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genetic mapping

26197 relationships annotated with this phrase. Showing first 500 of 26197.
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genome-wide association study (GWAS) was conducted to map genetic variants associated with virulence to Pm1a Blumeria graminis
causal locus was narrowed down to 348-kb region between markers S21 and S52 Zea mays
HORVU5Hr1G089230 is candidate for CER-ZA Hordeum vulgare
HORVU4Hr1G063420 was previously identified as gene underlying the cer-zh.54 mutation Hordeum vulgare
regulator BSA identified QTL for flower color at beginning of Scaffold 16 Amaranthus hypochondriacus
F2 population was genotyped using GBS (genotyping-by-sequencing) Capsicum annuum
QTL analysis of F2 population revealed 57 QTLs controlling flavonoid content Capsicum annuum
two BSAs from different initial crosses were conducted to study genetic basis of tissue color and its regulation Amaranthus hypochondriacus
genome-wide association study (GWAS) analyzed 216 (BGT, GCN5, HAC3, HAG01, HAG1, HAT1, AT3G54610) isolates from six countries Blumeria graminis f. sp. tritici
QTL-seq is BSA-seq
Mu insertion co-segregates with dek58 phenotype Zea mays
crumpled kernel mutant (crk2) was introgressed into inbred line ZI819 background Zea mays
genome-wide association study (GWAS) was conducted in 216 (BGT, GCN5, HAC3, HAG01, HAG1, HAT1, AT3G54610) isolates from six countries Blumeria graminis
lincRNA identified as potentially related to a trait was identified if SNP was found either within lincRNA locus Glycine max
PCR-amplified genomic DNA was sequenced to identify the mutation Arabidopsis thaliana
af has only two recombination events between PsCam023334_13180_1532 Pisum sativum
NILs (F6) were constructed to differ at QTL marker alleles Capsicum annuum
af has ten recombination events between PsCam000001_1_322 Pisum sativum
variation in C4 traits within a single species is not known to be sufficient for breeding and molecular trait mapping
interaction between lincRNA and neighboring protein-coding gene is also possible in contributing to trait Glycine max
18X-551 S2 family linkage map includes 423 individuals and 1019 markers across 23 linkage groups Salix purpurea
genetic markers are DNA sequences with known chromosomal positions
af is genetically closer to PsCam023334_13180_1532 Pisum sativum
debino1 mutation is mapped to upper arm of Chromosome 6 Medicago truncatula
parallel approach identified close linkage between af and PsCam002050 Pisum sativum
simple sequence repeat (SSR) is also known as microsatellites
genome-wide association study (GWAS) led to the discovery of second locus that also conditions (BGT, GCN5, HAC3, HAG01, HAG1, HAT1, AT3G54610) virulence to wheat resistance gene Pm1a Blumeria graminis; Triticum aestivum
Genotyping the recombinant lines from (GABA-T, HER1, POP2, AT3G22200) (POP4, AT2G43190) (AtPOP5, EMB1687, POP5, AT1G04635) and BxP at the af locus confirmed the co-segregation of PsPALM1a, PsPALM1b and PsNAOD1 with Af Pisum sativum
handful of SNPs remain significantly associated with circularity, oPC1, iPC3, and iPC2 Vitis spp.
~70-kb region between F26G16-a and T5I8-d markers contains 20 annotated genes Arabidopsis thaliana
comparison of allele frequencies between bulks identified large QTL on Scaffold 16 Amaranthus hypochondriacus
GWAS of low water potential-induced Pro accumulation coupled with phenotyping of transfer DNA (T-DNA) insertion mutants and overexpression lines was conducted to evaluate heuristic methods for scoring and prioritizing candidate genes for subsequent validation Arabidopsis thaliana
several loci typically found in vicinity of trait associated SNP makes it usually not immediately obvious which one may contribute to trait Glycine max
data from Castelporziano and Rht18 analysis support hypothesis that Rht14 and Rht18 are allelic
P23F12 mutation maps to chromosome 9 Solanum lycopersicum
(AtSAMS3, MAT4, MTO3, SAMS3, AT3G17390) locus was narrowed to a region between bacterial artificial chromosome clones K14A17 and (ATMAPK6, ATMPK6, MAPK6, MPK6, AT2G43790) on chromosome 3 Arabidopsis thaliana
genome-wide association (GWAS) localizes associations to much smaller genomic regions Arabidopsis thaliana
Ceratadon purpureus is the subject of genetic mapping project Ceratadon purpureus
high heritability of our traits suggests that further development of genotyping resources and sufficiently powered GWAS studies may resolve loci regulating leaf shape Vitis spp.
mean genic and genic plus promoter P values effective in finding promising candidate genes Arabidopsis thaliana
GWAS analysis of tissue cadmium content found single strong genome-wide association (GWAS) peak
(AtSAMS3, MAT4, MTO3, SAMS3, AT3G17390) mutant was crossed with wild-type L er Arabidopsis thaliana
F1 plants from the cross were self-fertilized to produce F2 seeds Arabidopsis thaliana
neutral mutant is crossed with spontaneous mutant Oryza sativa
F2 populations derived from 3t mutant and neutral mutant EMS-ZH11 shared almost the same genetic background as ZH11 Oryza sativa
20 linkage groups correspond to 20 chromosomes Glycine max
1189 SNPs with unique linkage map positions versus 16650 total SNPs mapped Pennisetum glaucum
analyses of genotypic data from numerous RIL populations showed that all polymorphic SNPs were clustered into 20 linkage groups Glycine max
six of the lincRNAs overlapped trait-associated SNPs Glycine max
GWA analysis identified 2,382 genes associated with lesion size Arabidopsis thaliana
genome-wide association study (GWAS) was performed for our traits Vitis spp.
quantitative trait locus (QTL) mapping and genome-wide association (GWAS) cannot by themselves prove causality
thioredoxin genes contained in regions 15 and 47 Arabidopsis thaliana
(ACC2, AT1G36180) and suppressor show perfect linkage genetic distance less than 1 centimorgan Arabidopsis thaliana
110 plants of interest were genotyped using PCR primers for (EMB3137, uS13c, AT5G14320) (ATOEP80, EMB213, OEP80, TOC75-V, AT5G19620) and (ATTOC34, OEP34, TOC34, AT5G05000) Arabidopsis thaliana
straightforward methods of sorting and ranking SNP data can increase the information that can be extracted from GWAS
nonsignificant single-nucleotide polymorphisms in gene body or promoter penalize mean genic and genic plus promoter P values mean genic and genic plus promoter P values Arabidopsis thaliana
distribution of genome-wide association (GWAS) signal among many genomic regions would seem to differ from GWAS results for secondary metabolites and amino acids
genome-wide association (GWAS) generally combines phenotype and single-nucleotide polymorphism (SNP) data from 100 or more accessions Arabidopsis thaliana
strong phenotype-SNP associations have been found for candidate genes identified a priori from molecular genetic studies Arabidopsis thaliana
chy1-10 mutant was crossed with wild-type plants of the L er ecotype Arabidopsis thaliana
33 simple sequence repeat (SSR) markers narrowed male sterility gene to candidate region between NAU3442 and CGR6339 Gossypium hirsutum
segregation analysis allowed mapping of genes Oryza sativa
23 lincRNA candidates have been identified as potentially trait-related Glycine max
QTL studies typically use two or at most several parental accessions Arabidopsis thaliana
GWA analysis identified 4,110 genes associated with lesion greenness Arabidopsis thaliana
association signal around true causal polymorphisms could vary in strength and genomic pattern for a large number of reasons including effect size, mutation age, recombination pattern, and linkage disequilibrium
interaction between genes can influence strength of association detected in genome-wide association (GWAS)
GWA analysis identified 1,933 genes associated with lesion eccentricity Arabidopsis thaliana
genomic DNA corresponding to candidate genes was PCR-amplified from mutant and wild-type plants Arabidopsis thaliana
genome-wide association (GWAS) identifies loci with allele frequency correlations to phenotypic variation or environment Arabidopsis thaliana
The absence of segregation for incompatibility confirmed that sulki1 mutants are allelic to Cas9-r8 Arabidopsis thaliana
GWAS mapping was performed using 288 Arabidopsis accessions distributed worldwide Arabidopsis thaliana
genome-wide association studies have been successful in uncovering genetic basis of trait variation and linking causal loci to phenotypic traits
GWAS applied to association panel accounting for kinship screened 10 genomic regions captured within 11 QTLs Zea mays
GWAS is a relatively new approach
remaining intergenic trait-associated variants can potentially be assigned to lincRNAs Glycine max
316 single-nucleotide polymorphisms identified as associated with agronomic traits were used in analysis Glycine max
map location of Rht24 overlapped Rht18 region on chromosome 6A that included GA2oxA9
F2 segregating population derived from 3t mutant and Zhenshan 97 (ZS97) was constructed from 3t mutant and indica cultivar Zhenshan 97 (ZS97) Oryza sativa
genes showing chromosomal locations corresponding to known disease resistance QTLs are identified by bioinformatics analysis Oryza sativa
CER-ZA is likely HORVU5Hr1G089230 Hordeum vulgare
molecular markers are used for construction of genetic linkage maps
48 SNPs in BARCSoySNP6K assay have genetic location not inferred because physical positions in Wm82a2v1 soybean assembly not determined Glycine max
Phenotyping and genotyping of Thellungiella ecotype collections will provide essential resource for gene identification by QTL analysis and mutant mapping
genomic DNA extracted from seedlings was used for PCR-based mapping Arabidopsis thaliana
ced2 mutation is mapped to 128-kb interval on chromosome 3 Arabidopsis thaliana
F20D10 primer is used for mapping Arabidopsis thaliana
3231 markers with unique genotypic profiles versus 2077 markers that co-segregated with one of the 3231 SNPs Glycine max
markers with significant segregation distortion were discarded from mapping data
all polymorphic SNPs clustered into 20 linkage groups suggests that SNPs well cover soybean genome Glycine max
RIL population from cross between tomato and S. pimpinellifolium was profiled using genome wide SNP analysis Solanum lycopersicum; Solanum pimpinellifolium
genotypes of F2 individuals cosegregated with tiller number Oryza sativa
limited number of recombination events (REs) suggests that for a biparental population with a limited number of recombinant inbred lines (RILs), it is unnecessary to genotype the RILs with too many markers
Solanum lycopersicum cv M82 crossed with Solanum pennellii Solanum lycopersicum; Solanum pennellii
SSLP and CAPS markers were employed to localize fsh mutation on chromosome 1 Arabidopsis thaliana
12K SNP array analysis of RP6Ht3 revealed segments differing from RP6 on chromosomes 2, 3, 4 and 8 Zea mays
69 QTLs for plasticity traits across the two populations about 78% were detected only when using the plasticity index
Medea Ap9d was null for Sr13 Triticum aestivum
Srdp2 is not allele of Sr13 Triticum aestivum
CAT-A1 was derived from Camadi Abdu tipo #103 (PI 192168) Triticum turgidum
22 additional durum wheats were added to analysis for validation of rwgsnp38, rwgsnp39 and rwgsnp40 Triticum turgidum
low limit of detection (LOD) scores for some QTL are reflective of whole genome average interval mapping (WGAIM) method Hordeum vulgare
WGAIM method detects and quantifies smaller effect QTL Hordeum vulgare
many QTL were transient and only appeared at individual time points Hordeum vulgare
QTL on chromosome 1H was not detected for any of PSA-related traits Hordeum vulgare
genetic variation at regionally polymorphic causal loci might be insufficient within a given local population
putative centromeric regions were identified using recombination rate variation along eight LGs Marchantia polymorpha
recombinationally inactive regions were located close to middle or close to one end of pseudomolecules Marchantia polymorpha
substantial genome portions uncovered renders opaque to further genetic profiling
fsh mutation is localized between markers sup4.04 and PERL0029221 Arabidopsis thaliana
Marey maps indicated recombination rate variation along eight pseudomolecules deviated significantly from zero Marchantia polymorpha
statistical methods combining trait values and allelic variation in segregant populations characterize quantitative trait loci (QTLs) Zea mays
AP22 primer is used for mapping Arabidopsis thaliana
recombinationally active and inactive regions were used to identify putative centromeric regions Marchantia polymorpha
LG1, LG2, LG4, LG5, and LG6 showed one major extensive region with very low recombination rate Marchantia polymorpha
allele frequency is calculated between mutant pool and neutral mutant Oryza sativa
quantitative trait locus (QTL) mapping using 38 polymorphic markers in a BC2F2 population detected single association peak with LOD value of 44.02 at physical position 158.17 Mb Zea mays
QTL mapping is method for characterizing quantitative trait loci (QTLs) Zea mays
genome-wide association study of 84 traits using 809 accessions demonstrated that at least 23 loci with pleiotropic effects on different traits Glycine max
2,862 SNPs in BARCSoySNP6K assay had genetic position inferred for SNPs not mapped in WP linkage map Glycine max
leaf length resulted in nine MTAs Zea mays
genes in the 2.1-Mb candidate interval possess pivotal variations Gossypium hirsutum; Gossypium barbadense
all three plants of CAT-A1 were positive for Sr13 Triticum turgidum
Two of the annotated genes (unknown function; ABC transporter G family member) making unlikely candidates for salt responsive leaf elongation QTL at vegetative growth Hordeum vulgare
genetic resources are used for quantitative trait analysis Arabidopsis thaliana
panels of genotypes provide high genetic resolution based on historical recombination events
neutral mutant EMS-9311 was selected for crossing with srl mutant Oryza sativa
OF2 was determined to be located on chromosome A09 between markers APSP63 and ANP41 Brassica napus
syl mutation locus defined by interval between markers nga 225 and nga 249
ssd3-1 to ssd3-7 alleles are third complementation group Arabidopsis thaliana
Spr3 is narrowed down to 4.6-kb region Oryza sativa
CsTW5.1 was overlapping to non-significant QTL of CsFW Arabidopsis thaliana
linkage analysis obtained thirteen linkage groups Ficus erecta
neutral mutant-bridging (NMB) method was developed for mapping the naturally mutated gene Oryza sativa
genotypes at peak SNP site on chromosome 12 were not cosegregated with phenotype of tiller number Oryza sativa
BARCSoySNP6K assay has been used to construct linkage maps Glycine max
genome-wide association study (GWAS) on grain (1,3;1,4)-β-glucan content confirmed QTL on 1H co-locating with HvCslF9 and HvGlbI Hordeum vulgare L.
4-day-old etiolated F2 seedlings with enhanced ethylene response phenotype used for collection of leaf tissue and isolation of genomic DNA Arabidopsis thaliana
introgression line (IL) population contains introgressed segments from Solanum pennellii Solanum lycopersicum; Solanum pennellii
neutral mutant crossed with spontaneous mutant develops pseudo-near-isogenic F2 population Oryza sativa
next generation mapping used to identify mutated locus in each plant line Arabidopsis thaliana
neutral mutant crossed with spontaneous mutant develops F2 population Oryza sativa
bulked segregant analysis mapped (GIR1, AT5G06270) gene Arabidopsis thaliana
position of centromeres could be readily defined for LG1, LG2, LG3–LG6 Marchantia polymorpha
mapping to a single locus in F2 populations argues for single gene basis Zea mays
metabolic quantitative trait locus (mQTL) mapping is powerful tool for the identification of genetic determinants of plant metabolism
SNPs in BARCSoySNP6K assay are all linked to one of 20 linkage groups Glycine max
SNPs were grouped into 12 linkage groups
large-scale genetic studies, including GWAS and linkage mapping can identify new genes and alleles that regulate the plant ionome Arabidopsis thaliana
maize studies benefit from advanced segregant populations Zea mays
two RIL sets used as a combined mapping panel can result in discrepancies among gene lists Zea mays
14 pairs of paralogs in candidate intervals were initially found in candidate intervals Gossypium hirsutum
marker rwgsnp40 was developed to detect plants carrying haplotype R1 Triticum aestivum; Triticum turgidum
Rusty-14803, PI 387696 and Im-C2 had R2 haplotype Triticum turgidum; Triticum carthlicum
R4 haplotype differed from R2 by only 1 bp at C2798A/T933K Triticum turgidum
observation of a given causal variant on different haplotypes in different geographic regions breaks down correlations in genotype between the causal variant and nearby non-causal variants
order of markers on linkage maps constructed with BARCSoySNP6K is consistent with order of markers on linkage maps constructed with SoySNP50K Glycine max
consensus map contains 12 linkage groups
root mean squared error between maps had maximum of 5.75 on LG 5
QTL mapping using 720 BC2F2 plants found single association peak with LOD value of 168.77 at position 158.17 Mb on chromosome 8 Zea mays
genotyping-by-sequencing mapped genetic locus CaOr on chromosome 2 Capsicum annuum
genetic determinism of seed protein composition is likely mainly dependent on environment Medicago truncatula
monogenic line CAT-A1 was found to carry new haplotype, named R4 Triticum turgidum
all monogenic lines except CAT-B1 carried Sr13 haplotype Triticum turgidum; Triticum aestivum
regions with lowest and most extensive recombination suppression were identified as putative centromeres Marchantia polymorpha
linkage map corresponds to eight autosomes Marchantia polymorpha
low REs in plant genomes suggests that genotyping RIL populations of limited sizes with large number of markers is unnecessary high LD in RIL populations
two SNPs from PILA_30024 gene were located at position 59.81 cM of LG 7
introgression line (IL) population covers full Solanum pennellii genome Solanum lycopersicum; Solanum pennellii
0.3 cM genetic interval flanked by markers PZE-108096469 and PZE-108092843 flanks 2.81 Mb region on chromosome 8 of (B73, CHL6, CNX, CNX1, SIR4, AT5G20990) reference genome Zea mays
all polymorphic InDels (28 pairs) exhibited linkage phenomenon with male sterility Gossypium hirsutum; Gossypium barbadense
multi-parental mapping populations overcome limitations of biparental mapping populations
locus L5 is located at chromosome 5 at approximately 16.5 Mb Arabidopsis thaliana
spatial correction was implemented for GWAS on raw phenotypic data according to a randomized split-plot block design Arabidopsis thaliana
SNP linkage map mapped genetic position of orange fruit color locus
genetic linkage groups had average marker density of 1.5 cM/marker Triticum aestivum; Triticum carthlicum
CAT-A1 carried T2200C polymorphism Triticum turgidum
QTL on chromosome 1H for total.length.smooth (117.22–119.78 cM) under salt at 24 DAP shares flanking marker with QTL at 119.78 cM for mean.length.smooth under control conditions Hordeum vulgare
recombinant inbred lines is bi-parental mapping population
local populations are not without limitations
late TT and early TT plants from Tsu-0 × emb3126-1 crosses were genotyped using PCR primers revealing accession-specific DNA sequence polymorphisms Arabidopsis thaliana
GWA analysis identified 4,383 genes associated with lesion yellowness Arabidopsis thaliana
GWA and eQTL mapping used covariate and kinship correction Zea mays
highly efficient populations for QTL mapping represent alternatives for characterizing other heat-response QTLs Solanum lycopersicum
many QTLs identified were condition-specific suggesting that, depending on the condition, the effect of QTLs significantly varied
previous QTL mapping studies on tomato response to high temperature were conducted on traits evaluated in a single HS condition
hotspots for both plasticity and protein band abundance identified on chromosome 1 (at approx. 50 Mb) and chromosome 2 Medicago truncatula
1542 polymorphic SNP markers were used for genetic map construction Triticum aestivum; Triticum carthlicum
genetic linkage groups had total map length of 2356.5 cM Triticum aestivum; Triticum carthlicum
false positives from markers rwgsnp38, -39 and -40 are easily detected by rwgsnp37.2 Triticum aestivum
QTL for num.leaves on chromosome 5H between 51.83 and 56.80 cM such as QTL specific to leaf number Hordeum vulgare
GWASs and QTL mapping are most common and effective methods used to analyze agronomically important plant characters
genetic interval 6.06–6.43 Mb on chromosome 7 encompasses seven distinct linkage disequilibrium (LD) blocks Oryza sativa
14 pairs of paralogous genes were identified based on two mapping regions Gossypium hirsutum; Gossypium barbadense
resistant seedling CHC543-5 × susceptible seedling CHC544-5 generated F1 population 7650 Solanum chacoense
marker TG63 linked to Rpi-chc1 resistance Solanum chacoense
distribution of hotspots throughout genetic map reflects complex genetic determinism of seed protein composition Medicago truncatula
1621 polymorphic markers were assigned to 14 linkage groups representing 14 (A and B genomes) chromosomes Triticum aestivum; Triticum carthlicum
remaining three candidates underlying QTL included two expansin B2 genes and glucan endo-1,3-beta-glucosidase Hordeum vulgare
genome-wide association studies (GWAS) uncover collections of loci that are far from exhaustive loci associated with trait variation
isolation of induced mutations in (ATPAD4, PAD4, AT3G52430) after mutagenesis of syp121–1 syp122–1 overcame genetic linkage barrier Arabidopsis thaliana
L4204 marker is CAPS marker type Oryza sativa
L4359 marker is Indel marker type Oryza sativa
200 plants selected from F2 population genotyped and phenotyped for linkage map construction and linkage analysis Oryza sativa L.
F6G17 primer is used for mapping Arabidopsis thaliana
neutral mutant EMS-9311 crossed with srl mutant developed another F2 population Oryza sativa
LD decay information was used to reduce redundancy between MTAs in linkage with each other Zea mays
several QTLs of the present study were consistent with their results, for flower, fruit number or fruit set (on chromosomes 2, 4, 5, 6, 7, 10 and 12)
polymorphic SNP markers were co-segregating co-segregating marker sets Triticum aestivum; Triticum carthlicum
R4 haplotype differed from R3 by only 1 bp at G2517T/W839C Triticum turgidum
only 6 of 15 Camadi plants carried R4 haplotype Triticum turgidum
Camadi plants #1 and #3 were both positive for Sr13 marker rwgsnp37.2 Triticum turgidum
significant QTL for PSA.smooth.RGR is in close proximity 33.43–33.62 cM Hordeum vulgare
both QTL each accounting for approximately 5% of genetic variation Hordeum vulgare
Chromosome 3H detected QTL region specific to salinity response for leaf length-related traits Hordeum vulgare
Four traits (total.length.smooth, total.length.smooth.AGR, L4.length.smooth and num.leaves) were mapped between 67.56 and 69.50 cM Hordeum vulgare
QTL specific to length of leaf 4 analyzed QTL with highest LOD score (6.5) on chromosome 3H Hordeum vulgare
linkage mapping populations can be used to identify quantitative trait loci (QTL)
rough mapping interval is screened for recombinants
discrete linkage disequilibrium blocks delimit R gene
DZ size was associated with loci on chromosome (Chr) 1 at around 175 Mb Zea mays
high proportion of population-specific QTLs for fruit- and plant-related traits under optimal growth conditions was observed in Pascual et al . ( 2016 )
Δ(all index) strategy anchored male sterility locus to interval from 7 040 418 to 39 545 755 bp on chromosome D12 Gossypium hirsutum
candidate interval was narrowed down to approximately 15.9-Mb region between A12_1156 and A12_1305 Gossypium hirsutum; Gossypium barbadense
marker rwgsnp39 was developed to detect plants carrying haplotype R3 Triticum aestivum; Triticum turgidum
25 common wheat cultivars/lines had both Rusty and PI 387696 alleles (A1A2) Triticum aestivum
Mundah allele having positive effect on shoot growth Hordeum vulgare
association genetics can be based on panels of genotypes
local populations fall in between simplified synthetic populations and diverse global populations
effects mapped in a given local population may be weakened in other populations
at the genetic level, heat-response QTLs were mostly population specific
polymorphic 9 SSRs and 18 InDels were used to genotype F2 individuals (940, p IV) of CCRI9106 × Hai7124 Gossypium hirsutum; Gossypium barbadense
genetic map spanned total genetic distance of 1450.28 cM Camellia sinensis
164 genes identified from plasticity indices and protein abundance Medicago truncatula
QTL for L4.length.smooth under control at 21 DAP had negative effect with allele for increased leaf 4 length coming from Keel Hordeum vulgare
candidate genes making interesting targets for future studies into salt-specific growth responses Hordeum vulgare
VRN3 mapping to (ATFT1, ATFUT1, FT1, FUT1, MUR2, AT2G03220) sequence suggests (ATFT1, ATFUT1, FT1, FUT1, MUR2, AT2G03220) is the VRN3 gene temperate cereals
whole-genome sequencing-based bulked segregant analysis (BSA) was performed using F2 population of CCRI9106 × TM-1 Gossypium hirsutum
associations on chromosomes 4 and 5 were found only using environment-specific MTMM models Arabidopsis thaliana
resistance gene in CItr 14803 was located at Sr13 locus Triticum polonicum
greater number of QTL was detected under salinity compared with control conditions Hordeum vulgare
chromosome 7H, between 177.93 cM and 180.42 cM detected two adjacent QTL for PSA.smooth.RGR Hordeum vulgare
mapping populations have been used in Arabidopsis thaliana Arabidopsis thaliana
awn traits mapped to naturally-occurring alleles in Awn-1 (An-1) and LONG AND BARBED AWN1 (LABA1) genes Oryza sativa
genetic map consisted of 12 748 SNP loci in 675 genetic bins covering 705.5 cM Ficus erecta
OF1 was fine-mapped to 25-kb genomic region between markers CN4/CN27 and CN36/CN40 Brassica napus
74 simple sequence repeats (SSRs) were included in linkage map construction Triticum aestivum; Triticum carthlicum
genetic mapping using offspring from an experimental cross interrogates only genetic variants present in the parents
(ELL1, FK, HYD2, AT3G52940) mutant crossed with Nanjing 6 (NJ6) Oryza sativa
dupw167 locus had 259 and 296 bp amplicons from CItr 14803 assigned as allele B Triticum polonicum; Triticum aestivum
Rusty-KL-B and Rusty-KL-C had R1 haplotype Triticum turgidum
all three genes were expressed in seedlings Hordeum vulgare
genetic bases of natural variation analyzed using association (LD) mapping Arabidopsis thaliana
Synthetic mapping populations are limited to genetic variation present in the parental lines
local populations are especially effective for using GWAS to quantify fitness effects of causal variants in different years or habitats
nine and eight loci located on all chromosomes except chromosome 4 chromosomes 1, 2, 3, and 5 Arabidopsis thaliana
SNP markers enabled mapping of 25 QTLs Solanum lycopersicum
quantitative trait locus (QTL) analysis performed on fertility phenotype Arabidopsis thaliana
cytochrome P450 superfamily protein making unlikely candidate for salt responsive leaf elongation QTL at vegetative growth Hordeum vulgare
marker is in strong linkage disequilibrium with causal variant
local populations suffer less from drawbacks of diverse natural populations and synthetic populations
fine mapping approaches to infer putatively causal variants within GWAS peaks achieved tighter resolution with a human mapping panel distributed more broadly and evenly across the globe
genotypic and phenotypic characterization reduces mapping interval
pQTLs from 1 to 479 genes were listed per QTL
association between QY max and SNPs on chromosome 5 was specific to salt stress Arabidopsis thaliana
significantly associated SNPs using Fv'/Fm' were distributed along the promoter region of (AT1G64270) and (ATNPR1, NIM1, NPR1, SAI1, AT1G64280) Arabidopsis thaliana
marker dupw167 was co-dominant marker Triticum polonicum; Triticum aestivum
forward genetic approaches aim to associate mutations with traits of interest
broad mapping panels will yield higher predictive performance on average across populations
PI 387696 and newly derived near-isogenic line (NIL) Rusty-14803 were added to CNL13 sequence analysis Triticum turgidum; Triticum aestivum
sequencing results agreed with results from haplotyping Triticum turgidum
marker rwgsnp6 amplified Rusty allele (A1) in three durum and one common wheat cultivars/lines Triticum turgidum; Triticum aestivum
doubled haploid is bi-parental mapping population
GWA study identified MTAs Zea mays
approximately 15.9-Mb region between A12_1156 and A12_1305 contained 138 genes Gossypium barbadense
MAGIC population is derived from intercross between four cherry and four large fruited tomato accessions Solanum lycopersicum
Ic 3 (Interval at centromeric region of chromosome 3) is defined by InDel3039 and SNP6 markers Hordeum vulgare
Rusty-14803, PI 387696 and Leeds all carried R2 haplotype Triticum aestivum; Triticum turgidum
QTL for L4.length.smooth under control at 21 DAP was also mapped to 33.43 cM on chromosome 2H Hordeum vulgare
QTL for total.length.smooth on chromosome 2HL at 9.13 cM such as QTL specific to leaf length Hordeum vulgare
residual phenotype can be used in genome-wide association studies (GWAS)
genes known to alter brace roots are candidates for QTL studies Zea mays; Sorghum bicolor
studies of local populations individually may be more powerful and accurate alternative
Marchantia polymorpha linkage map compares well with linkage map of Physcomitrella patens Marchantia polymorpha; Physcomitrella patens
3600 markers will be enough to tag each recombinant in the population Glycine max
Punnuri et al. GBS study in pearl millet mapped 16650 SNPs Pennisetum glaucum
quantitative trait loci approach on recombinant inbred line progeny of Bay-0 and Shahdara cross identified six distinct quantitative trait loci Arabidopsis thaliana
L4121 marker is Indel marker type Oryza sativa
L4315 marker is CAPS marker type Oryza sativa
homozygous for Wuyujing-7 chromosomal segment plants selected as controls Oryza sativa L.
Md-PG1 has been genetically mapped by single nucleotide polymorphism (SNP) Malus domestica
two larger F2 populations, CCRI9106 × Hai7124 (p V) and CCRI9106 × 3-79 (p VI) were constructed to fine map sterility gene on chromosome A12 Gossypium hirsutum; Gossypium barbadense
genotyped panel can be repeatedly phenotyped to map new genes
male sterility genes were mapped on homologous chromosomes A12 and D12 Gossypium hirsutum
KASPSr13 marker co-segregated with Sr13 markers BE403950 and CK20734 Triticum aestivum; Triticum carthlicum
of 15 Camadi plants only six were positive for Sr13 Triticum turgidum
two adjacent QTL for PSA.smooth.RGR detected for 22–23, 23–24 and 21–24 DAP Hordeum vulgare
linkage mapping populations can be used to produce linkage maps
different environmental effects across populations (GxE) can cause effects mapped in a given local population may not be portable to others
genetic map of Sq-1×Sorbo was constructed using 78 markers and JoinMap4 software Arabidopsis thaliana
QTLs CsFW1.1, CsTW1.1, and CsDW1.1 explained 9%, 10.2%, and 9.8% of total variance of their traits Arabidopsis thaliana
SNP or InDel markers distinguish parental genotypes Hordeum vulgare
several transcription factors and an auxin-related gene require further fine mapping Hordeum vulgare
mapping approaches identify causal polymorphism Arabidopsis thaliana
complicating factors are reduced but not eliminated in local populations
differences in epistatic effects (GxG) when genetic backgrounds vary among populations can cause effects mapped in a given local population may not be portable to others
(CYP707A3, AT5G45340) is located in genomic region between At5g-102 and nga129 Arabidopsis thaliana
genomic DNA used as template for PCR-based mapping Arabidopsis thaliana
L4168 marker is Indel marker type Oryza sativa
small 158-plant F2 population genotyped using markers RM5503 and L4160 Oryza sativa L.
mapping population of backcross inbred lines (BILs) is characterized by minimal segregation in days to heading (DTH)
fine mapping of QTL causal genes requires lengthy and involved process Zea mays
plasticity index phenotype was used to identify reliable QTLs involved in heat response
highest concentration of SNPs significantly associated with Fv'/Fm' was found between (OTP71, AT1G64310) and (AT1G64320) Arabidopsis thaliana
dupw167 and stem rust data combined showed 53 AASS, 2 AARS, 80 ABRS and 45 BBRR plants Triticum polonicum; Triticum aestivum
quantitative trait loci (QTL) mapping has been widely applied in plant genomics
map-based cloning of causal mutations links specific mutations to traits of interest
genome wide association mapping is expected to work well for traits controlled by hard sweeps
GWAS within more than one local population could avoid insufficient genetic variation pitfall
slower LD decay in two-way RILs may reduce mapping definition of the panel Zea mays
QTL mapping mapped QTLs for 11 traits
10 genes common to three environments Medicago truncatula
homozygous recombinants delimited Spr3 locus to region between markers L4355 and L4264 Oryza sativa
L4264 marker is CAPS marker type Oryza sativa
(AtKAT1, KAT1, AT5G46240) is located in genomic region between At5g-102 and nga129 Arabidopsis thaliana
200 BC3 F2 plants was used to produce high-resolution linkage map of Spr3 region Oryza sativa
heterozygous plants from BC3F2 population used to construct F2 population Oryza sativa L.
homozygous for CG-14 chromosomal segment plants selected as controls Oryza sativa L.
seven markers mapping in upper arm of chromosome 1 showed distortion from expected 1:1 segregation of homozygous genotypes homozygous genotypes Arabidopsis thaliana
inability to form a linkage map was caused by chromosomal abnormalities Atriplex rosea; Atriplex prostrata
21 BC 4 F 2 recombinants narrowed down the location of qLA4-1 QTL
nine MTAs for LER included one located on chromosome (Chr) 2 Zea mays
Rpi-chc1.2 and Rpi-chc1.1 show perfect repulsion in recombinant population 6750 Solanum chacoense
any line carrying Sr13 should be positive for 98 bp band amplified by rwgsnp37.2 Triticum aestivum; Triticum turgidum
eight tetraploid lines carried Sr13 Triticum turgidum
growth models highlight importance of applying to QTL analysis Hordeum vulgare
Ppd-H1 specific marker confirmed Ppd-H1 segregating within Mundah × Keel RIL population Hordeum vulgare
bi-parental (recombinant inbred lines, RILs; introgression lines, ILs; F 2 ) populations is example of specialized genetic resources/genetic stocks
Synthetic mapping populations can eliminate rare variants and geographic population structure
Spr3 locus was mapped on region between markers L4213 and L4218 Oryza sativa
L4316 marker is CAPS marker type Oryza sativa
exploring the range of genetic variation for herbivore-induced plant volatiles (HIPV) is prerequisite
halophytic plants lack genetic tools including molecular markers for positional cloning
Association mapping (AM) is adopted as method complementary to traditional bi-parental linkage mapping
inter-mutant crosses among approximately 100 suppressor mutants placed mutants in complementation groups Arabidopsis thaliana
BrSIO3 accounted for 14.5% of the variance Brassica rapa
matrixin proteins ( (AT2G45040) in BrSIO1 and (AT1-MMP, AT4G16640) in BrSIO2) are candidate responsible genes Arabidopsis thaliana
RADseq is a powerful method for genetic marker discovery and genetic map construction for pear
Most studies linking genetic markers and parameters of an ecophysiological model were carried out after measuring parameters on a mapping population
(ATCAL4, CML12, TCH3, AT2G41100) is located within 2 Mb region of nga168 Arabidopsis thaliana
recombinants between markers and Spr3 locus number indicated under high-resolution linkage map Oryza sativa
putative GID1 GA receptor sequence in barley corresponds to Gse1 locus Hordeum vulgare
L4259 marker is Indel marker type Oryza sativa
Md-PG1 SNP functional marker was applied to Fuji (Fj) × Mondial Gala (MG) population
GM 862 crossed with wild-type Landsberg erecta (Ler) generated F1 plants heterozygous for polymorphic markers between Col and Ler Arabidopsis thaliana
complementation tests with syp121–1 syp122–1 ssd mutants with similar phenotype led to identification of 15 new (ATICS1, EDS16, ICS1, SID2, AT1G74710) mutants Arabidopsis thaliana
fine-mappings were performed using Cereon Col/L er marker information Arabidopsis thaliana
L4327 marker is Indel marker type Oryza sativa
newly available marker technologies allow characterization and positioning of loci that control herbivore-induced plant volatiles (HIPV) traits
only one pQTL common to the two populations denotes the polygenic nature of tomato heat response
high-quality and high-density single-nucleotide polymorphism (SNP) markers enable high-resolution mapping by genome-wide association studies (GWASs)
QTL on the short arm of chromosome 2H at 34.25 cM for PSA.smooth was detected for PSA.smooth at 24 and 28 DAP Hordeum vulgare
expression of cytochrome P450 superfamily protein only detectable in grains Hordeum vulgare
classical linkage analysis provides resolution to determine genetic variants shaping phenotypic diversity
QTLs CsFW1.2, CsDW1.2, (CsTW), and SrFW1.2 as well as SrDW1.2 showed same peak maxima Arabidopsis thaliana
S-b gene has been fine mapped S-b gene locus Oryza sativa
locus controlling number of spikelets per spike is mapped to distal 83% region of chromosome 1AL arm
7.6-kb DNA sequences contains 4.6-kb region Oryza sativa
minimal variations in rates of photosynthesis among parental varieties might be a consequence of limited information about QTLs for leaf photosynthesis Oryza sativa
Populations developed for genetic analysis focused on regions of chromosome 4 and 8 Oryza sativa
QTL close to the border of significance can appear in one population but might not appear in another Arabidopsis thaliana
S-c gene has been fine mapped S-c gene locus Oryza sativa
105 COSII markers are common to at least four of the six mapping populations Solanum spp.; Solanum tuberosum
homeoalleles from different chromosomes might be detected by rwgsnp7 Triticum aestivum
several transcription factors and an auxin-related gene were found underlying genetic region Hordeum vulgare
many ethnicities have been vastly underrepresented in GWAS panels
locus for salt tolerance after SA was mapped to the same locus on chromosome 5 in Bur-0, Cal-0, Ll-1, and Zu-0 Arabidopsis thaliana
association mapping in diverse population provides higher mapping resolution Zea mays
majority of VTE core pathway enzyme-encoding genes are grouped within chromosomes 7, 8, and 9 Solanum lycopersicum
GWA study was conducted between SNPs and trait values Zea mays
associations on chromosome 1 were not identified using environment-independent MTMM model Arabidopsis thaliana
identified locus on chromosome 1 might play a role in regulating Fv'/Fm' under salt stress and influenced the interaction between genotype and environment Arabidopsis thaliana
F1 hybrid from Rusty × PI 387696 cross were developed from Rusty × PI 387696 cross Triticum aestivum; Triticum carthlicum
both marker loci barc104 and dupw167 are tightly linked to Sr13 Triticum polonicum; Triticum aestivum
dupw167 locus had 240 bp amplicon from Rusty assigned as allele A Triticum polonicum; Triticum aestivum
R4 haplotype differed from R1 by only 2 bp at positions G1963C/G655R and G2272C/V758L Triticum turgidum
Camadi and CAT-A1 were assigned to haplotype R4 Triticum turgidum
several of the QTL for PSA.smooth.AGR and PSA.smooth.RGR had higher LOD scores than PSA.smooth QTL Hordeum vulgare
chromosomal region with no obvious candidate gene Hordeum vulgare
genetic bases of natural variation analyzed using classical linkage mapping Arabidopsis thaliana
Ms10 35 locus is positioned within ~80kb region flanked by markers 762K and 843K Solanum lycopersicum
genes mapped to rice chromosomes could provide useful information for further studies on fine genetic mapping and cloning the full-length genes of rice that regulate the heat tolerance trait Oryza sativa
Chromosomes 1H and 2H mapped in two linkage groups each Hordeum vulgare
SNP distribution is shown in Fig. 2
pear map generated in this study has 35 common SSR markers with Fiesta map
L4265 marker is CAPS marker type Oryza sativa
137 recombinants narrowed down Spr3 locus
eight markers were developed in target region flanked by L4359 and L4293
F2 populations were generated for SSD genes Arabidopsis thaliana
Md-PG1 SNP functional marker segregated in Fuji (Fj) × Mondial Gala (MG) population
QTL analysis is useful for identifying genes involved in Cs+ and Sr2+ accumulation variation Arabidopsis thaliana
chromosome segment substitution lines (CSSLs) have been developed for genetic analysis Oryza sativa
precise locations of regions were determined Oryza sativa
inadequate understanding of factors contributing to differences in photosynthetic rate might be a consequence of limited information about QTLs for leaf photosynthesis Oryza sativa
potato diploid population F1840 is one of six mapping populations being anchored to COSII markers Solanum tuberosum
AtSAUR46 is located within 2 Mb region of nga168 Arabidopsis thaliana
introgression mapping allowed drawing of a tentative structural-functional map of the 7AL-7AgL region Triticum turgidum
QTL 12 has PVE of 14%
SSR marker map location was compared with previous pear and apple maps
CH02c02b, CH01d03, and CTG1064355 are located at 55.3 cM, 19.6 cM, and 55.3 cM on LG4 in Barlett map
many SSR markers have been shown to have good transferability between apple and pear
quantitative trait loci (QTL) analysis was performed on recombinant inbred lines (RILs) Arabidopsis thaliana
extension 'kws' indicates that the probe was mapped in mapping populations different from Beetmap Beta vulgaris
segregation distortion does not significantly alter the map Solanum lycopersicum
three cultivars with different responses to cyclic water stress were selected in order to identify genomic regions controlling drought tolerance in wheat
genes underlying allelic variation needs to be expanded for breeding programs
ERECTA locus has been identified as major QTL for various traits including mineral concentrations Arabidopsis thaliana
Clipper and Sahara are parents of a mapping population Hordeum vulgare
marker pairs with inter-marker distance within 10 cM had average D' value of 0.54±0.24 Triticum turgidum subsp. durum
genetic map produced from the 192 F2 progeny shows a 4.3 cM interval between markers 003G03 and 003A03 Medicago truncatula
F3 segregating population from F2 recombinants was used for fine mapping Hordeum vulgare
this study presents integration of genetic and physical maps Beta vulgaris
QTL analysis requires development and selection of DNA markers for linkage analysis
(HPD, HPPD, PDS1, AT1G06570) (2) mapping to chromosome 5 Solanum lycopersicum
four genes mapped on chromosome 9: (APG1, E37, IEP37, VTE3, AT3G63410) (1), (VTE5, AT5G04490) arogenate dehydrogenase [tyra(2)], and geranylgeranyl pyrophosphate synthase [ggps(4)] co-localize with QTL for α-tocopherol content Solanum lycopersicum
integrated map was generally consistent with Tomato-EXPEN 2000 map Solanum lycopersicum
a QTL for earliness per se in the distal region of chromosome 1A m L was designated Eps-A m 1 Triticum monococcum L.
AroDH-4 gene is located on chromosome 9 Zea mays
regions of chromosome 4 and 8 were large among CSSLs from Sasanishiki and Habataki Oryza sativa
marker RG213 is located at chromosome 6, position ∼33.5 cM
SSR marker 34TC15 was found to co-segregate with AIN phenotype for the 192 F2 plants Medicago truncatula
genetic map includes 90 markers evenly distributed at average distance of 4.9 cM Arabidopsis thaliana
DNA markers have been developed in rice Oryza sativa
a4 gene mapped within segment bounded by markers G227 and R712 Oryza sativa
genotypic variation was dissected into distinct loci by QTL mapping Oryza sativa
three complementation groups consist of ten, seven and seven alleles respectively Arabidopsis thaliana
presence of Md-PG1 SNP marker band occurred in individuals sharing heterozygous Md-PG1 allelotype of Mondial Gala (MG) (G/T)
integrated map is 21% shorter than Tomato-EXPEN 2000 map Solanum lycopersicum
F2 data were re-analysed to position AIN locus between SSR markers 003G03 and 003A03 on chromosome 3 Medicago truncatula
SSR marker locus Xpsr3094 resides in the chromosomal region delimited by the 7AL-7AgL BPs of R112-4 and R23-1 recombinants Triticum turgidum
17 genes involved in the response of rice to high temperature stress at the milky stage were mapped to different linkage groups on the rice chromosomes Oryza sativa
loci underlying length of FLA–BOOT interval are QTL 2 on chromosome arm 1BL, QTL 3 on chromosome arm 2BS, and QTL 8 on chromosome arm 5AS QTLs controlling FLA–BOOT interval
two QTL for leaf senescence were mapped in the Bur-0 × Col-0 population Arabidopsis thaliana
metaQTL5.2 is an incongruent locus clustering only two initial QTL Arabidopsis thaliana
127 markers polymorphic between parents of DECO population Hordeum vulgare
time and labour required makes most of them unsuitable for fine mapping of traits of interest Pyrus spp.
low marker density in LG1 indicates lower rate of heterozygosity in (ATDDM1, CHA1, CHR01, CHR1, DDM1, SOM1, SOM4, AT5G66750)
total number of markers may have increased without proportional increase in information Triticum aestivum
QTL for seed IP6, Mn, and K concentrations did co-locate in Ler/Kond RILs Arabidopsis thaliana
physical mapping data for this region of the genome allowed design of a new SSR marker within this interval Medicago truncatula
three markers tightly linked to the three known loci mediating interactions with aphids include 34TC15 at AIN; 004H01 at (123B, AKR, AKRP, EMB16, EMB2036, STT2, AT5G66055) h2_1e24a at TTR Medicago truncatula
SSR markers are distributed across maize chromosomes Zea mays
17 of the 25 genes co-segregated with 16 markers in the RILs and were mapped to different linkage groups on rice chromosomes 1, 2, 3, 4, 5, 6, 7, 9, and 10 Oryza sativa
QTL 11 in LDV-grown plants has LOD below threshold of 3 with LOD of 2.9 and PVE of 14%
BrSIO3 is located near BrSIO2 Brassica rapa
LG1 has fewest markers and lowest density
integrated pear linkage map consists of 3,143 SNPs and 98 SSR markers
each of 17 linkage groups of pear maps has at least one common marker
recombination breakpoint in recombinant R378 occurred between 1175 bp and 1695 bp upstream of the (B80, PUB8, AT4G21350) initiating codon Arabidopsis thaliana
recombination was substantially lower in all five pericentromeric regions Arabidopsis thaliana
Mu insertion showed perfect co-segregation with opaque phenotype Zea mays
variation between RILs allowed mapping of QTL for the ten studied traits in each population Arabidopsis thaliana
Shoot Growth 1 (ASI1, IBM2, SG1, AT5G11470) locus was consistently detected on chromosome 5, for several yield-related traits in the Bur-0 × Col-0 and Ct-1 × Col-0 populations Arabidopsis thaliana
F2 population was used for genetic analyses of CO2 sensitivity Brassica rapa
BrSIO2 is located on A03 Brassica rapa
SULF gene was mapped to centromeric heterochromatin of tomato chromosome 2 Solanum lycopersicum
centromeric heterochromatin of tomato chromosome 2 lacks any other genetic marker in close proximity Solanum lycopersicum
recombination rate is homogeneously distributed along five chromosomes with average value of 391 kb cM −1 Arabidopsis thaliana
LOD values associated with these loci range from 4.5 to 12.3
metaQTL5.3 clusters QTL detected in the Ct-1 × Col-0 and Cvi-0 × Col-0 populations Arabidopsis thaliana
LG1, LG4, and LG7 have fewer markers and peaks
LG7 and LG13 have no common markers in apple Fiesta map
DES and target loci mapped to known rice QTL related to nine categories of agronomic traits Oryza sativa
QTL on IL 9-1 spans the genomic region containing tyra(2) and ggps(4) Solanum lycopersicum
tomato was one of the first crops to have saturated genetic linkage map Solanum lycopersicum
Solanum chmielewskii IL population is being anchored to common set of COSII markers Solanum chmielewskii
published genetic markers were used to analyze 22 rescued F2 plants Arabidopsis thaliana
L4324 marker is Indel marker type Oryza sativa
recombinant event occurred between markers L4355 and L4324
molecular markers RM5503 and L4160 used for preliminary mapping
test statistics and thresholds for QTL evidence were calculated by MapQTL5 software Arabidopsis thaliana
four significant recombination QTLs (rQTLs) in a joint additive model explained 64.4% of the variation in crossover frequency Arabidopsis thaliana
nine linkage groups assigned to chromosome numbers in accordance with the information of Schondelmaier and Jung (1997) Beta vulgaris
EST-derived markers represent gene densities Beta vulgaris
AE4 gene was mapped to lower arm of chromosome 2 Arabidopsis thaliana
a few of Eps genes have been mapped as quantitative trait loci (QTL) for heading time
three mineral QTL hotspots were also hotspots for QTLs of life history traits in Ler/Cvi population Arabidopsis thaliana
marker pairs with inter-marker distance within 10-20 cM showed significant LD in 61% Triticum turgidum subsp. durum
anthranilate phosphoribosyltransferase (APT, EC 2.4.2.18) identified at 59 cM of chromosome 6 Solanum lycopersicum
QTL for Rubisco content in rice overlaps with QTL OzT8 Oryza sativa
Solanum neorickii LA2133 backcross inbred lines (BIL) is one of six mapping populations being anchored to COSII markers Solanum neorickii
high-throughput markers remain a limited resource many markers selected based on polymorphisms in wide crosses are not polymorphic within cultivated germplasm Solanum lycopersicum
mapping population derived from cross between Ler and Eringsboda is new mapping population included in this study Arabidopsis thaliana
deletion in (AGL25, FLC, FLF, RSB6, AT5G10140) was not detected in GWAS Arabidopsis thaliana
BSA-seq and transcriptome analysis were used on F1 progeny from 'Changfu 2' × 'Golden Delicious' cross
better marker coverage of these regions is a further objective Triticum turgidum
strong effect of the (ASI1, IBM2, SG1, AT5G11470) locus hampered detection of other minor QTL, especially in the Bur-0 × Col-0 population Arabidopsis thaliana
BrSIO1 and BrSIO2 do not have the same genetic origin Brassica rapa
genetic control of midday leaf water potential under stabilized evaporative and soil water deficit conditions confirmed by detection of several underlying QTLs on consensus map grapevine