The mitochondrial genomes of <i>Cambaroides similis</i> and <i>Procambarus clarkii</i> (Decapoda: Astacidea: Cambaridae): the phylogenetic implications for Reptantia

Kim, Sanghee; Park, Mi-Hyun; Jung, Jae-Ho; Ahn, Dong Ha; Sultana, Tahera; Kim, Sejoo; Park, Joong Ki; Choi, Han Gu; Min, Gi–Sik

doi:10.1111/j.1463-6409.2012.00534.x

Cited by 33 publications

(21 citation statements)

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“…The present result suggests that Gebiidea is the sister group of Meiura though only with moderate support. In general, the topology of the currently most extensive complete mitochondrial genomic tree of decapod crustaceans (particularly the one based on amino acid sequences) is most similar to the most recent mt genome analyses by Kim, Park, et al [51], and those of Scholtz and Richter [10] and Ahyong and O’Meally [15] deduced from morphology and combined morphology and molecular (16S and 28S) data, respectively. The trees of Scholtz and Richter [10] and Ahyong and O’Meally [15] are essentially the same except for the identity of the sister clade of Thalassinidea (i.e.…”

Section: Discussionsupporting

confidence: 57%

“…the Meiura) has always received very high support in complete mitochondrial genomic analyses [51,52,62]. The present result suggests that Gebiidea is the sister group of Meiura though only with moderate support.…”

Section: Discussionmentioning

confidence: 50%

“…However, the latest phylogenetic reconstruction of decapod crustaceans using complete mitochondrial genome sequences [51,52] still has low resolution in most of the deep branches, notably with the status of Stenopodidea, lobsters and mud shrimps unresolved. Moreover, only a single species of mud shrimp collected from Korea, namely Upogebia major (De Haan, 1841) belonged to Gebiidea, has been sequenced for mitochondrial genome [53].…”

Section: Introductionmentioning

confidence: 99%

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Evolution and phylogeny of the mud shrimps (Crustacea: Decapoda) revealed from complete mitochondrial genomes

et al. 2012

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Background: The evolutionary history and relationships of the mud shrimps (Crustacea: Decapoda: Gebiidea and Axiidea) are contentious, with previous attempts revealing mixed results. The mud shrimps were once classified in the infraorder Thalassinidea. Recent molecular phylogenetic analyses, however, suggest separation of the group into two individual infraorders, Gebiidea and Axiidea. Mitochondrial (mt) genome sequence and structure can be especially powerful in resolving higher systematic relationships that may offer new insights into the phylogeny of the mud shrimps and the other decapod infraorders, and test the hypothesis of dividing the mud shrimps into two infraorders.Results: We present the complete mitochondrial genome sequences of five mud shrimps, Austinogebia edulis, Upogebia major, Thalassina kelanang (Gebiidea), Nihonotrypaea thermophilus and Neaxius glyptocercus (Axiidea). All five genomes encode a standard set of 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes and a putative control region. Except for T. kelanang, mud shrimp mitochondrial genomes exhibited rearrangements and novel patterns compared to the pancrustacean ground pattern. Each of the two Gebiidea species (A. edulis and U. major) and two Axiidea species (N. glyptocercus and N. thermophiles) share unique gene order specific to their infraorders and analyses further suggest these two derived gene orders have evolved independently. Phylogenetic analyses based on the concatenated nucleotide and amino acid sequences of 13 protein-coding genes indicate the possible polyphyly of mud shrimps, supporting the division of the group into two infraorders. However, the infraordinal relationships among the Gebiidea and Axiidea, and other reptants are poorly resolved. The inclusion of mt genome from more taxa, in particular the reptant infraorders Polychelida and Glypheidea is required in further analysis. Conclusions: Phylogenetic analyses on the mt genome sequences and the distinct gene orders provide further evidences for the divergence between the two mud shrimp infraorders, Gebiidea and Axiidea, corroborating previous molecular phylogeny and justifying their infraordinal status. Mitochondrial genome sequences appear to be promising markers for resolving phylogenetic issues concerning decapod crustaceans that warrant further investigations and our present study has also provided further information concerning the mt genome evolution of the Decapoda.

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Section: Discussionsupporting

confidence: 57%

Section: Discussionmentioning

confidence: 50%

Section: Introductionmentioning

confidence: 99%

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Evolution and phylogeny of the mud shrimps (Crustacea: Decapoda) revealed from complete mitochondrial genomes

et al. 2012

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“…For some time, the mitogenomes of only four astacideans, Procambarus clarkii (Astacoidea), Cambaroides similis (Astacoidea; Kim et al. ), Cherax destructor (Parastacoidea; Miller et al. ) and Homarus americanus (Nephropoidea; Kim et al.…”

Section: Introductionmentioning

confidence: 99%

The complete mitogenomes of lobsters and crayfish (Crustacea: Decapoda: Astacidea) reveal surprising differences in closely related taxa and convergences to Priapulida

Shen

Braband

Scholtz

2015

J Zoolog Syst Evol Res

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We sequenced the complete mitogenomes of three species of Decapoda, Astacidea, comprising Astacida (freshwater crayfish) and Homarida (marine clawed lobsters): 1. Procambarus fallax f. virginalis (Astacida, Astacoidea), 2. Homarus gammarus (Homarida, Nephropoidea) and 3. Enoplometopus occidentalis (Homarida, Enoplometopoidea). Together with the available species in GenBank, the taxon Astacidea is covered with at least one representative for each of the four main subtaxa. Astacidea show unexpectedly diverse genomic organizations. Ten different gene arrangements have been observed in the 28 investigated species. Compared with the decapod ground pattern, a huge inversion, involving more than half of the mitogenome, has been found in four freshwater crayfish species of Astacoidea and convergently in one lobster species. Surprisingly, this inversion can also be observed in the distantly related Priapulida. This multiple convergent evolution suggests a relative ease in the evolution of great similarities in mitochondrial gene order. In addition, a partial or complete loss of the protein‐coding gene nad2 has been found in E. occidentalis and H. gammarus but not in Nephrops norvegicus, Homarus americanus and Enoplometopus debelius. A reversal of the strand asymmetry has been found in five astacideans which is supposed to be caused by the inversion of a replication origin in the control region.

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“…Genomic DNA extraction, sequencing, and gene annotation were performed as described by Kim et al (2012). Genomic DNA extraction, sequencing, and gene annotation were performed as described by Kim et al (2012).…”

mentioning

confidence: 99%

The complete mitochondrial genome of the red-banded lobster Metanephrops thomsoni (Crustacea, Astacidea, Nephropidae): a novel gene order

Ahn

Min

Park

et al. 2015

Mitochondrial DNA Part A

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The complete mitochondrial genome (mitogenome) of the red-banded lobster, Metanephrops thomsoni (Decapoda, Astacidea, Nephropidae), is 19,835 bp in length and contains 13 protein-coding genes (PCGs), 2 ribosomal RNAs, 24 transfer RNAs (including additional copies of trnW and trnL1), and 2 control regions (CR). The mitogenome of M. thomsoni has 10 long intergenic sequences (71-237 bp) with a high AT content (70.0%). The two CRs show 59.6% similarity and have an identical sequence region with a length of 295 bp. The mitogenome of M. thomsoni shows a novel gene arrangement compared with the pancrustacean ground pattern and is identical to that of M. sibogae, except for the two additional tRNAs (trnW and trnL1). Phylogenetic tree from maximum likelihood analysis using the concatenated sequences of 13 PCGs depicted M. thomsoni as one of the members of the superfamily Nephropoidea within Astacidea.

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The mitochondrial genomes of Cambaroides similis and Procambarus clarkii (Decapoda: Astacidea: Cambaridae): the phylogenetic implications for Reptantia

Cited by 33 publications

References 57 publications

Evolution and phylogeny of the mud shrimps (Crustacea: Decapoda) revealed from complete mitochondrial genomes

Evolution and phylogeny of the mud shrimps (Crustacea: Decapoda) revealed from complete mitochondrial genomes

The complete mitogenomes of lobsters and crayfish (Crustacea: Decapoda: Astacidea) reveal surprising differences in closely related taxa and convergences to Priapulida

The complete mitochondrial genome of the red-banded lobster Metanephrops thomsoni (Crustacea, Astacidea, Nephropidae): a novel gene order

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