Fictibacillus terrinigri


Citation

Formal styling
Fictibacillus terrinigri corrig. Pellegrinetti et al., 2024
Effective publication
Pellegrinetti et al., 2024
Corrigendum
In SeqCode Registry from “Fictibacillus terranigra” (sic)
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:yknhgrq2 (validated)
Cannonical URL
https://seqco.de/i:31974

Nomenclature

Rank
Species
Syllabication
ter.ri.ni'gri
Etymology
L. fem. n. terra, Earth; L. masc. adj. niger, Black; N.L. gen. n. terrinigri, From black earth, referencing the Amazonian Dark Earth soil from which it was isolated
Nomenclatural type
NCBI Assembly: GCF_030412265.1
Reference strain
CENA-BCM004
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Fictibacillus terranigra is a Gram-positive, aerobic bacterium, originating from Amazonian Dark Earth. It has a versatile metabolism, with the capacity to metabolize various sugars and assimilate minerals like nitrate and sulfate. Its genome is robust, consisting of 16 contigs with about 3,315 predicted genes. Additionally, it demonstrates potential as a biocontrol agent, given its ability to antagonize certain pathogens. This unique bacterium signifies a remarkable potential for diverse biotechnological applications.
Classification
Bacteria » Bacillota » Bacilli » Caryophanales » Bacillaceae » Fictibacillus » Fictibacillus terrinigri
Parent
Fictibacillus

Genomics

Accession
NCBI Assembly:GCF_030412265.1
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 98.92%
  • Contamination: 0.86%
  • Quality: 94.62
Ribosomal and transfer RNA genes
  • 0 16S rRNAs
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 20 amino acids
Sequencing depth
1437.35 ×
Source
Other features
  • G+C Content: 43.65%
  • Coding Density: 84.2%
  • Codon Table: 11
  • N50: 1,390,346 bp
  • Contigs: 16
  • Largest Contig: 1,557,022 bp
  • Assembly Length: 4,967,627 bp
  • Ambiguous Assembly Fraction: 0.004%
Submitter comments
Whole-genome sequencing was performed using the Illumina HiSeq 2500 platform. Genomic DNA (gDNA) was used for paired-end libraries (2 × 150 bp) with NEBNext® Fast DNA Fragmentation and Library Preparation Kit (New England Biolabs Inc., MA, USA). The final library quality was assessed using the 2100 Bioanalyzer (Agilent Technologies, CA, USA) and agarose gel electrophoresis. We performed the quality control of raw sequences obtained from Illumina HiSeq sequencing by using FastQC v0.12.1, considering as good sequences that ones with phred score equal or higher than 30. These sequences underwent de-novo assembly using SPAdes v3.15.5. We employed QUAST v4.4 to measure the assembled genomes' quality metrics and perform statistical analysis. Pair-end reads were aligned to the assemblies using the Burrows-Wheeler Aligner (BWA) tool. The average sequencing coverage was then calculated from the resulting BAM file using SAMtools. Taxonomic classification was first performed with GTDB-tk. When GTDB-tk was insufficient for detailed species taxonomy, FastANI v1.33 was implemented as a supplementary tool. When species-level classification was not achieved using GTDB-tk, we downloaded all available assemblies for each identified genus from NCBI. Species were considered the same if their Average Nucleotide Identity (ANI) values exceeded 95%. Finally, the annotation of functional genes in each genome was carried out using RAST-tk.

Automated checks
Complete
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Metadata

Outside links and data sources
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Local history
Registered by
Pellegrinetti, Thierry 9 months ago
Submitted by
Pellegrinetti, Thierry about 1 month ago
Curators
Validated by
Palmer, Marike about 1 month ago

Publications
1

Citation Title
Pellegrinetti et al., 2024, Brazilian Journal of Microbiology Genomic insights of Fictibacillus terranigra sp. nov., a versatile metabolic bacterium from Amazonian Dark Earths
Effective publication



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