The complete mitochondrial genome of the Japanese ghost shrimpNihonotrypaea japonica(Crustacea, Decapoda, Axiidea)

Abstract

We determined the complete mitochondrial (mt) genome sequence of the Japanese ghost shrimp Nihonotrypaea japonica (Ortmann 1891) (Crustacea, Decapoda, Axiidea). The N. japonica mt genome is first represented in infraorder Axiidea, which, together with infraorder Gebiidea, belonged to infraorder Thalassinidea until recently. The genome sequence of N. japonica is 15,274 bp in size, and the gene arrangement and transcriptional polarity are partially different from that of the Japanese mud shrimp, Upogebia major, which belongs to the infraorder Gebiidea. We present the mt genome of N. japonica, which could provide useful molecular information to construct a stable classification for infraorder Thalassinidea and to better understand the phylogenetic relationship of Thalassinidea with other decapod groups.

Digging deeper: new gene order rearrangements and distinct patterns of codons usage in mitochondrial genomes among shrimps from the Axiidea, Gebiidea and Caridea (Crustacea: Decapoda)

“…Members of the infraorder Gebiidea were also included in this analysis due to its taxonomic history of having been placed with Axiidea in the infraorder Thalassinidea, prior to obtaining recent recognition as its own separate infraorder (Ahyong & O’Meally, 2004; Crandal, Harris & Fetzner, 2000; Robles et al, 2009; Timm & Bracken-Grissom, 2015). The mitogenomic features of these taxa are generally consistent with those for the Decapoda and for the three infraorders (Kim et al, 2013; Lin et al, 2012; Miller et al, 2005) (Table S1). In addition, the high AT content (58.9–73.6%) observed in all of the mitogenomes utilized in this study is typical for the Crustacea and the Arthropoda (Cameron, 2014; Cook, Yue & Akam, 2005; Lin et al, 2012; Shen et al, 2015).…”

Development and characterization of 123 SNP markers in Neotrypaea japonica (Ortmann 1891)

“…The Japanese ghost shrimp Neotrypaea japonica (Ortmann 1891), belongs to the group of Crustaceas (Kim et al, 2013). N. japonica is a dominant species in the macrobenthos community, which occupies important position of burrowing thalassinideans in soft-sediment environments (Mukai and Koike 1984;Posey et al 1991;Dworschak 2000).The species quantity is facing a wide range of major threats, including environmental destruction, pollution, hydrological change and so on (Felder 2001).…”

Development and Characterization of 123 SNP Markers in Neotrypaea Japonica (Ortmann 1891)

“…The Japanese ghost shrimp Neotrypaea japonica (Ortmann 1891), belongs to the group of Crustaceas (Kim et al, 2013). N. japonica is a dominant species in the macrobenthos community, which occupies important position of burrowing thalassinideans in soft-sediment environments (Mukai and Koike 1984;Posey et al 1991;Dworschak 2000).The species quantity is facing a wide range of major threats, including environmental destruction, pollution, hydrological change and so on (Felder 2001).…”