Record Details

Comparative LD mapping using single SNPs and haplotypes identifies QTL for plant height and biomass as secondary traits of drought tolerance in maize

OAR@ICRISAT

View Archive Info
 
 
Field Value
 
Relation http://oar.icrisat.org/5514/
http://dx.doi.org/10.1007/s11032-011-9631-5
 
Title Comparative LD mapping using single SNPs and haplotypes identifies QTL for plant height and biomass as secondary traits of drought tolerance in maize
 
Creator Lu, Y
et al, .
 
Subject Maize
 
Description Drought often delays developmental
events so that plant height and above-ground biomass
are reduced, resulting in yield loss due to inadequate
photosynthate. In this study, plant height and biomass
measured by the Normalized Difference Vegetation
Index (NDVI) were used as criteria for drought
tolerance. A total of 305 lines representing temperate,
tropical and subtropical maize germplasm were genotyped
using two single nucleotide polymorphism
(SNP) chips each containing 1536 markers, from
which 2052 informative SNPs and 386 haplotypes
each constructed with two or more SNPs were used for
linkage disequilibrium (LD) or association mapping.
Single SNP- and haplotype-based LD mapping identified
two significant SNPs and three haplotype loci [a
total of four quantitative trait loci (QTL)] for plantheight under well-watered and water-stressed conditions.
For biomass, 32 SNPs and 12 haplotype loci (30
QTL) were identified using NDVIs measured at seven
stages under the two water regimes. Some significant
SNP and haplotype loci for NDVI were shared by
different stages. Comparing significant loci identified
by single SNP- and haplotype-based LD mapping, we
found that six out of the 14 chromosomal regions
defined by haplotype loci each included at least one
significant SNP for the same trait. Significant SNP
haplotype loci explained much higher phenotypic
variation than individual SNPs. Moreover, we found
that two significant SNPs (two QTL) and one haplotype
locus were shared by plant height and NDVI. The
results indicate the power of comparative LD mapping
using single SNPs and SNP haplotypes with QTL
shared by plant height and biomass as secondary traits for drought tolerance in maize.
 
Publisher Springer Netherlands
 
Date 2012
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights —
 
Identifier http://oar.icrisat.org/5514/1/Molecular_Breeding_Comparative_online.pdf
Lu, Y and et al, . (2012) Comparative LD mapping using single SNPs and haplotypes identifies QTL for plant height and biomass as secondary traits of drought tolerance in maize. Molecular Breeding, 30 (1). pp. 407-418. ISSN 1572-9788