Microsatellite markers for Corybas (Orchidaceae) species in New Zealand

Megan L. Van Etten, Carlos A. Lehnebach, Sofie M. Pearson, Alastair W. Robertson, Jennifer A. Tate

Research output: Contribution to journalArticle

Abstract

Premise of the Study: Microsatellite markers were developed for New Zealand species of Corybas (Orchidaceae) to investigate population genetics and species delimitation. Methods and Results: From sequencing a total genomic DNA library (using Illumina MiSeq), we developed 22 microsatellite markers for C. obscurus. The di- and trinucleotide repeat loci were initially trialed on individuals representing seven Corybas taxa (C. “rimutaka,” C. confusus, C. hypogaeus, C. macranthus, C. obscurus, C. trilobus, and C. walliae) and had one to eight alleles per locus. Twelve polymorphic markers were further tested on six Corybas populations from three of the seven taxa (C. obscurus, C. “rimutaka,” and C. trilobus). Observed and expected heterozygosities ranged from 0–1 and 0–0.859, respectively. The utility of these 12 loci was further validated in five related Corybas species (C. hypogaeus, C. obscurus, C. vitreus, C. walliae, and C. “rimutaka”; 38 individuals) representing populations from across the North and South Islands. The average value for genetic diversity among populations (FST) of 0.439 shows differentiation among species. Conclusions: These markers will be useful for future studies aimed at delimiting species boundaries and examining the genetic diversity of the New Zealand Corybas species.

Original languageEnglish (US)
Article numbere01192
JournalApplications in Plant Sciences
Volume6
Issue number11
DOIs
StatePublished - Nov 2018

Fingerprint

Orchidaceae
microsatellite repeats
loci
genetic variation
DNA libraries
population genetics
heterozygosity
alleles
genomics
allele
marker
new species
DNA
methodology
genetic diversity

All Science Journal Classification (ASJC) codes

  • Ecology, Evolution, Behavior and Systematics
  • Plant Science

Cite this

Van Etten, Megan L. ; Lehnebach, Carlos A. ; Pearson, Sofie M. ; Robertson, Alastair W. ; Tate, Jennifer A. / Microsatellite markers for Corybas (Orchidaceae) species in New Zealand. In: Applications in Plant Sciences. 2018 ; Vol. 6, No. 11.
@article{1cb61b6985c848eebcdea622877ff118,
title = "Microsatellite markers for Corybas (Orchidaceae) species in New Zealand",
abstract = "Premise of the Study: Microsatellite markers were developed for New Zealand species of Corybas (Orchidaceae) to investigate population genetics and species delimitation. Methods and Results: From sequencing a total genomic DNA library (using Illumina MiSeq), we developed 22 microsatellite markers for C. obscurus. The di- and trinucleotide repeat loci were initially trialed on individuals representing seven Corybas taxa (C. “rimutaka,” C. confusus, C. hypogaeus, C. macranthus, C. obscurus, C. trilobus, and C. walliae) and had one to eight alleles per locus. Twelve polymorphic markers were further tested on six Corybas populations from three of the seven taxa (C. obscurus, C. “rimutaka,” and C. trilobus). Observed and expected heterozygosities ranged from 0–1 and 0–0.859, respectively. The utility of these 12 loci was further validated in five related Corybas species (C. hypogaeus, C. obscurus, C. vitreus, C. walliae, and C. “rimutaka”; 38 individuals) representing populations from across the North and South Islands. The average value for genetic diversity among populations (FST) of 0.439 shows differentiation among species. Conclusions: These markers will be useful for future studies aimed at delimiting species boundaries and examining the genetic diversity of the New Zealand Corybas species.",
author = "{Van Etten}, {Megan L.} and Lehnebach, {Carlos A.} and Pearson, {Sofie M.} and Robertson, {Alastair W.} and Tate, {Jennifer A.}",
year = "2018",
month = "11",
doi = "10.1002/aps3.1192",
language = "English (US)",
volume = "6",
journal = "Applications in Plant Sciences",
issn = "2168-0450",
publisher = "Botanical Society of America Inc.",
number = "11",

}

Microsatellite markers for Corybas (Orchidaceae) species in New Zealand. / Van Etten, Megan L.; Lehnebach, Carlos A.; Pearson, Sofie M.; Robertson, Alastair W.; Tate, Jennifer A.

In: Applications in Plant Sciences, Vol. 6, No. 11, e01192, 11.2018.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Microsatellite markers for Corybas (Orchidaceae) species in New Zealand

AU - Van Etten, Megan L.

AU - Lehnebach, Carlos A.

AU - Pearson, Sofie M.

AU - Robertson, Alastair W.

AU - Tate, Jennifer A.

PY - 2018/11

Y1 - 2018/11

N2 - Premise of the Study: Microsatellite markers were developed for New Zealand species of Corybas (Orchidaceae) to investigate population genetics and species delimitation. Methods and Results: From sequencing a total genomic DNA library (using Illumina MiSeq), we developed 22 microsatellite markers for C. obscurus. The di- and trinucleotide repeat loci were initially trialed on individuals representing seven Corybas taxa (C. “rimutaka,” C. confusus, C. hypogaeus, C. macranthus, C. obscurus, C. trilobus, and C. walliae) and had one to eight alleles per locus. Twelve polymorphic markers were further tested on six Corybas populations from three of the seven taxa (C. obscurus, C. “rimutaka,” and C. trilobus). Observed and expected heterozygosities ranged from 0–1 and 0–0.859, respectively. The utility of these 12 loci was further validated in five related Corybas species (C. hypogaeus, C. obscurus, C. vitreus, C. walliae, and C. “rimutaka”; 38 individuals) representing populations from across the North and South Islands. The average value for genetic diversity among populations (FST) of 0.439 shows differentiation among species. Conclusions: These markers will be useful for future studies aimed at delimiting species boundaries and examining the genetic diversity of the New Zealand Corybas species.

AB - Premise of the Study: Microsatellite markers were developed for New Zealand species of Corybas (Orchidaceae) to investigate population genetics and species delimitation. Methods and Results: From sequencing a total genomic DNA library (using Illumina MiSeq), we developed 22 microsatellite markers for C. obscurus. The di- and trinucleotide repeat loci were initially trialed on individuals representing seven Corybas taxa (C. “rimutaka,” C. confusus, C. hypogaeus, C. macranthus, C. obscurus, C. trilobus, and C. walliae) and had one to eight alleles per locus. Twelve polymorphic markers were further tested on six Corybas populations from three of the seven taxa (C. obscurus, C. “rimutaka,” and C. trilobus). Observed and expected heterozygosities ranged from 0–1 and 0–0.859, respectively. The utility of these 12 loci was further validated in five related Corybas species (C. hypogaeus, C. obscurus, C. vitreus, C. walliae, and C. “rimutaka”; 38 individuals) representing populations from across the North and South Islands. The average value for genetic diversity among populations (FST) of 0.439 shows differentiation among species. Conclusions: These markers will be useful for future studies aimed at delimiting species boundaries and examining the genetic diversity of the New Zealand Corybas species.

UR - http://www.scopus.com/inward/record.url?scp=85056351537&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85056351537&partnerID=8YFLogxK

U2 - 10.1002/aps3.1192

DO - 10.1002/aps3.1192

M3 - Article

C2 - 30473938

AN - SCOPUS:85056351537

VL - 6

JO - Applications in Plant Sciences

JF - Applications in Plant Sciences

SN - 2168-0450

IS - 11

M1 - e01192

ER -