Genome assembly ASM2819926v1

FTP
Actions
NCBI RefSeq assembly
GCF_028199265.1
Submitted GenBank assembly
GCA_028199265.1
Taxon
Bacteroides xylanisolvens
Strain
G7_hRTP31088sv1_210526
WGS project
JAQKCY01
Submitter
Icahn School of Medicine
Date
Jan 28, 2023

Assembly statistics

RefSeqGenBank
Genome size6.3 Mb6.3 Mb
Total ungapped length6.3 Mb6.3 Mb
Number of scaffolds7878
Scaffold N50158 kb158 kb
Scaffold L501414
Number of contigs8585
Contig N50145.8 kb145.8 kb
Contig L501515
GC percent4242
Genome coverage24.9x24.9x
Assembly levelScaffoldScaffold
View sequencesview RefSeq sequences

Sample details

BioSample ID
SAMN31321081
Description
Microbe sample from Bacteroides xylanisolvens
Submitter
Icahn School of Medicine
Strain
G7_hRTP31088sv1_210526
Host
Homo sapiens
Collection date
May 26, 2021
Geographic location
USA
Sample type
whole organism
Sample name
Bacteroides_xylanisolvens_MSSM.hRTP31088sv1_210526_G7
Models
Microbe, viral or environmental
Package
Microbe.1.0
Submission date
2022-10-17T16:24:16.811
Publication date
2022-10-17T00:00:00.000
Last updated
2022-10-17T16:24:16.811

Assembly methods

Sequencing technology
Illumina HiSeq
Comment
The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
Assembly method
SPAdes v. 3.10.1

Additional genomes

Browse all Bacteroides xylanisolvens genomes (366)

BioProject

PRJNA880610

Human gut microbiota Genome sequencing and assembly

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateFeb 26, 2024Jan 23, 2023
Genes5,0004,996
Protein-coding4,8374,859
Software version6.66.4

About PGAP

The NCBI Prokaryotic Genome Annotation Pipeline (PGAP) uses multiple approaches to predict protein-coding and RNA genes and other functional elements directly from sequence.

Continue reading

Quality analysis

CheckM analysis (v1.2.2)

Completeness: 97.34% (27th Percentile)

Contamination: 1.43%

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Bacteroides xylanisolvens CheckM marker set. For more information on CheckM, see Parks, et al. Genome Res (2015).

Taxonomy check

Taxonomy check status
OK
Best match status
species_match
Submitted organism name
Bacteroides xylanisolvens
Submitted species name
Bacteroides xylanisolvens

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_000210075.1GCA_000210075.1
Organism nameBacteroides xylanisolvens XB1ABacteroides xylanisolvens
Type categorysuspected_typesuspected_type
ANI97.38%97.38%
Assembly coverage67.06%67.06%
Type assembly coverage72.29%72.29%

Chromosomes

Note: This scaffold-level genome assembly includes 78 scaffolds and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_028199265.1GCF_028199265.1ASM2819926v1ScaffoldJan 28, 2023