Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete mitochondrial genome of sponge Pseudosuberites sp. (Demospongiae, Suberitida, Suberitidae) from Dokdo, Republic of Korea (East Sea).

ABSTRACT: The mitogenome of Pseudosuberites sp. (Suberitida, Suberitidae) has been determined first in the genus Pseudosuberites. Assembled mitogenome was 23,502 bp in length, including 14 protein-coding genes, 25 transfer RNA, and 2 ribosomal RNA genes. The order and structure are the same as those of other species belonging to the same family Suberitidae. Pseudosuberites sp. was clustered with Suberites domucula within the family Suberitidae. The mitogenome of Pseudosuberites sp. will be valuable for inferring phylogenetic relationships among members of suberitids.

SUBMITTER: Yu C

PROVIDER: S-EPMC7707649 | biostudies-literature | 2019 Nov

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete mitochondrial genome of sponge Pseudosuberites sp. (Demospongiae, Suberitida, Suberitidae) from Dokdo, Republic of Korea (East Sea).

Yu Cheol C Kang Dong Won DW Kim Hana H Kim Hyung June HJ

Mitochondrial DNA. Part B, Resources 20191121 2

The mitogenome of Pseudosuberites sp. (Suberitida, Suberitidae) has been determined first in the genus Pseudosuberites. Assembled mitogenome was 23,502 bp in length, including 14 protein-coding genes, 25 transfer RNA, and 2 ribosomal RNA genes. The order and structure are the same as those of other species belonging to the same family Suberitidae. Pseudosuberites sp. was clustered with Suberites domucula within the family Suberitidae. The mitogenome of Pseudosuberi ...[more]

PMID: 33366375

Similar Datasets

The complete mitochondrial genome of sponge Tethya sp. (Demospongiae, Tethyida, Tethyidae).

Project description:The complete mitochondrial genome of Tethya sp. was studied. This is the second complete mitochondrial report on the family Tethyidae. The mitochondrial genome of Tethya sp. is 20,582 bp in length, containing 14 protein-coding genes and 25 tRNA genes, with 2 rRNA genes. Our phylogenetic result suggested that Tethya sp. converged well with Tethya actinia, which further verified the morphological result. We anticipate our study to shed light on future molecular studies of demosponges.

| S-EPMC7799499 | biostudies-literature

The complete mitochondrial genome of sponge Halichondria okadai (Demospongiae, Suberitida, Halichondriidae) from Korea water.

Project description:The mitogenome sequence of Sponge Halichondria okadai (Kadota, 1922) (Suberitida, Halichondriidae) was determined for the first time in this study. The circular genome is 20,722 bp in length, containing 14 protein coding genes (PCGs), two ribosomal RNAs (rRNAs), and 25 transfer RNAs (tRNAs). The nucleotide composition of mitogenome consists of 29.5% A, 14.2% C, 21.5% G, 34.7% T, showing a high content of A + T similar to the other Suberitid sponges. These results will be useful for inferring the phylogenetic relationships among the members of family Halichondriidae within the Suberitids.

| S-EPMC7799822 | biostudies-literature

The complete mitochondrial genome of sponge Halichondria (Halichondria) sp. (Demospongiae, Suberitida, Halichondriidae).

Project description:In this study, we found out the complete mitochondrial genome of Halichondria (Halichondria) sp., a common demosponge in China. This is the first complete mitochondrial report on the genus Halichondria. The mitochondrial genome of Halichondria (Halichondria) sp. is 20 746 bp in length, with 14 protein-coding genes, two rRNA genes and 25 tRNA genes. When compared with the complete mitochondrial genome of Hymeniacidon sinapium, our phylogenetic result suggested that Halichondria (Halichondria) sp. converged well according to morphological result.

| S-EPMC7800652 | biostudies-literature

Complete Genome Sequence of the Proteorhodopsin-Containing Marine Flavobacterium Dokdonia donghaensis DSW-1T, Isolated from Seawater off Dokdo in the East Sea (Sea of Korea).

Project description:Dokdonia spp. have been used for investigating the lifestyles of proteorhodopsin-containing photoheterotrophs and for understanding marine photobiology. Here, we report the complete genome sequence of Dokdonia donghaensis DSW-1(T) using the PacBio sequencing platform. It should provide a valuable resource for comparative genomic studies of marine life harboring microbial rhodopsins among others.

| S-EPMC4974333 | biostudies-literature

Genome Sequence of Porphyrobacter dokdonensis DSW-74T, Isolated from Seawater off Dokdo in the East Sea (Sea of Korea).

Project description:Porphyrobacter dokdonensis strain DSW-74, isolated from seawater off of Dokdo, Republic of Korea, is a member of the family Erythrobacteraceae In this study, the genome sequence of DSW-74 was determined using the Illumina HiSeq 2000 platform and assembled into 11 contigs. Its genome is approximately 3.0 Mb with a G+C content of 64.8%, in which 2,875 protein-coding sequences and 47 RNA genes were predicted.

| S-EPMC5009977 | biostudies-literature

Complete Genome Sequence of Lacinutrix venerupis DOK2-8 Isolated from Marine Sediment from the East Sea, Republic of Korea.

Project description:Lacinutrix venerupis has recently been considered a potential fish pathogen. Here, we report the complete genome sequence of L. venerupis DOK2-8, which possesses several virulence-related genes. This strain may be potentially virulent to other marine organisms, and its genomic information will provide important insights into the biodiversity of the genus Lacinutrix.

| S-EPMC5773737 | biostudies-literature

The complete mitochondrial genome of Poraniopsis inflata (Asteroidea: Valvatida: Poraniidae) from Dokdo Island, Korea.

Project description:This study presents the complete mitochondrial genome sequence of Poraniopsis inflata, providing valuable information on its genetic and taxonomic studies. Through next-generation sequencing, we successfully obtained the complete mitogenome of P. inflata, spanning a length of 16,322 bp. This genome structure encompasses 13 protein-coding genes (PCGs), 22 transfer RNA genes, and two ribosomal RNA genes. The phylogenetic analysis, based on a dataset of 13 PCG sequences, illuminated the phylogenetic relationships of P. inflata with other species of class Asteroidea and a species of echinoderm classes. The maximum likelihood phylogenetic tree showed that P. inflata closely clustered with Linckia laevigata. By revealing its mitochondrial genome and positioning it within the Asteroidea lineage, this study provides insights into the phylogenetic context of P. inflata.

| S-EPMC10878332 | biostudies-literature

Complete mitochondrial genome of Cacospongia mycofijiensis (Dictyoceratida: Demospongiae): the first report for the sponge family Thorectidae.

Project description:We sequenced a complete mitochondrial genome of the marine sponge, Cacospongia mycofijiensis, which is the first report for the family Thorectidae in the class Demospongiae. The mitogenome was obtained from a de novo assembly of shotgun genome sequencing using Illumina Miseq technology, which reconstructed a circular genome with 97 × of sequence coverage. The assembled mitochondrial genome consisting of 16,227 bp includes 14 protein-coding genes, 2 rRNAs and 2 tRNAs. This complete mitogenome sequence will be useful especially for the phylogenic studies of Demospongiae.

| S-EPMC7799660 | biostudies-literature

Antimicrobial Lavandulylated Flavonoids from a Sponge-Derived Streptomyces sp. G248 in East Vietnam Sea.

Project description:Three new lavandulylated flavonoids, (2S,2''S)-6-lavandulyl-7,4'-dimethoxy-5,2'-dihydroxylflavanone (1), (2S,2''S)-6-lavandulyl-5,7,2',4'-tetrahydroxylflavanone (2), and (2''S)-5'-lavandulyl-2'-methoxy-2,4,4',6'-tetrahydroxylchalcone (3), along with seven known compounds 4-10 were isolated from culture broth of Streptomyces sp. G248. Their structures were established by spectroscopic data analysis, including 1D and 2D nuclear magnetic resonance (NMR), and high-resolution electrospray ionization mass spectrometry (HR-ESI-MS). The absolute configurations of 1-3 were resolved by comparison of their experimental and calculated electronic circular dichroism spectra. Compounds 1-3 exhibited remarkable antimicrobial activity. Whereas, two known compounds 4 and 5 exhibited inhibitory activity against Mycobacterium tuberculosis H37Rv with minimum inhibitory concentration (MIC) values of 6.0 µg/mL and 11.1 µg/mL, respectively.

| S-EPMC6780759 | biostudies-literature

Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae).

Project description:Sponges are among the earliest branching extant animals. As such, genetic data from this group are valuable for understanding the evolution of various traits and processes in other animals. However, like many marine organisms, they are notoriously difficult to sequence, and hence, genomic data are scarce. Here, we present the draft genome assembly for the North Atlantic deep-sea high microbial abundance species Geodia barretti Bowerbank 1858, from a single individual collected on the West Coast of Sweden. The nuclear genome assembly has 4,535 scaffolds, an N50 of 48,447 bp and a total length of 144 Mb; the mitochondrial genome is 17,996 bp long. BUSCO completeness was 71.5%. The genome was annotated using a combination of ab initio and evidence-based methods finding 31,884 protein-coding genes.

| S-EPMC10542158 | biostudies-literature