title: Comparative systems biology reveals allelic variation modulating Tocochromanol profiles in Barley (Hordeum vulgare L.).
abstract: Tocochromanols are recognized for nutritional content, plant stress response, and seed longevity. Here we present a systems biological approach to characterize and develop predictive assays for genes affecting tocochromanol variation in barley. Major QTL, detected in three regions of a SNP linkage map, affected multiple tocochromanol forms. Candidate genes were identified through barley/rice orthology and sequenced in genotypes with disparate tocochromanol profiles. Gene-specific markers, designed based on observed polymorphism, mapped to the originating QTL, increasing R2 values at the respective loci. Polymorphism within promoter regions corresponded to motifs known to influence gene expression. Quantitative PCR analysis revealed a trend of increased expression in tissues grown at cold temperatures. These results demonstrate utility of a novel method for rapid gene identification and characterization, and provide a resource for efficient development of barley lines with improved tocochromanol profiles.
authors.affiliation: Department of Plant Sciences, North Dakota State University, Fargo, North Dakota, United States of America, formerly USDA-ARS, Small Grains and Potato Germplasm Research Unit, Aberdeen, Idaho, United States of America.
authors.forename: Rebekah E
authors.initials: RE
authors.lastname: Oliver
authors.affiliation: USDA-ARS, Small Grains and Potato Germplasm Research Unit, Aberdeen, Idaho, United States of America.
authors.forename: Emir
authors.initials: E
authors.lastname: Islamovic
authors.affiliation: Limagrain Cereal Seeds, Battle Ground, Indiana, United States of America, formerly USDA-ARS, Small Grains and Potato Germplasm Research Unit, Aberdeen, Idaho, United States of America.
authors.forename: Donald E
authors.initials: DE
authors.lastname: Obert
authors.affiliation: USDA-ARS, Cereal Crops Research Unit, Madison, Wisconsin, United States of America.
authors.forename: Mitchell L
authors.initials: ML
authors.lastname: Wise
authors.affiliation: USDA-ARS, Cereal Crops Research Unit, Madison, Wisconsin, United States of America.
authors.forename: Lauri L
authors.initials: LL
authors.lastname: Herrin
authors.affiliation: USDA-ARS, Small Grains and Potato Germplasm Research Unit, Aberdeen, Idaho, United States of America.
authors.forename: An
authors.initials: A
authors.lastname: Hang
authors.affiliation: School of Plant, Environmental and Soil Sciences, Louisiana State University, Baton Rouge, Louisiana, United States of America.
authors.forename: Stephen A
authors.initials: SA
authors.lastname: Harrison
authors.affiliation: Department of Soil and Crop Sciences, Texas A&M University, College Station, Texas, United States of America.
authors.forename: Amir
authors.initials: A
authors.lastname: Ibrahim
authors.affiliation: Department of Plant, Soil, and Entomological Sciences, University of Idaho Research and Extension, Idaho Falls, Idaho, United States of America.
authors.forename: Juliet M
authors.initials: JM
authors.lastname: Marshall
authors.affiliation: SAS Institute Inc., JMP Genomics Development, Cary, North Carolina, United States of America.
authors.forename: Kelci J
authors.initials: KJ
authors.lastname: Miclaus
authors.affiliation: USDA-ARS, Western Regional Research Center, Genomics and Gene Discovery, Albany, California, United States of America.
authors.forename: Gerard R
authors.initials: GR
authors.lastname: Lazo
authors.affiliation: USDA-ARS, Small Grains and Potato Germplasm Research Unit, Aberdeen, Idaho, United States of America.
authors.forename: Gongshe
authors.initials: G
authors.lastname: Hu
authors.affiliation: Crop Biosciences, General Mill, Inc., Kannapolis, North Carolina, United States of America, formerly USDA-ARS, Small Grains and Potato Germplasm Research Unit, Aberdeen, Idaho, United States of America.
authors.forename: Eric W
authors.initials: EW
authors.lastname: Jackson
mesh_terms: D000483:Alleles; D002874:Chromosome Mapping; D001467:Hordeum / Q000235:genetics*; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D040641:Quantitative Trait Loci / Q000235:genetics; D049490:Systems Biology / Q000379:methods*