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DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2

Weeds are invading agricultural farms causing impacts to both industry and consumers, not only in terms of economic loss through crops reduction and increase of labour costs in elimination of weeds but also in their invasive characteristic which destroy the native biodiversity in the farm. DNA Barco...

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Main Author: Yu, Hai Ping
Format: Thesis
Language:English
Published: 2018
Subjects:
TP Chemical technology
Online Access:http://eprints.intimal.edu.my/1171/1/BBTEI%20181.pdf
http://eprints.intimal.edu.my/1171/
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spelling my-inti-eprints.11712018-10-16T08:13:44Z http://eprints.intimal.edu.my/1171/ DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2 Yu, Hai Ping TP Chemical technology Weeds are invading agricultural farms causing impacts to both industry and consumers, not only in terms of economic loss through crops reduction and increase of labour costs in elimination of weeds but also in their invasive characteristic which destroy the native biodiversity in the farm. DNA Barcoding is a fast and accurate species identification system which utilizes standardize short DNA sequence as an universal barcode known as marker. Earlier stage of invasive weeds identification can be done with the ease by DNA Barcoding and thus serve to inform weed management for effective solution. DNA barcoding while being a widely used method, has had problems in its use such as lack of consensus on gene loci. In this study, Portulaca oleracea (both ornamental and wildtype) and Portulaca grandiflora were sampled for DNA Barcoding with the use of matK and ITS2 loci respectively whereby the efficiency of the gene loci were evaluated based on assessments of sequence quality, and levels of species discrimination. DNA of all three replicates of each of the Portulaca species were successfully extracted in triplicates using the Edwards method. Both matK and ITS2 were successfully amplified and sequenced followed by NCBI BLAST. The BLAST results showed identification to species level while the unexpected hit of ornamental P. oleracea (ITS2 amplicon) to P. umbraticola revealed the limitation of DNA barcoding which is incomplete reference sequence from public database. The phylogeny tree implies capability of both matK and ITS2 in discriminating Portulaca species as unique clades are formed for each taxon 2018-05-01 Thesis NonPeerReviewed text en http://eprints.intimal.edu.my/1171/1/BBTEI%20181.pdf Yu, Hai Ping (2018) DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2. Other thesis, INTI INTERNATIONAL UNIVERSITY.
institution INTI International University
building INTI Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider INTI International University
content_source INTI Institutional Repository
url_provider http://eprints.intimal.edu.my
language English
topic TP Chemical technology
spellingShingle TP Chemical technology
Yu, Hai Ping
DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2
description Weeds are invading agricultural farms causing impacts to both industry and consumers, not only in terms of economic loss through crops reduction and increase of labour costs in elimination of weeds but also in their invasive characteristic which destroy the native biodiversity in the farm. DNA Barcoding is a fast and accurate species identification system which utilizes standardize short DNA sequence as an universal barcode known as marker. Earlier stage of invasive weeds identification can be done with the ease by DNA Barcoding and thus serve to inform weed management for effective solution. DNA barcoding while being a widely used method, has had problems in its use such as lack of consensus on gene loci. In this study, Portulaca oleracea (both ornamental and wildtype) and Portulaca grandiflora were sampled for DNA Barcoding with the use of matK and ITS2 loci respectively whereby the efficiency of the gene loci were evaluated based on assessments of sequence quality, and levels of species discrimination. DNA of all three replicates of each of the Portulaca species were successfully extracted in triplicates using the Edwards method. Both matK and ITS2 were successfully amplified and sequenced followed by NCBI BLAST. The BLAST results showed identification to species level while the unexpected hit of ornamental P. oleracea (ITS2 amplicon) to P. umbraticola revealed the limitation of DNA barcoding which is incomplete reference sequence from public database. The phylogeny tree implies capability of both matK and ITS2 in discriminating Portulaca species as unique clades are formed for each taxon
format Thesis
author Yu, Hai Ping
author_facet Yu, Hai Ping
author_sort Yu, Hai Ping
title DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2
title_short DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2
title_full DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2
title_fullStr DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2
title_full_unstemmed DNA BARCODING ANGIOSPERMS: IDENTIFYING PORTULACA SPECIES USING MATK AND ITS2
title_sort dna barcoding angiosperms: identifying portulaca species using matk and its2
publishDate 2018
url http://eprints.intimal.edu.my/1171/1/BBTEI%20181.pdf
http://eprints.intimal.edu.my/1171/
_version_ 1644541409659715584
score 13.211869

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