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

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...

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Main Author:	Kamarudin, Kamarul Rahim
Format:	Article
Language:	English
Published:	SPC Beche-de-mer Information Bulletin 2011
Subjects:	QL Zoology
Online Access:	http://irep.iium.edu.my/12715/ http://irep.iium.edu.my/12715/ http://irep.iium.edu.my/12715/1/2011_BDM31_Jan_2011_Kamarul_SM_2010.pdf

id	iium-12715
recordtype	eprints
spelling	iium-127152012-02-08T01:34:57Z http://irep.iium.edu.my/12715/ Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16S Mitochondrial rRNA gene sequences Kamarudin, Kamarul Rahim QL Zoology 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 un-clarified 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. SPC Beche-de-mer Information Bulletin 2011 Article NonPeerReviewed application/pdf en http://irep.iium.edu.my/12715/1/2011_BDM31_Jan_2011_Kamarul_SM_2010.pdf Kamarudin, Kamarul Rahim (2011) Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16S Mitochondrial rRNA gene sequences. SPC Beche-de-mer Information Bulletin, 31 (Jan). p. 69. ISSN 1025-4943 http://www.spc.int/DigitalLibrary/Doc/FAME/InfoBull/BDM/31/BDM31.pdf
repository_type	Digital Repository
institution_category	Local University
institution	International Islamic University Malaysia
building	IIUM Repository
collection	Online Access
language	English
topic	QL Zoology
spellingShingle	QL Zoology Kamarudin, Kamarul Rahim Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16S Mitochondrial rRNA gene sequences
description	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 un-clarified 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.
format	Article
author	Kamarudin, Kamarul Rahim
author_facet	Kamarudin, Kamarul Rahim
author_sort	Kamarudin, Kamarul Rahim
title	Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16S Mitochondrial rRNA gene sequences
title_short	Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16S Mitochondrial rRNA gene sequences
title_full	Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16S Mitochondrial rRNA gene sequences
title_fullStr	Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16S Mitochondrial rRNA gene sequences
title_full_unstemmed	Phylogeny of sea cucumber (Echinodermata: Holothuroidea) as inferred from 16S Mitochondrial rRNA gene sequences
title_sort	phylogeny of sea cucumber (echinodermata: holothuroidea) as inferred from 16s mitochondrial rrna gene sequences
publisher	SPC Beche-de-mer Information Bulletin
publishDate	2011
url	http://irep.iium.edu.my/12715/ http://irep.iium.edu.my/12715/ http://irep.iium.edu.my/12715/1/2011_BDM31_Jan_2011_Kamarul_SM_2010.pdf
first_indexed	2023-09-18T20:21:52Z
last_indexed	2023-09-18T20:21:52Z
_version_	1777408160661766144

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

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