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      Mapping Quantitative Trait Loci for Agronomic Traits in Winter Wheat under Different Soil Moisture Levels

      Author(s): , , ,
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      Journal: Agronomy
      Publisher: MDPI AG

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          Abstract

          Due to variable moisture conditions in the U.S. Great Plains, it is important to understand genetic control of crop traits under a range of soil moisture levels. Our objective was to identify quantitative trait loci (QTL) for yield, phenology, and morphological traits in wheat (Triticum aestivum L.) under different soil moisture conditions. Field evaluation of a winter wheat doubled haploid population (n = 185) derived from a cross between CO940610 and ‘Platte’ was carried out in Fort Collins and Greeley, Colorado, USA in 2007–2008 and 2008–2009, respectively. At each location, trials were grown under moderate drought stress and fully irrigated conditions. A total of 33 QTL for 11 traits was detected in two or more environments. A cluster of QTL for nine traits was found on chromosome 2B in the vicinity of the photoperiod response gene Ppd-B1. Other stable QTL clusters were detected on chromosome 6A and near the vernalization response gene Vrn-D3 on chromosome 7D. A QTL for grain yield on chromosome 5A was detected in three environments. With minor exceptions, the large-effect QTL were detected in both the water limited and fully irrigated environments, rather than being detected only under specific moisture levels.

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          Heat and drought adaptive QTL in a wheat population designed to minimize confounding agronomic effects

          R. Pinto, Matthew P. Reynolds, Ky L Mathews … (2010)
          A restricted range in height and phenology of the elite Seri/Babax recombinant inbred line (RIL) population makes it ideal for physiological and genetic studies. Previous research has shown differential expression for yield under water deficit associated with canopy temperature (CT). In the current study, 167 RILs plus parents were phenotyped under drought (DRT), hot irrigated (HOT), and temperate irrigated (IRR) environments to identify the genomic regions associated with stress-adaptive traits. In total, 104 QTL were identified across a combination of 115 traits × 3 environments × 2 years, of which 14, 16, and 10 QTL were associated exclusively with DRT, HOT, and IRR, respectively. Six genomic regions were related to a large number of traits, namely 1B-a, 2B-a, 3B-b, 4A-a, 4A-b, and 5A-a. A yield QTL located on 4A-a explained 27 and 17% of variation under drought and heat stress, respectively. At the same location, a QTL explained 28% of the variation in CT under heat, while 14% of CT variation under drought was explained by a QTL on 3B-b. The T1BL.1RS (rye) translocation donated by the Seri parent was associated with decreased yield in this population. There was no co-location of consistent yield and phenology or height-related QTL, highlighting the utility of using a population with a restricted range in anthesis to facilitate QTL studies. Common QTL for drought and heat stress traits were identified on 1B-a, 2B-a, 3B-b, 4A-a, 4B-b, and 7A-a confirming their generic value across stresses. Yield QTL were shown to be associated with components of other traits, supporting the prospects for dissecting crop performance into its physiological and genetic components in order to facilitate a more strategic approach to breeding. Electronic supplementary material The online version of this article (doi:10.1007/s00122-010-1351-4) contains supplementary material, which is available to authorized users.
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            Diversity Arrays Technology (DArT) for whole-genome profiling of barley.

            Peter Wenzl, Jason Carling, David Kudrna … (2004)
            Diversity Arrays Technology (DArT) can detect and type DNA variation at several hundred genomic loci in parallel without relying on sequence information. Here we show that it can be effectively applied to genetic mapping and diversity analyses of barley, a species with a 5,000-Mbp genome. We tested several complexity reduction methods and selected two that generated the most polymorphic genomic representations. Arrays containing individual fragments from these representations generated DArT fingerprints with a genotype call rate of 98.0% and a scoring reproducibility of at least 99.8%. The fingerprints grouped barley lines according to known genetic relationships. To validate the Mendelian behavior of DArT markers, we constructed a genetic map for a cross between cultivars Steptoe and Morex. Nearly all polymorphic array features could be incorporated into one of seven linkage groups (98.8%). The resulting map comprised approximately 385 unique DArT markers and spanned 1,137 centimorgans. A comparison with the restriction fragment length polymorphism-based framework map indicated that the quality of the DArT map was equivalent, if not superior, to that of the framework map. These results highlight the potential of DArT as a generic technique for genome profiling in the context of molecular breeding and genomics.
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              Genome-wide association study for grain yield and related traits in an elite spring wheat population grown in temperate irrigated environments.

              Sivakumar Sukumaran, Susanne Dreisigacker, Marta Lopes … (2015)
              Through genome-wide association study, loci for grain yield and yield components were identified in chromosomes 5A and 6A in spring wheat (Triticum aestivum). Genome-wide association study (GWAS) was conducted for grain yield (YLD) and yield components on a wheat association mapping initiative (WAMI) population of 287 elite, spring wheat lines grown under temperate irrigated high-yield potential condition in Ciudad Obregón, Mexico, during four crop cycles (from 2009-2010 to 2012-2013). The population was genotyped with high-density Illumina iSelect 90K single nucleotide polymorphisms (SNPs) assay. An analysis of traits across subpopulations indicated that lines with 1B/1R translocation had higher YLD, grain weight, and taller plants than lines without the translocation. GWAS using 18,704 SNPs identified 31 loci that explained 5-14 % of the variation in individual traits. We identified SNPs in chromosome 5A and 6A that were significantly associated with yield and yield components. Four loci were detected for YLD in chromosomes 3B, 5A, 5B, and 6A and the locus in 5A explained 5 % of the variation for grain number/m(2). The locus for YLD in chromosome 6A also explained 6 % of the variation in grain weight. Loci significantly associated with maturity were identified in chromosomes 2B, 3B, 4B, 4D, and 6A and for plant height in 1A and 6A. Loci were also detected for canopy temperature at grain filling (2D, 4D, 6A), chlorophyll index at grain filling (3B and 6A), biomass (3D and 6A) and harvest index (1D, 1B, and 3B) that explained 5-10 % variation. These markers will be further validated.
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                Author and article information

                Journal
                Journal ID (publisher-id): ABSGGL
                Title: Agronomy
                Abbreviated Title: Agronomy
                Publisher: MDPI AG
                ISSN (Electronic): 2073-4395
                Publication date Created: August 2018
                Publication date (Electronic): July 31 2018
                Volume: 8
                Issue: 8
                Page: 133
                Article
                DOI: 10.3390/agronomy8080133
                SO-VID: 677caa4e-6964-42dd-8040-1fd1a376eaec
                Copyright © © 2018
                License:

                https://creativecommons.org/licenses/by/4.0/

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