Genetic diversity of Porang Populations (Amorphophallus Muelleri Blume) in Central Java and West Java based on LEAFY second intron marker

Arofatun Nikmah, Isna and Azrianingsih, Rodiyati and Wahyudi, Didik (2016) Genetic diversity of Porang Populations (Amorphophallus Muelleri Blume) in Central Java and West Java based on LEAFY second intron marker. THE JOURNAL OF TROPICAL LIFE SCIENCE, 6 (1). pp. 23-27.

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Abstract

Porang (Amorphophallus muelleri Blume) is dispersed and grew well in Java island. This research aimed to determine the genetic diversity of porang populations in Central Java and West Java based on LEAFY second intron (nuclear genome encoding flower development). DNA samples of porang were from previous study, which were obtained from Central Java (Pamedaran, Grobogan, Wonogiri, Karangtengah) and West Java (Cisompet) as in-group. Amorphophallus variabilis from Pamedaran Brebes, Amorphophallus ochroleucus, Amorphophallus longituberosus, Amorphophallus sumawongii, and Amorphophallus tinekeae from GenBank were treated as out-group. LEAFY second intron was amplifed using primers FLint2 F1 5’-CTTCCACCTCTACGACCAGTG-3’ and FLint2 R1 5’-TCTTGGGCTTGTTGATGTAGC-3’. Analysis using dnasp5 showed that 23 samples had 89 invariable sites and 139 variable sites that consisted of 12 singletons two variants sites, 118 parsimony-informative two variants sites, and 9 Parsimony-informative three variants sites. The total of haplotype were seven haplotypes where 16 in-group samples clumped on haplotype 1 whereas two samples of Grobogan (Grobogan I and Grobogan III) clumped on haplotype 2, and out-group samples occupied at their own haplotype. The genetic distance of all in-group samples was 0-0,004 showing no differences among individuals. Analysis of phylogenetic tree using Maximum Parsimony, Neighbor Joining and Maximum Likelihood resulting a polytomy branch of in-group samples except Grobogan, which forms a separated sub-clade.

Item Type: Journal Article
Keywords: genetic diversity; haplotype; Java; LEAFY; Porang
Subjects: 06 BIOLOGICAL SCIENCES > 0603 Evolutionary Biology > 060301 Animal Systematics and Taxonomy
Depositing User: Didik Wahyudi
Date Deposited: 17 Dec 2019 10:53

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