A fluorescence-based quantitative real-time PCR assay for accurate Pocillopora damicornis species identification

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2 Citations (Scopus)

Abstract

© 2016, Springer-Verlag Berlin Heidelberg.Pocillopora damicornis is one of the most extensively studied coral species globally, but high levels of phenotypic plasticity within the genus make species identification based on morphology alone unreliable. As a result, there is a compelling need to develop cheap and time-effective molecular techniques capable of accurately distinguishing P. damicornis from other congeneric species. Here, we develop a fluorescence-based quantitative real-time PCR (qPCR) assay to genotype a single nucleotide polymorphism that accurately distinguishes P. damicornis from other morphologically similar Pocillopora species. We trial the assay across colonies representing multiple Pocillopora species and then apply the assay to screen samples of Pocillopora spp. collected at regional scales along the coastline of Western Australia. This assay offers a cheap and time-effective alternative to Sanger sequencing and has broad applications including studies on gene flow, dispersal, recruitment and physiological thresholds of P. damicornis.
Original languageEnglish
Pages (from-to)895-899
JournalCoral Reefs
Volume35
Issue number3
DOIs
Publication statusPublished - 2016

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quantitative polymerase chain reaction
fluorescence
assay
assays
phenotypic plasticity
study application
Western Australia
single nucleotide polymorphism
corals
gene flow
coral
polymorphism
coasts
genotype
species identification
coast
sampling
methodology

Cite this

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title = "A fluorescence-based quantitative real-time PCR assay for accurate Pocillopora damicornis species identification",
abstract = "{\circledC} 2016, Springer-Verlag Berlin Heidelberg.Pocillopora damicornis is one of the most extensively studied coral species globally, but high levels of phenotypic plasticity within the genus make species identification based on morphology alone unreliable. As a result, there is a compelling need to develop cheap and time-effective molecular techniques capable of accurately distinguishing P. damicornis from other congeneric species. Here, we develop a fluorescence-based quantitative real-time PCR (qPCR) assay to genotype a single nucleotide polymorphism that accurately distinguishes P. damicornis from other morphologically similar Pocillopora species. We trial the assay across colonies representing multiple Pocillopora species and then apply the assay to screen samples of Pocillopora spp. collected at regional scales along the coastline of Western Australia. This assay offers a cheap and time-effective alternative to Sanger sequencing and has broad applications including studies on gene flow, dispersal, recruitment and physiological thresholds of P. damicornis.",
author = "Luke Thomas and M. Stat and Richard Evans and Jason Kennington",
year = "2016",
doi = "10.1007/s00338-016-1430-3",
language = "English",
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publisher = "Springer-Verlag London Ltd.",
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}

TY - JOUR

T1 - A fluorescence-based quantitative real-time PCR assay for accurate Pocillopora damicornis species identification

AU - Thomas, Luke

AU - Stat, M.

AU - Evans, Richard

AU - Kennington, Jason

PY - 2016

Y1 - 2016

N2 - © 2016, Springer-Verlag Berlin Heidelberg.Pocillopora damicornis is one of the most extensively studied coral species globally, but high levels of phenotypic plasticity within the genus make species identification based on morphology alone unreliable. As a result, there is a compelling need to develop cheap and time-effective molecular techniques capable of accurately distinguishing P. damicornis from other congeneric species. Here, we develop a fluorescence-based quantitative real-time PCR (qPCR) assay to genotype a single nucleotide polymorphism that accurately distinguishes P. damicornis from other morphologically similar Pocillopora species. We trial the assay across colonies representing multiple Pocillopora species and then apply the assay to screen samples of Pocillopora spp. collected at regional scales along the coastline of Western Australia. This assay offers a cheap and time-effective alternative to Sanger sequencing and has broad applications including studies on gene flow, dispersal, recruitment and physiological thresholds of P. damicornis.

AB - © 2016, Springer-Verlag Berlin Heidelberg.Pocillopora damicornis is one of the most extensively studied coral species globally, but high levels of phenotypic plasticity within the genus make species identification based on morphology alone unreliable. As a result, there is a compelling need to develop cheap and time-effective molecular techniques capable of accurately distinguishing P. damicornis from other congeneric species. Here, we develop a fluorescence-based quantitative real-time PCR (qPCR) assay to genotype a single nucleotide polymorphism that accurately distinguishes P. damicornis from other morphologically similar Pocillopora species. We trial the assay across colonies representing multiple Pocillopora species and then apply the assay to screen samples of Pocillopora spp. collected at regional scales along the coastline of Western Australia. This assay offers a cheap and time-effective alternative to Sanger sequencing and has broad applications including studies on gene flow, dispersal, recruitment and physiological thresholds of P. damicornis.

U2 - 10.1007/s00338-016-1430-3

DO - 10.1007/s00338-016-1430-3

M3 - Article

VL - 35

SP - 895

EP - 899

JO - Coral Reefs

JF - Coral Reefs

SN - 0722-4028

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ER -