Genome assembly ASM3889515v1

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Submitted GenBank assembly
GCA_038895155.1
Taxon
Thermosphaera sp.
Isolate
SZTDM-1b_201709_bins_1
WGS project
JAWANV01
Submitter
The University of Texas at Austin
Date
Apr 30, 2024

Genome notes

NCBI has noted the following for this genome assembly. View definitions

  • derived from metagenome

Assembly statistics

GenBank
Genome size998.6 kb
Total ungapped length998.3 kb
Number of scaffolds135
Scaffold N509.4 kb
Scaffold L5036
Number of contigs138
Contig N508.8 kb
Contig L5037
GC percent46
Genome coverage280.3x
Assembly levelScaffold

Sample details

BioSample ID
SAMN36038223
Description
MIMAG Metagenome-assembled Genome sample from Thermosphaera sp.
Comment
Keywords: GSC:MIxS;MIMAG:6.0
Submitter
Sun Yat-sen University
Isolation source
Hot spring sediment
Collection date
2017-09
Geographic location
China: Tengchong county, Yunnan, SZTDM-1b pool
Latitude and longitude
24.95 N 98.44 E
Isolate
SZTDM-1b_201709_bins_1
Metagenomic
1
Environmental-sample
1
Sample type
metagenomic assembly
Metagenome source
hot springs metagenome
Depth
Surface
Elevation
Unknown
Broad-scale environmental context
Hot spring
Local-scale environmental context
Hot spring sediment
Environmental medium
Hot spring sediment
Derived from
SAMN28867993
Sample name
Thermosphaera sp. SZTDM-1b_201709_bins_1
Models
MIMAG.sediment
Package
MIMAG.sediment.6.0
Submission date
2023-06-29T08:41:12.980
Publication date
2024-05-02T00:42:10.887
Last updated
2024-05-02T00:42:10.887

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. 3.9.0

BioProject

PRJNA544494

Hot springs China metagenomic assembly Genome sequencing and assembly

Annotation details

GenBank
ProviderNCBI
NameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateSep 30, 2023
Genes1,179
Protein-coding1,142
Software version6.6

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

Taxonomy check

Taxonomy check status
Inconclusive
Best match status
low_coverage
Submitted organism name
Thermosphaera sp.
Submitted species name
Thermosphaera sp.

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assembly

n/a

GCA_000513855.1
Organism name

n/a

Desulfurococcus amylolyticus
Type category

n/a

type
ANI

n/a

91.44%
Assembly coverage

n/a

0.63%
Type assembly coverage

n/a

0.48%

Chromosomes

Note: This scaffold-level genome assembly includes 135 scaffolds and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_038895155.1

n/a

ASM3889515v1ScaffoldApr 30, 2024