Use of synteny to identify candidate genes underlying QTL controlling stomatal traits in faba bean (Vicia faba L.)

Publication Overview
TitleUse of synteny to identify candidate genes underlying QTL controlling stomatal traits in faba bean (Vicia faba L.)
AuthorsKhazaei H, O’Sullivan DM, Sillanpää MJ, Stoddard FL
TypeJournal Article
Journal NameTheoretical and applied genetics
Volume127
Issue11
Year2014
Page(s)2371-2385
CitationKhazaei H, OSullivan DM, Sillanpää MJ, Stoddard FL. Use of synteny to identify candidate genes underlying QTL controlling stomatal traits in faba bean (Vicia faba L.). Theoretical and applied genetics. 2014; 127(11):2371-2385.

Abstract

KEY MESSAGE : We have identified QTLs for stomatal characteristics on chromosome II of faba bean by applying SNPs derived from M. truncatula , and have identified candidate genes within these QTLs using synteny between the two species. Faba bean (Vicia faba L.) is a valuable food and feed crop worldwide, but drought often limits its production, and its genome is large and poorly mapped. No information is available on the effects of genomic regions and genes on drought adaptation characters such as stomatal characteristics in this species, but the synteny between the sequenced model legume, Medicago truncatula, and faba bean can be used to identify candidate genes. A mapping population of 211 F₅ recombinant inbred lines (Mélodie/2 × ILB 938/2) were phenotyped to identify quantitative trait loci (QTL) affecting stomatal morphology and function, along with seed weight, under well-watered conditions in a climate-controlled glasshouse in 2013 and 2014. Canopy temperature (CT) was evaluated in 2013 under water-deficit (CTd). In total, 188 polymorphic single nucleotide polymorphisms (SNPs), developed from M. truncatula genome data, were assigned to nine linkage groups that covered ~928 cM of the faba bean genome with an average inter-marker distance of 5.8 cM. 15 putative QTLs were detected, of which eight (affecting stomatal density, length and conductance and CT) co-located on chromosome II, in the vicinity of a possible candidate gene—a receptor-like protein kinase found in the syntenic interval of M. truncatula chromosome IV. A ribose-phosphate pyrophosphokinase from M. truncatula chromosome V, postulated as a possible candidate gene for the QTL for CTd, was found some distance away in the same chromosome. These results demonstrate that genomic information from M. truncatula can successfully be translated to the faba bean genome.
Features
This publication contains information about 235 features:
Feature NameUniquenameType
AnMtL8AnMtL8genetic_marker
AnMtS37SNPAnMtS37SNPgenetic_marker
BGALSNPBGALSNPgenetic_marker
cgP137FSNPcgP137FSNPgenetic_marker
GLIP139SNPGLIP139SNPgenetic_marker
GLPSNPGLPSNPgenetic_marker
HYPTE3SNPHYPTE3SNPgenetic_marker
LG018SNPLG018SNPgenetic_marker
LG038SNPLG038SNPgenetic_marker
New_GLIP307SNPNew_GLIP307SNPgenetic_marker
PPHSNPPPHSNPgenetic_marker
PRATSNPPRATSNPgenetic_marker
RBPC_0SNPRBPC_0SNPgenetic_marker
REPSNPREPSNPgenetic_marker
Vf_Mt1g007370_001Vf_Mt1g007370_001genetic_marker
Vf_Mt1g007490_001Vf_Mt1g007490_001genetic_marker
Vf_Mt1g012610_001Vf_Mt1g012610_001genetic_marker
Vf_Mt1g013400_001Vf_Mt1g013400_001genetic_marker
Vf_Mt1g014230_001Vf_Mt1g014230_001genetic_marker
Vf_Mt1g016750_001Vf_Mt1g016750_001genetic_marker
Vf_Mt1g018180_001Vf_Mt1g018180_001genetic_marker
Vf_Mt1g025950_001Vf_Mt1g025950_001genetic_marker
Vf_Mt1g025950_002Vf_Mt1g025950_002genetic_marker
Vf_Mt1g044570_001Vf_Mt1g044570_001genetic_marker
Vf_Mt1g061800_001Vf_Mt1g061800_001genetic_marker

Pages

Projects
This publication contains information about 1 projects:
Project NameDescription
Faba-Stomatal_traits-Khazaei-2014
Featuremaps
This publication contains information about 1 maps:
Map Name
faba-MelodiexILB938-F5-RIL-2014
Properties
Additional details for this publication include:
Property NameValue
Language Abbreng
Publication Date2014
Publication Model[electronic resource].
Publication TypeJournal Article
Published Location|||
URLhttp://dx.doi.org/10.1007/s00122-014-2383-y
KeywordsMedicago truncatula, Vicia faba, canopy, chromosomes, drought, faba beans, genes, genomics, inbred lines, linkage groups, protein kinases, quantitative trait loci, single nucleotide polymorphism, temperature, translation (genetics)