Markers for ornamental traits in Phalaenopsis orchids: Population structure, linkage disequilibrium and association mapping

Research output: Contribution to journalArticleResearchpeer review

Authors

External Research Organisations

  • University of Hohenheim
  • Bock Bio Science GmbH
View graph of relations

Details

Original languageEnglish
Pages (from-to)305-316
Number of pages12
JournalMolecular breeding
Volume30
Issue number1
Publication statusPublished - Jun 2012

Abstract

Although Phalaenopsis orchids are among the most economically important potted plants, little is known about either the genetic diversity among varieties or the genetic complexity of key ornamental traits. Therefore, we analysed the genetic diversity of a broad collection of Phalaenopsis varieties and selected wild species by means of molecular markers. The marker data were used to obtain genetic distances, estimates of the degree of linkage disequilibrium and population structure for the genotypes under study. With a total of 492 markers, the genotypes clustered according to their horticultural classification (for example, old hybrids vs. more recent hybrids) but not according to their origin, indicating extensive exchange of germplasm among breeders. Linkage disequilibrium was found to decrease relatively slowly, most likely due to the small number of generations that have occurred since the first hybrids were generated. Based on the most likely estimates for the population structure (ranging from 10 to 12 subpopulations), associations between ornamental traits like flower size, flower colour, flower type, flower texture, stem length and leaf shape were calculated. These results can now serve as starting points for detailed analyses of the genetic architecture of these traits.

Keywords

    Association mapping, Genetic distance, Linkage disequilibrium, Marker, Phalaenopsis

ASJC Scopus subject areas

Cite this

Markers for ornamental traits in Phalaenopsis orchids: Population structure, linkage disequilibrium and association mapping. / Gawenda, I.; Schröder-Lorenz, A.; Debener, T.
In: Molecular breeding, Vol. 30, No. 1, 06.2012, p. 305-316.

Research output: Contribution to journalArticleResearchpeer review

Download
@article{e2bbba17bbea4436bf073f0bbecc2aef,
title = "Markers for ornamental traits in Phalaenopsis orchids: Population structure, linkage disequilibrium and association mapping",
abstract = "Although Phalaenopsis orchids are among the most economically important potted plants, little is known about either the genetic diversity among varieties or the genetic complexity of key ornamental traits. Therefore, we analysed the genetic diversity of a broad collection of Phalaenopsis varieties and selected wild species by means of molecular markers. The marker data were used to obtain genetic distances, estimates of the degree of linkage disequilibrium and population structure for the genotypes under study. With a total of 492 markers, the genotypes clustered according to their horticultural classification (for example, old hybrids vs. more recent hybrids) but not according to their origin, indicating extensive exchange of germplasm among breeders. Linkage disequilibrium was found to decrease relatively slowly, most likely due to the small number of generations that have occurred since the first hybrids were generated. Based on the most likely estimates for the population structure (ranging from 10 to 12 subpopulations), associations between ornamental traits like flower size, flower colour, flower type, flower texture, stem length and leaf shape were calculated. These results can now serve as starting points for detailed analyses of the genetic architecture of these traits.",
keywords = "Association mapping, Genetic distance, Linkage disequilibrium, Marker, Phalaenopsis",
author = "I. Gawenda and A. Schr{\"o}der-Lorenz and T. Debener",
year = "2012",
month = jun,
doi = "10.1007/s11032-011-9620-8",
language = "English",
volume = "30",
pages = "305--316",
journal = "Molecular breeding",
issn = "1380-3743",
publisher = "Springer Netherlands",
number = "1",

}

Download

TY - JOUR

T1 - Markers for ornamental traits in Phalaenopsis orchids

T2 - Population structure, linkage disequilibrium and association mapping

AU - Gawenda, I.

AU - Schröder-Lorenz, A.

AU - Debener, T.

PY - 2012/6

Y1 - 2012/6

N2 - Although Phalaenopsis orchids are among the most economically important potted plants, little is known about either the genetic diversity among varieties or the genetic complexity of key ornamental traits. Therefore, we analysed the genetic diversity of a broad collection of Phalaenopsis varieties and selected wild species by means of molecular markers. The marker data were used to obtain genetic distances, estimates of the degree of linkage disequilibrium and population structure for the genotypes under study. With a total of 492 markers, the genotypes clustered according to their horticultural classification (for example, old hybrids vs. more recent hybrids) but not according to their origin, indicating extensive exchange of germplasm among breeders. Linkage disequilibrium was found to decrease relatively slowly, most likely due to the small number of generations that have occurred since the first hybrids were generated. Based on the most likely estimates for the population structure (ranging from 10 to 12 subpopulations), associations between ornamental traits like flower size, flower colour, flower type, flower texture, stem length and leaf shape were calculated. These results can now serve as starting points for detailed analyses of the genetic architecture of these traits.

AB - Although Phalaenopsis orchids are among the most economically important potted plants, little is known about either the genetic diversity among varieties or the genetic complexity of key ornamental traits. Therefore, we analysed the genetic diversity of a broad collection of Phalaenopsis varieties and selected wild species by means of molecular markers. The marker data were used to obtain genetic distances, estimates of the degree of linkage disequilibrium and population structure for the genotypes under study. With a total of 492 markers, the genotypes clustered according to their horticultural classification (for example, old hybrids vs. more recent hybrids) but not according to their origin, indicating extensive exchange of germplasm among breeders. Linkage disequilibrium was found to decrease relatively slowly, most likely due to the small number of generations that have occurred since the first hybrids were generated. Based on the most likely estimates for the population structure (ranging from 10 to 12 subpopulations), associations between ornamental traits like flower size, flower colour, flower type, flower texture, stem length and leaf shape were calculated. These results can now serve as starting points for detailed analyses of the genetic architecture of these traits.

KW - Association mapping

KW - Genetic distance

KW - Linkage disequilibrium

KW - Marker

KW - Phalaenopsis

UR - http://www.scopus.com/inward/record.url?scp=84861733536&partnerID=8YFLogxK

U2 - 10.1007/s11032-011-9620-8

DO - 10.1007/s11032-011-9620-8

M3 - Article

AN - SCOPUS:84861733536

VL - 30

SP - 305

EP - 316

JO - Molecular breeding

JF - Molecular breeding

SN - 1380-3743

IS - 1

ER -

By the same author(s)