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 the cave shrimp Typhlatya miravetensis (Decapoda, Atyidae) and its systematic position.

ABSTRACT: The complete mitochondrial genome of Typhlatya miravetensis from one of its only three known localities (Ullal de la Rabla de Miravet, Castellón, Spain) is presented here. The mitogenome is 15,865?bp in length and includes the standard set of two rRNAs, two non-coding regions plus 13 protein-coding genes. The later have been used to perform a phylogenetic analysis together with other Caridea representatives with mitogenome data in GenBank, inferring a close relationship with the Hawaiian volcano shirmp (Halocaridina rubra) within the family Atyidae.

SUBMITTER: Jurado-Rivera JA

PROVIDER: S-EPMC7799957 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete mitochondrial genome of the cave shrimp Typhlatya miravetensis (Decapoda, Atyidae) and its systematic position.

Jurado-Rivera José A JA Jaume Damià D Juan Carlos C Pons Joan J

Mitochondrial DNA. Part B, Resources 20161112 1

The complete mitochondrial genome of Typhlatya miravetensis from one of its only three known localities (Ullal de la Rabla de Miravet, Castellón, Spain) is presented here. The mitogenome is 15,865 bp in length and includes the standard set of two rRNAs, two non-coding regions plus 13 protein-coding genes. The later have been used to perform a phylogenetic analysis together with other Caridea representatives with mitogenome data in GenBank, inferring a close relationship with the Hawaiian ...[more]

PMID: 33473652

Similar Datasets

The complete mitochondrial genome of Neocaridina heteropoda koreana Kubo, 1938 (Decapoda: Atyidae).

Project description:Neocaridina heteropoda koreana Kubo, 1938 is a freshwater shrimp native to the Korean peninsula. We have determined the mitogenome of N. heteropoda koreana, which's length is 15,558 bp long including 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNAs, and a single large non-coding region of 674 bp. Its GC ratio is 33.0%. Gene order of N. heteropoda koreana is identical to those of other known Atyidae species. Phylogenetic trees show that N. heteropoda koreana is sister to N. davidi and placed within genus Caridina. Our mitogenome will be a useful resource for understanding molecular phylogeny of genus Neocradina.

| S-EPMC7687589 | biostudies-literature

The complete mitochondrial genome of the peppermint shrimp Lysmata wurdemanni (Decapoda: Lysmatidae).

Project description:In this study, the complete 16,979 bp mitochondrial genome of Lysmata wurdemanni (Gibbes, 1850) was determined from a specimen collected from Apalachee Bay, U.S. The mitogenome contains 37 genes, and consists of 32.33% A, 35.01% T, 19.55% C, and 13.10% G, with a total G + C content of 32.65%. A maximum likelihood phylogenetic tree based on mitochondrial protein-coding genes suggested L. wurdemanni is clustered with Lysmata vittata and Lysmata amboinensis, based on available mitochondrial sequences of relatives. These data are useful in determining phylogenetic relationships between Lysmatidae and Thoridae. The sequenced mitochondrial genome may also assist in understanding evolutionary distinctions and breeding strategies in hermaphroditic species.

| S-EPMC8211131 | biostudies-literature

Caridina sinanensis, a new species of stygobiotic atyid shrimp (Decapoda, Caridea, Atyidae) from a karst cave in the Guizhou Province, southwestern China.

Project description:From a biodiversity survey of a subterranean habitat near Sinan County, Guizhou Province, southwestern China, a new atyid shrimp of the genus Caridina H. Milne Edwards, 1837, C. sinanensis sp. nov. was discovered. The new species can be separated from other congeners based on a combination of characters including depigmentation in body and reduction of eyes, small pigment spot at the centre of the cornea, the shape of rostrum and the endopod of the 1st male pleopod, and the relatively longer appendix interna on the appendix masculina of the 2nd pleopod. Mitochondrial COI and 16S rRNA gene sequences also support the establishment of the new species. Information on the habitat, and the levels of threat are discussed to guide the conservation of C. sinanensis sp. nov.

| S-EPMC7790810 | biostudies-literature

The complete mitochondrial genome of the symbiotic infaunal snapping shrimp Leptalpheus forceps (Decapoda, Alpheidae).

Project description:The snapping shrimp Leptalpheus forceps (family Alpheidae) has a unique natural history as an infaunal symbiont of larger burrowing crustaceans. The mitogenome of L. forceps was sequenced, the first for a symbiotic representative of the family and the first for a species outside of the genus Alpheus. The complete mitogenome was 15,463 bp in length and included 13 protein-coding genes, 12 tRNAs, and 2 rRNAs. The gene order matched all known alpheid mitogenomes. Similar to other caridean mitogenomes, the nucleotide composition was A + T biased (62%). A maximum-likelihood phylogenetic analysis of caridean mitogenomes strongly supported monophyly of the family Alpheidae.

| S-EPMC7748510 | biostudies-literature

Neocaridinafonticulata, a new land-locked freshwater shrimp from Hengchun Peninsula, Taiwan (Decapoda, Caridea, Atyidae).

Project description:A new species of land-locked freshwater shrimp, Neocaridinafonticulata sp. n. (Atyidae), is described from Kenting, Hengchun Peninsula, Pingtung County, southern Taiwan. This new species can be distinguished from its congeners by rostrum structure, pereiopods, and male first and second pleopods. The molecular evidence of mitochondrial cytochrome oxidase subunit I (COI) also supports the establishment of a new species. This is the third endemic species of Neocaridina known from Taiwan.

| S-EPMC6342859 | biostudies-literature

The complete mitochondrial genome sequence of the sakura shrimp, Sergia lucens (Crustacea, Decapoda, Sergestidae).

Project description:Here, we present the complete mitochondrial genome of the sakura shrimp, Sergia lucens (Crustacea, Decapoda, Sergestidae). The circular genome is 16,087 base pairs in length and contains 13 protein-coding genes, 22 tRNA genes, and two rRNA genes. The nucleotide composition of the S. lucens mitogenome is biased towards A?+?T (69.9%). The gene arrangement was identical to penaeid shrimps. Maximum likelihood phylogenetic analysis using the nucleotide sequences of 13 protein-coding genes placed S. lucens next to Acetes chinensis, supporting the conventional taxonomic relationship of Sergia and Acetes.

| S-EPMC7800779 | biostudies-literature

The complete mitochondrial genome of the Argentine red shrimp Pleoticus muelleri (Bate, 1888) (Crustacea, Decapoda, Solenoceridae).

Project description:The complete mitochondrial genome of Argentine red shrimp, Pleoticus muelleri (Bate, 1888) was determined using the MiSeq platform. Its mitogenome (16,189 bp) encoded the canonical 13 protein-coding genes, 22 tRNA genes, two rRNA genes. Start codons of all protein-coding genes were ATN except for ATP8, while incomplete stop codons (T-) were identified in six genes including COXI, COXII, COXIII, NAD3, NAD5, and NAD6. The mitogenome of P. muelleri showed highest sequence identity with Parapenaeopsis hardwickii (82%) and Solenocera crassicornis (81%). Phylogenetic analysis showed three shrimps in Solenoceridae including P. muelleri were grouped together from those in Penaeidae, which suggests taxonomic reexamination for those in those family.

| S-EPMC7800069 | biostudies-literature

The complete mitogenome of Caridina indistincta 'sp. A' (Decapoda: Atyidae).

Project description:A complete mitochondrial genome sequence was determined for a member of the Caridina indistincta species complex known as C. indistincta 'sp. A'. The 15,461 bp sequence (GenBank: MH189850) was obtained via genome skimming, and contains 13 protein coding genes, 22 tRNA genes, 2 rRNA genes, and a 646 bp control region arranged in the pancrustacean ground pattern. Caridina indistincta sp. A is a freshwater macroinvertebrate important for ecosystem health monitoring in Australia and this reference will be a useful resource for metabarcoding and eDNA studies.

| S-EPMC7800972 | biostudies-literature

All Shades of Shrimp: Preferences of Colour Morphs of a Freshwater Shrimp Neocaridina davidi (Decapoda, Atyidae) for Substrata of Different Colouration.

Project description:An ornamental freshwater shrimp, Neocaridina davidi, is popular as an aquarium hobby and, therefore, a potentially invasive species. There is a growing need for proper management of this species to determine not only their optimum breeding conditions, but also their ability to colonise novel environments. We tested habitat preferences of colour morphs (brown, red, white) of N. davidi for substratum colour (black, white, grey shades, red) and fine or coarse chess-board patterns to recognise their suitable captivity conditions and predict their distribution after potential release into nature. We conducted laboratory choice experiments (n = 8) with three individuals of the same morph exposed for two hours to a range of backgrounds. Shrimp preferred dark backgrounds over light ones irrespective of their own colouration and its match with the background colour. Moreover, the brown and red morphs, in contrast to the white morph, preferred the coarse background pattern over the finer pattern. This suggests that the presence of dark, uniform substrata (e.g., rocks, macrophytes) will favour N. davidi. Nevertheless, the polymorphism of the species has little effect on its total niche breadth, and thus its invasive potential.

| S-EPMC8069546 | biostudies-literature

The complete mitochondrial genome of the cryptic species (Form II) in kuruma shrimp Marsupenaeus japonicus (Decapoda: Penaeidae).

Project description:The Kuruma shrimp M. japonicus is economic important species in the shrimp fishery and aquaculture. However, it is a species complex consisting of two cryptic species (Form I and Form II), which can be difficult to identify based on morphology. Here, we report the complete mitochondrial genome sequence of M. japonicus (Form II) from Beibu Bay. The mitogenome has 15,966 base pairs and made up of total of 37 genes (13 protein-coding, 22 transfer RNAs and 2 ribosomal RNAs), and a putative control region. There were 1029 mutations sites between these two cryptic species, and the most variable sites were putative control region. This study adds a distinct mitogenome of M. japonicus (Form II) and will provide useful genetic information for future genetic variation identification and genetic diversity evaluation of this economic valuable shrimp.

| S-EPMC7800321 | biostudies-literature