Editing Genome sc|0003233

Name

Not registered

Database

NCBI Assembly

Accession

ASM4190370v1

Genome information

General information about the sequenced genome

Type of genome *

Sequencing depth (X)Required for isolate genomes, optional (but recommended) for all other types

Source material

Database entry describing the source material from which the genome was derived

Database *

Accession *Multiple accessions in the same database can be reported separated by comma (,)

Quality assessment

Quality metrics assessed by the submitter. If left empty, automated assesment will be used to fill-up all the information below.

G+C content (%)

Estimated completeness (%)

Estimated contamination (%)

Fraction of the most complete 16S rRNA gene fragment (%)

Number of 16S rRNA gene fragments

Fraction of the most complete 23S rRNA gene fragment (%)

Number of 23S rRNA gene fragments

Number of standard amino acids for which tRNA elements were detectedPlease indicate the number of distinct amino acids, not the total number of tRNA elements

Methods and Comments

Describe in detail the methods used to assess the quality metrics above, and comment on any potential issues related to this genome

Submitter comments

Metagenomes were assembled with megahit (Li et al. 2015), and contigs >1kb were then reassembled with SPAdes (Bankevich et al. 2012). Contigs >5kb were then used for binning Thiocapsa MAGs, which were obtained with metabat2 (Kang et al. 2019). Then, these MAGs were analyzed with CheckM (Parks et al. 2015) to estimate contamination and completeness, keeping only five genomes with <1% contamination and >99% completeness as assessed with family Chromatiaceae markers from the same package. Additionally, genomes were classified as a novel Thiocapsa sp. with the last version of GTDB-tk (Parks et al. 2018).

The isolation source of this species was the freshwater lake Lagunillo de Cardenillas (Cuenca, Spain). The type strain is Thiocapsa roseolacustris strain N5-Cardenillas. It is gram negative with cells of approximately 1.5 μm length and 0.8 μm width ± 0.2 μm. It possesses a mol% G + C content of 63.4%. The genome recovered as a MAG has 6,229,630 bp. MAGs representing composite clones within the same species are available at NCBI-GenBank (Biosample numbers SAMN40716411-SAMN40716415).

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