Comparative analysis of genetic architectures for nine developmental traits of rye

Abstract

Genetic architectures of plant height, stem thickness, spike length, awn length, heading date, thousand-kernel weight, kernel length, leaf area and chlorophyll content were aligned on the DArT-based high-density map of the 541 × Ot1–3 RILs population of rye using the genes interaction assorting by divergent selection (GIABDS) method. Complex sets of QTL for particular traits contained 1–5 loci of the epistatic D class and 10–28 loci of the hypostatic, mostly R and E classes controlling traits variation through D–E or D–R types of two-loci interactions. QTL were distributed on each of the seven rye chromosomes in unique positions or as a coinciding loci for 2–8 traits. Detection of considerable numbers of the reversed (D′, E′ and R′) classes of QTL might be attributed to the transgression effects observed for most of the studied traits. First examples of E* and F QTL classes, defined in the model, are reported for awn length, leaf area, thousand-kernel weight and kernel length. The results of this study extend experimental data to 11 quantitative traits (together with pre-harvest sprouting and alpha-amylase activity) for which genetic architectures fit the model of mechanism underlying alleles distribution within tails of bi-parental populations. They are also a valuable starting point for map-based search of genes underlying detected QTL and for planning advanced marker-assisted multi-trait breeding strategies.Electronic supplementary materialThe online version of this article (doi:10.1007/s13353-017-0396-3) contains supplementary material, which is available to authorized users.

GAMYB gene in rye – sequence, polymorphisms, map location, allele-specific markers and relationship with selected agronomic traits

“…Enhancement of plant, spike and leaf growth by GAMYB is also possible at least as a pleiotropic effect of this potent regulatory gene. Our previous study [18] identified QTL for plant height, thousand-grain weight and awn length within map interval containing ScGAMYB, thus confirming results presented here. Further study of ScGAMYB polymorphisms using wider collection of genetic stocks should bring more information about functions of this gene in various aspects of plant development.…”

“…Functional polymorphisms in GAMYB gene may be an important factor affecting variation of αamylase activity (AA) and possibly other important traits of cereals. This possibility should be explored since wheat, barley and rye chromosome 3 was shown to contain a number of QTL for AA, preharvest sprouting (PHS) and plant height (PH) [14][15][16][17][18][19]. Till now neither ScGAMYB sequence, polymorphisms and map location nor its relationship with agronomic traits have been characterized in rye.…”

Identification of a novel, dominant dwarfing gene (Ddw4) and its effect on morphological traits of rye

“…Backcrossing with cultivar components and selection for dwarfing alleles should clarify this problem. The chromosome 3RL region containing the Ddw4 locus is also a QTL localization place for thousand-kernel weight, kernel length, kernel thickness and kernel number per spike [ 5 ]. Close linkage between these QTL and the dwarfing gene may result in association of grain parameters with plant height, which means that allele compositions in these loci in a short-straw donor line is crucial for the agronomic performance of developed progenies.…”

“…In the majority of the studied mapping populations, plant height shows quantitative variation controlled by complex networks of interacting quantitative loci (QTL), as revealed in rice [ 1 ], wheat [ 2 ], barley [ 3 – 4 ], and rye [ 5 – 7 ]. Because of the high number and small and/or unstable effects, QTL are usually ineffective tools for practical breeding.…”

Dynamic QTL mapping for plant height in the hybrid population of Agropyron Gaertn.

“…There are more cases of similar QTL positions detected in other studies, that is PH on Chr. 1RS, 2RS, 2RL, 3RL and 5RS (Masojć, Milczarski, & Kruszona, 2017; Miedaner et al, 2012; Myśków, Hanek, Banek‐Tabor, Maciorowski, & Stojałowski, 2014). According to the literature collected at present, no QTL controlling PH in wheat, barley or other plants have been reported corresponding to the QTL of controlling PH in A. Gaertn.…”