title: ScBx gene based association analysis of hydroxamate content in rye (Secale cereale L.).
abstract: Hydroxamates (HX) are major secondary metabolites synthesized by rye and are responsible for some of the unique properties of this cereal, including good tolerance of biotic and abiotic stresses and allelopathy. Recently, five genes encoding enzymes taking part in HX biosynthesis have been sequenced and characterized, which was the starting point to undertake the present study. Association analysis of the content of six HX-HBOA (2-hydroxy-1,4-benzoxazin-3-one), GDIBOA (2,4-dihydroxy-1,4-benzoxazin-3(4H)-one glucoside), DIBOA (2,4-dihydroxy-1,4-benzoxazin-3(4H)-one), GDIMBOA (2,4-dihydroxy-7-methoxy-1,4-benzoxazin-3(4H)-one glucoside), DIMBOA (2,4-dihydroxy-7-methoxy-1,4-benzoxazin-3(4H)-one) and MBOA (6-methoxy-benzoxazolin-2(3H)-one) in the above-ground parts of plants and roots was performed on a population consisting of 102 and 121 diverse inbred lines, in 2013 and 2014, respectively. Altogether, 48 single nucleotide polymorphisms (SNPs) were found to be associated with the content of at least one HX: 20 SNPs were associated with HX synthesized in the above-ground parts of rye plants (AG-SNP), and 28 were associated with HX synthesized in the roots (R-SNP). The highest number of SNPs was present in genes ScBx1 (9) and ScBx5 (11). The majority of SNPs were affected by environmental factors, except for two: ScBx4_1702 associated with GDIBOA and MBOA contents, and ScBx5_1105 associated with HBOA content in roots.
authors.affiliation: Warsaw University of Life Sciences, Warsaw, Poland. monika_rakoczy_trojanowska@sggw.pl.|Centre For Biological Diversity Conservation in Powsin, Polish Academy of Sciences Botanical Garden, Warsaw, Poland. monika_rakoczy_trojanowska@sggw.pl.
authors.forename: Monika
authors.initials: M
authors.lastname: Rakoczy-Trojanowska
authors.affiliation: The Plant Breeding And Acclimatization Institute, National Research Institute, Radzików, Poland.
authors.forename: Wacław
authors.initials: W
authors.lastname: Orczyk
authors.affiliation: Institute of Plant Genetics, Polish Academy of Sciences, Poznań, Poland.
authors.forename: Paweł
authors.initials: P
authors.lastname: Krajewski
authors.affiliation: Poznań University of Life Sciences, Poznań, Poland.
authors.forename: Jan
authors.initials: J
authors.lastname: Bocianowski
authors.affiliation: Institute of Soil Science and Plant Cultivation - State Research Institute, Pulawy, Poland.
authors.forename: Anna
authors.initials: A
authors.lastname: Stochmal
authors.affiliation: Institute of Soil Science and Plant Cultivation - State Research Institute, Pulawy, Poland.
authors.forename: Mariusz
authors.initials: M
authors.lastname: Kowalczyk
mesh_terms: D002874:Chromosome Mapping; D017343:Genes, Plant; D056726:Genetic Association Studies; D005838:Genotype; D006877:Hydroxamic Acids / Q000737:chemistry*; D020641:Polymorphism, Single Nucleotide; D012434:Secale / Q000737:chemistry* / Q000235:genetics*; D064210:Secondary Metabolism
chemical_list: D006877:Hydroxamic Acids
keywords: Candidate gene association mapping; Hydroxamic acids; ScBx genes; Single nucleotide polymorphism