Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16s mitochondrial rRNA gene sequences

Kamarul Rahim Kamarudin, Ridzwan Hashim, Gires Usup

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

This study aimed to determine phylogenetic relationship between and among selected species of sea cucumbers (Echinodermata: Holothuroidea) using 16S mitochondrial ribosomal RNA (rRNA) gene. Phylogenetic analyses of 37 partial sequences of 16S mitochondrial rRNA gene using three main methods namely neighbour joining (NJ), maximum parsimony (MP) and maximum likelihood (ML) showed the presence of five main genera of sea cucumbers: Molpadia from order Molpadiida and four genera of order Aspidochirotida namely Holothuria, Stichopus, Bohadschia and Actinopyga. All of the 17 species obtained from Malaysia distributed among the main genera except within Actinopyga. Interestingly, Holothuria excellens was out of Holothuria group causing Holothuria to be paraphyletic. High bootstrap value and consistent clustering made Molpadia, Stichopus, Bohadschia and Actinopyga monophyletic. The relationship of Actinopyga with the other genera was unclarified and Stichopus was sister to Molpadia. The latter finding caused the resolution at order level unclear. The pairwise genetic distance calculated using Kimura 2-parameter model further supported and verified findings from the phylogenetic trees. Further studies with more samples and different mitochondrial DNA genes need to be done to get a better view and verification on the molecular phylogeny of sea cucumbers.

Original languageEnglish
Pages (from-to)209-218
Number of pages10
JournalSains Malaysiana
Volume39
Issue number2
Publication statusPublished - Apr 2010

Fingerprint

Actinopyga
Holothuria
Stichopus
Holothuroidea
Echinodermata
Bohadschia
ribosomal RNA
nucleotide sequences
phylogeny
Molpadiida
Aspidochirotida
genes
Malaysia
genetic distance
mitochondrial DNA
mitochondrial RNA

Keywords

  • Partial sequences of 16s mitochondrial ribosomal rna gene
  • Phylogenetic relationship
  • Sea cucumbers

ASJC Scopus subject areas

  • General

Cite this

Phylogeny of sea cucumber (Echinodermata : Holothuroidea) as inferred from 16s mitochondrial rRNA gene sequences. / Kamarudin, Kamarul Rahim; Hashim, Ridzwan; Usup, Gires.

In: Sains Malaysiana, Vol. 39, No. 2, 04.2010, p. 209-218.

Research output: Contribution to journalArticle

Kamarudin, Kamarul Rahim ; Hashim, Ridzwan ; Usup, Gires. / Phylogeny of sea cucumber (Echinodermata : Holothuroidea) as inferred from 16s mitochondrial rRNA gene sequences. In: Sains Malaysiana. 2010 ; Vol. 39, No. 2. pp. 209-218.
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