Browse
Submit Data
Databases
API
Help

Dataset Information

21 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Characterization of the complete mitochondrial genome of Squalus brevirostris (Squaliformes, Squalidae).

ABSTRACT: The complete mitochondrial genome sequence of Squalus brevirostri was determined using next-generation sequencing. The whole circular genome is 16,734?bp in length. It contains 37 genes including13 protein-coding genes (PCGs), two ribosomal RNA (rRNA) genes, 22 transfer RNA genes (tRNA), and a control region (D-Loop). The overall nucleotide composition is A: 30.38%, T: 30.73%, G: 24.61%, and C: 14.27%, with an A?+?T content of 61.11%. The phylogenetic analysis suggested that S. brevirostris was closely related to Squalus montalbani.

SUBMITTER: Zhang N

PROVIDER: S-EPMC7706783 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Characterization of the complete mitochondrial genome of Squalus brevirostris (Squaliformes, Squalidae).

Zhang Nan N Guo Hua-Yang HY Guo Liang L Zhu Ke-Cheng KC Liu Bao-Suo BS Yang Jing-Wen JW Zhang Dian-Chang DC

Mitochondrial DNA. Part B, Resources 20190906 2

The complete mitochondrial genome sequence of Squalus brevirostri was determined using next-generation sequencing. The whole circular genome is 16,734 bp in length. It contains 37 genes including13 protein-coding genes (PCGs), two ribosomal RNA (rRNA) genes, 22 transfer RNA genes (tRNA), and a control region (D-Loop). The overall nucleotide composition is A: 30.38%, T: 30.73%, G: 24.61%, and C: 14.27%, with an A + T content of 61.11%. The phylogenetic analysis suggested that S. breviro ...[more]

PMID: 33365783

Similar Datasets

Complete mitochondrial genome and the phylogenetic position of theTaiwan spurdog shark Squalus formosus (Squaliformes: Squalidae).

Project description:The complete mitogenome of the Taiwan spurdog shark Squalus formosus (Squaliformes: Squalidae) is determined in this study. It is a circle molecular (16,735?bp), containing 37 genes with typical order to that of most other vertebrates. The nucleotide composition is: A 30.9%; C 24.5%; G 14.2%; T 30.5%. Two start codons (GTG and ATG) and two stop codons (TAG and TAA/T) are used in the protein-coding genes. 22 tRNA genes range from 66?bp (tRNA-Ser2) to 75?bp (tRNA-Leu1). The phylogenetic result shows that S. formosus clusters to the (Squalus acanthias?+?Cirrhigaleus australis) clade.

| S-EPMC7800233 | biostudies-literature

Complete mitochondrial genome and the phylogenetic position of the smalleye pygmy shark Squaliolus aliae (Squaliformes: Dalatiidae).

Project description:The complete mitogenome of the smalleye pygmy shark Squaliolus aliae (Squaliformes: Dalatiidae) is presented in this study firstly. It is 16,717?bp with a nucleotide base composition of 30.7% A, 26.2% C, 14.7% G and 28.5% T, containing 37 genes and a control region with typical order as vertebrate. There are 23bp short intergenic spaces and 28bp overlaps locating in gene junctions. 2 rRNA genes are located in heavy strand. Twenty-two tRNA genes range from 67bp (tRNA-Cys) to 75?bp (tRNA-Leu1). Two initial codons (ATG and GTG) and two terminal codons (TAA and T) are found in protein-coding genes. The phylogenetic result shows that S. aliae in this study is clustered to the (Somniosus pacificus?+?Squalidae).

| S-EPMC7799894 | biostudies-literature

Characterization of the complete mitochondrial genome of Conus tribblei Walls, 1977.

Project description:The genus Conus sensu lato consists of 500-700 species. However, the mitochondrial genomes of only few species have been fully sequenced and reported so far. In this study, the complete mitochondrial genome of Conus tribblei, a member of the poorly known subgenus Splinoconus is sequenced with the mean coverage of 604×. The mitochondrial genome is 15?570?bp long and consists of genes encoding for 13 respiratory chain proteins, 22 tRNA and 2 rRNA. The gene organization is highly conserved among the Conus species. The longest intergenic region between tRNA-Phe and cytochrome c oxidase subunit III (cox3), which in C. tribblei is 169?bp long and contains a 112?bp long segment of inverted repeat, represents the putative control region. The control regions of Conus species exhibited variability in the length and position of the inverted repeats. Therefore, this region may have the potential to be used as a genetic marker for species discrimination.

| S-EPMC5556944 | biostudies-literature

Characterization and Phylogenetic Implications of the Complete Mitochondrial Genome of Syrphidae.

Project description:In this study, the complete mitochondrial genomes (mitogenomes) of two hoverfly species of Korinchia angustiabdomena (Huo, Ren, and Zheng) and Volucella nigricans Coquillett (Diptera: Syrphidae) were determined and analyzed. The circular mitogenomes were 16,473 bp in K. angustiabdomena (GenBank No. MK870078) and 15,724 bp in V. nigricans (GenBank No. MK870079). Two newly sequenced mitogenomes both contained 37 genes, and the gene order was similar with other syrphine species. All the protein-coding genes (PCGs) were started with the standard ATN codons; and most of PCGs were terminated with a TAA stop codon, while ND1 in K. angustiabdomena ended with a TAG codon, and ND5 terminated with truncated T stop codons in both species. The phylogenetic relationship between K. angustiabdomena and V. nigricans with related lineages was reconstructed using Bayesian inference and Maximum-likelihood analyses. The monophyly of each family considered within Muscomorpha was confirmed by the clades in the phylogenetic tree, and superfamily of the Oestroidea (Calliphoridae, Sarcophagidae, and Oestridae) was unexpectedly found to be a paraphyletic group based on our selected data. This mitogenome information for K. angustiabdomena and V. nigricans could facilitate future studies of evolutionarily related insects.

| S-EPMC6723807 | biostudies-literature

Characterization of the complete mitochondrial genome of Notospermus geniculatus.

Project description:In this study, the complete mitochondrial genome of Notospermus geniculatus, was recovered through Illumina sequencing data. This complete mitochondrial genome of N. geniculatus is 15,180?bp in length and has a base composition of A (14.4%), T (41.3%), C (14.6%), G (29.6%), demonstrating a bias of higher AT content (55.7%) than GC content (44.2%). The mitochondrial genome contains a typically conserved structure among Lineidae mitogenomes, encoding 13 protein-coding genes (PCGs), 23 transfer RNA genes (tRNA), 2 ribosomal RNA genes (12S rRNA and 16S rRNA), and a control region (D-loop region). All PCGs were located on the H-strand. ND4L gene and ND4 gene were overlapped by 6?bp. The whole mt genome of N. geniculatus and other Protostomia mitogenomes (17 species, in total) were used for phylogenetic analysis. The result indicated N. geniculatus has the closest relationship with Lineus viridis (FJ839919.1) and clustered within Heteronemertea Clade, which representing a distinct order.

| S-EPMC7800901 | biostudies-literature

Characterization of the complete mitochondrial genome of Coelastrum_sp.F187.

Project description:Coelastrum is a genus of green algae that belongs to the Scenedesmaceae family. There is little information available about this genus. A phylogenetic analysis of the ITS2 sequences showed that Coelastrum is a paraphyletic group. To better explore the phylogenetic status of this genus, we report the mitochondrial genome sequence of Coelastrum sp. F187 using next-generation sequencing technology. The complete mitochondrial genome is 52,888?bp in size and encodes 43 conventional mitochondrial genes, including 14 protein-coding genes (PCGs), 24 transfer RNA (tRNA) genes, and four ribosomal RNA (rRNA) genes. Most of the PCGs (12/14) and all tRNAs were located in the heavy chain and the light chain, respectively. The phylogenetic analysis based on the complete mitochondrial genome sequences indicated that Coelastrum is closely related to Pectinodesmus pectinatus. The sequenced complete mitochondrial genome of Coelastrum sp. F187 provides fundamental molecular data that will be useful for species identification, population genetics, and evolutionary relationships.

| S-EPMC7800356 | biostudies-literature

Characterization of the complete mitochondrial genome of Morchella eohespera.

Project description:Morchella eohespera Beug, Voitk & O'Donnell is a typical black morel species. In this study, using the Nanopore sequencing platform, we characterized its whole mitochondrial (mt) genome sequence. Mt genome of M. eohespera is composed of circular DNA molecules of 243,963 bp, which encoded 102 protein-coding genes (PCGs), two ribosomal RNA genes (rRNA), and 31 transfer RNA (tRNA) genes. The base composition of M. eohespera mitogenome is as follows: A (30.40%), T (29.30%), G (20.8%), and C (19.5%). The phylogenetic analysis suggested that M. eohespera was closely related to the congeneric M. importuna.

| S-EPMC7782286 | biostudies-literature

Characterization of the complete mitochondrial genome of Ageratum conyzoides.

Project description:As a pharmaceutical plant with multi-bioactivity, Ageratum conyzoides appears to be a valuable agricultural resource. In this study, the complete mitochondrial (mt) genome of A. conyzoides was sequenced through Illumina sequencing method, and the mt genome was recovered after de novo assembly and annotation. The results showed that the 219,198 bp mt genome has a total of 52 genes, including 30 protein-coding genes, 3 rRNA genes and 19 tRNA genes. The overall GC content of this mitogenome is 45.4%. By phylogenetic analysis using maximum-likelihood (ML) method, A. conyzoides showed the closest relationship with Diplostephium hartwegii in the family of Asteroideae.

| S-EPMC7707261 | biostudies-literature

The phylogenomic position of the smooth lanternshark Etmopterus pusillus (Squaliformes: Etmopteridae) inferred from the mitochondrial genome.

Project description:In this study, the complete mitogenome of the Smooth lanternshark Etmopterus pusillus (Squaliformes: Etmopteridae) was firstly determined. It was 16,729 bp, consisting of 13 protein-coding genes (PCGs), 22 tRNA genes, 2 rRNA genes and 1 putative control region with typical order to that of most other vertebrates. Its nucleotide base composition is 31.3% A, 23.0% C, 14.3% G and 31.5% T. Two start codons (GTG and ATG) and two stop codons (TAG and TAA/T) were used in the protein-coding genes. The phylogenetic results showed that E. pusillus was clustered to Squaliolus aliae (Dalatiidae) and suggested that Dalatiidae was polyphyletic.

| S-EPMC7875202 | biostudies-literature