Characterization of the complete mitochondrial genome and phylogenetic relationships of the three-spot swimming crab (Portunus sanguinolentus)

Abstract

ABSTRACT. In this study, we determined the whole mitochondrial genome profile of the three-spot swimming crab (Portunus sanguinolentus) and elucidated phylogenetic relationships between representative species in the order Decapoda. The mitochondrial genome was 16,024 bp in length and consisted of 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes, and a putative control region. Of the 37 genes, 23 were encoded by the heavy strand while 14 were encoded by the light strand. Four types of start codons were identified; ATG initiated nine genes, ATT initiated two genes, and ATC and GTG each started one gene. Nine protein-coding genes ended with a complete TAA or TAG stop codon, and four genes ended with an incomplete T or TA codon. Fourteen non-coding regions were found, which ranged from 1 to 34 bp in length. Nine overlaps were observed, with lengths between 1 and 7 bp. Phylogenetic analysis suggested that P. sanguinolentus is genetically closest to P. trituberculatus and P. pelagicus. Charybdis feriata, C. japonica, and Thalamita crenata formed a single cluster, and were close to the genera Callinectes and Portunus. Therefore, the genera Charybdis and Thalamita should be classified into the subfamily Portuninae.

Complete mitochondrial genomes from two species of Chinese freshwater crabs of the genus Sinopotamon recovered using next-generation sequencing reveal a novel gene order (Brachyura, Potamidae)

“…Furthermore, several repeated motifs were identified at the 3’ end of the central domain for three Sinopotamon species, including TA (TC), TA (T), CA (TA) and AT ( AA ). Similar motifs were found in other brachyurans ( Pie et al 2008 ; Jondeung et al 2012 ; Shi et al 2015 ; Ma et al 2016a , 2016b ). These results indicate that mNCR could be used as a genetic marker for studies regarding population structure and phylogeographic patterns of related species ( Diniz et al 2005 ).…”

“…The largest non-coding region between rrnS and trnI was predicted to be the putative mNCR in the two Sinopotamon crab species ranging from 1194 bp ( S. yangtsekiense ) to 1231 bp ( S. yaanense ), where the position is similar to that found in Geothelphusa dehaani and other brachyurans (see Segawa and Aotsuka 2005 ; Bai et al 2016 ; Ma et al 2016a , 2016b ). The comparisons of mNCR of the two Sinopotamon species revealed a highly conserved structure, including a central domain and ETAS (Supporting information, Suppl.…”

Developmentof 84 single nucleotide polymorphism (SNP) markers for the three-spot swimming crab (Portunus sanguinolentus) by using RAD appoach Guidong Miao1,2,3 Feng Wang1,2,3 Jihua Guo1,2,3, Pei Zhang1,2,3 Hongyu Ma4

“…So far, little information could be available for population genetic structure of P. sanguinolentus. RAPD marker and mtDNA have been used study phylogenetic relationship of marine crabs (Jin et al 2004;Ma et al 2016;Meng et al 2016). mtDNA COI gene be used for evaluating population structure (Ren et al 2017).…”