Methods for linkage disequilibrium mapping in crops

Research output: Contribution to journalReview article

242 Citations (Scopus)

Abstract

Linkage disequilibrium (LD) mapping in plants detects and locates quantitative trait loci (QTL) by the strength of the correlation between a trait and a marker. It offers greater precision in QTL location than family-based linkage analysis and should therefore lead to more efficient marker-assisted selection, facilitate gene discovery and help to meet the challenge of connecting sequence diversity with heritable phenotypic differences. Unlike family-based linkage analysis, LD mapping does not require family or pedigree information and can be applied to a range of experimental and non-experimental populations. However, care must be taken during analysis to control for the increased rate of false positive results arising from population structure and variety interrelationships. In this review, we discuss how suitable the recently developed alternative methods of LD mapping are for crops.

Original languageEnglish
Pages (from-to)57-63
Number of pages7
JournalTrends in Plant Science
Volume12
Issue number2
DOIs
Publication statusPrint publication - Feb 2007
Externally publishedYes

Fingerprint

Chromosome Mapping
Linkage Disequilibrium
Quantitative Trait Loci
Genetic Association Studies
Pedigree
Population

Keywords

  • Chromosome Mapping/methods
  • Crops, Agricultural/genetics
  • Genetic Markers
  • Genome, Plant
  • Haplotypes
  • Linkage Disequilibrium
  • Logistic Models
  • Quantitative Trait Loci/genetics

Cite this

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title = "Methods for linkage disequilibrium mapping in crops",
abstract = "Linkage disequilibrium (LD) mapping in plants detects and locates quantitative trait loci (QTL) by the strength of the correlation between a trait and a marker. It offers greater precision in QTL location than family-based linkage analysis and should therefore lead to more efficient marker-assisted selection, facilitate gene discovery and help to meet the challenge of connecting sequence diversity with heritable phenotypic differences. Unlike family-based linkage analysis, LD mapping does not require family or pedigree information and can be applied to a range of experimental and non-experimental populations. However, care must be taken during analysis to control for the increased rate of false positive results arising from population structure and variety interrelationships. In this review, we discuss how suitable the recently developed alternative methods of LD mapping are for crops.",
keywords = "Chromosome Mapping/methods, Crops, Agricultural/genetics, Genetic Markers, Genome, Plant, Haplotypes, Linkage Disequilibrium, Logistic Models, Quantitative Trait Loci/genetics",
author = "Ian Mackay and Wayne Powell",
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Methods for linkage disequilibrium mapping in crops. / Mackay, Ian; Powell, Wayne.

In: Trends in Plant Science, Vol. 12, No. 2, 02.2007, p. 57-63.

Research output: Contribution to journalReview article

TY - JOUR

T1 - Methods for linkage disequilibrium mapping in crops

AU - Mackay, Ian

AU - Powell, Wayne

PY - 2007/2

Y1 - 2007/2

N2 - Linkage disequilibrium (LD) mapping in plants detects and locates quantitative trait loci (QTL) by the strength of the correlation between a trait and a marker. It offers greater precision in QTL location than family-based linkage analysis and should therefore lead to more efficient marker-assisted selection, facilitate gene discovery and help to meet the challenge of connecting sequence diversity with heritable phenotypic differences. Unlike family-based linkage analysis, LD mapping does not require family or pedigree information and can be applied to a range of experimental and non-experimental populations. However, care must be taken during analysis to control for the increased rate of false positive results arising from population structure and variety interrelationships. In this review, we discuss how suitable the recently developed alternative methods of LD mapping are for crops.

AB - Linkage disequilibrium (LD) mapping in plants detects and locates quantitative trait loci (QTL) by the strength of the correlation between a trait and a marker. It offers greater precision in QTL location than family-based linkage analysis and should therefore lead to more efficient marker-assisted selection, facilitate gene discovery and help to meet the challenge of connecting sequence diversity with heritable phenotypic differences. Unlike family-based linkage analysis, LD mapping does not require family or pedigree information and can be applied to a range of experimental and non-experimental populations. However, care must be taken during analysis to control for the increased rate of false positive results arising from population structure and variety interrelationships. In this review, we discuss how suitable the recently developed alternative methods of LD mapping are for crops.

KW - Chromosome Mapping/methods

KW - Crops, Agricultural/genetics

KW - Genetic Markers

KW - Genome, Plant

KW - Haplotypes

KW - Linkage Disequilibrium

KW - Logistic Models

KW - Quantitative Trait Loci/genetics

U2 - 10.1016/j.tplants.2006.12.001

DO - 10.1016/j.tplants.2006.12.001

M3 - Review article

C2 - 17224302

VL - 12

SP - 57

EP - 63

JO - Trends in Plant Science

JF - Trends in Plant Science

SN - 1360-1385

IS - 2

ER -