Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes

ITraditionally, taxonomic status of Murinae was based on morphological characteristics. The classification was always outdated due to the variation of morphological traits caused by rapid adaptation towards ecological habitats and high rate of evolution in Murinae. The variation of external featu...

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Main Author:	Nur Aida, Md Tamrin
Format:	Thesis
Language:	English
Published:	2011
Subjects:	QL Zoology
Online Access:	http://ir.unimas.my/id/eprint/14951/1/Nur%20Aida%20Md%20Tamrin%20ft.pdf
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spelling	my-unimas-ir.149512023-05-26T08:01:40Z Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes 2011 Nur Aida, Md Tamrin QL Zoology ITraditionally, taxonomic status of Murinae was based on morphological characteristics. The classification was always outdated due to the variation of morphological traits caused by rapid adaptation towards ecological habitats and high rate of evolution in Murinae. The variation of external features sometimes does not indicate the species to be in distinct taxa, at least not in Genetic Species Concept. As closely related species in the subfamily Murinae are morphologically similar to each other, the taxonomic status of Murinae is poorly resolved up until recent. Many studies have been done using genetic data, morphology, immunology, albumin and karyotypic analyses but the information of Murinae in Malaysia is still lacking)Phylogenetic relationship of Murinae were reviewed in this study inferred by mitochondrial gene (mtDNA) of cytochrome oxidase I (COI) and cytochrome b (cyt b) as well as one nuclear gene (nucDNA) of recombination activating gene (RAG2). The evolutionary, interspecific and intraspecific relationship between selected species in the Murinae and their divergence time were investigated during this study. The phylogenetic trees were reconstructed using four methods for each gene, namely, neighbour joining (NJ), maximum parsimony (MP), maximum-likelihood (ML) and Bayesian methods. From this study, six monophyletic lineages were observed, namely, Rattus, Beiylmys, Maxomys, Sundamys, Leopoldamys and Niviventer. The interrelationship of Murinae was incongruent between the genes analyses and some of the species were unresolved in the groupings. This study also found that there were cryptic species within M. whiteheadi and M. ochraceiventer population with external morphology similar to M. whiteheadi but separated with high genetic divergence whilst closely related by genetic distance to M ochraceiventer. Genetically, two types (Type A and Type B) of M rajah, R. rattus and S. muelleri were also found in this study by observing the phylogenetic trees. NJ and Bayesian methods gave the most resolved topologies. MP and ML methods might give better resolution if more data were added. Cyt b was observed to be the best gene to study the evolution of Murinae. Universiti Malaysia Sarawak, (UNIMAS) 2011 Thesis http://ir.unimas.my/id/eprint/14951/ http://ir.unimas.my/id/eprint/14951/1/Nur%20Aida%20Md%20Tamrin%20ft.pdf text en validuser masters Universiti Malaysia Sarawak Faculty of Resource Science and Technology
institution	Universiti Malaysia Sarawak
collection	UNIMAS Institutional Repository
language	English
topic	QL Zoology
spellingShingle	QL Zoology Nur Aida, Md Tamrin Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes
description	ITraditionally, taxonomic status of Murinae was based on morphological characteristics. The classification was always outdated due to the variation of morphological traits caused by rapid adaptation towards ecological habitats and high rate of evolution in Murinae. The variation of external features sometimes does not indicate the species to be in distinct taxa, at least not in Genetic Species Concept. As closely related species in the subfamily Murinae are morphologically similar to each other, the taxonomic status of Murinae is poorly resolved up until recent. Many studies have been done using genetic data, morphology, immunology, albumin and karyotypic analyses but the information of Murinae in Malaysia is still lacking)Phylogenetic relationship of Murinae were reviewed in this study inferred by mitochondrial gene (mtDNA) of cytochrome oxidase I (COI) and cytochrome b (cyt b) as well as one nuclear gene (nucDNA) of recombination activating gene (RAG2). The evolutionary, interspecific and intraspecific relationship between selected species in the Murinae and their divergence time were investigated during this study. The phylogenetic trees were reconstructed using four methods for each gene, namely, neighbour joining (NJ), maximum parsimony (MP), maximum-likelihood (ML) and Bayesian methods. From this study, six monophyletic lineages were observed, namely, Rattus, Beiylmys, Maxomys, Sundamys, Leopoldamys and Niviventer. The interrelationship of Murinae was incongruent between the genes analyses and some of the species were unresolved in the groupings. This study also found that there were cryptic species within M. whiteheadi and M. ochraceiventer population with external morphology similar to M. whiteheadi but separated with high genetic divergence whilst closely related by genetic distance to M ochraceiventer. Genetically, two types (Type A and Type B) of M rajah, R. rattus and S. muelleri were also found in this study by observing the phylogenetic trees. NJ and Bayesian methods gave the most resolved topologies. MP and ML methods might give better resolution if more data were added. Cyt b was observed to be the best gene to study the evolution of Murinae.
format	Thesis
qualification_level	Master's degree
author	Nur Aida, Md Tamrin
author_facet	Nur Aida, Md Tamrin
author_sort	Nur Aida, Md Tamrin
title	Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes
title_short	Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes
title_full	Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes
title_fullStr	Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes
title_full_unstemmed	Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes
title_sort	phylogenetics of subfamily murin ea (rodentia : muridae) in malaysia inferred from mitochondrial and nuclear genes
granting_institution	Universiti Malaysia Sarawak
granting_department	Faculty of Resource Science and Technology
publishDate	2011
url	http://ir.unimas.my/id/eprint/14951/1/Nur%20Aida%20Md%20Tamrin%20ft.pdf
_version_	1783728173060456448

Phylogenetics of subfamily murin Ea (Rodentia : Muridae) In Malaysia inferred from mitochondrial and nuclear genes

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