50: 5,388,978 bp
  • Contigs: 1
  • Largest Contig: 5,388,978 bp
  • Assembly Length: 5,388,978 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
Last modified 8 days ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered by
Díaz-García, Laura over 1 year ago
Submitted by
Díaz-García, Laura over 1 year ago
Curators
Endorsed by
Palmer, Marike over 1 year ago
Validated by
Palmer, Marike 10 months ago
Date of priority
2024-01-25 09:26 AM (UTC)

Publications
1

Citation Title
Díaz-García et al., 2024, Systematic and Applied Microbiology Andean soil-derived lignocellulolytic bacterial consortium as a source of novel taxa and putative plastic-active enzymes
Effective publication


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