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wheat breeding and genetics

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https://www.readbyqxmd.com/read/28099442/a-whole-genome-dartseq-and-snp-analysis-for-genetic-diversity-assessment-in-durum-wheat-from-central-fertile-crescent
#1
Faheem Shehzad Baloch, Ahmad Alsaleh, Muhammad Qasim Shahid, Vahdettin Çiftçi, Luis E Sáenz de Miera, Muhammad Aasim, Muhammad Azhar Nadeem, Husnu Aktaş, Hakan Özkan, Rüştü Hatipoğlu
Until now, little attention has been paid to the geographic distribution and evaluation of genetic diversity of durum wheat from the Central Fertile Crescent (modern-day Turkey and Syria). Turkey and Syria are considered as primary centers of wheat diversity, and thousands of locally adapted wheat landraces are still present in the farmers' small fields. We planned this study to evaluate the genetic diversity of durum wheat landraces from the Central Fertile Crescent by genotyping based on DArTseq and SNP analysis...
2017: PloS One
https://www.readbyqxmd.com/read/28073950/differential-coupling-of-gibberellin-responses-by-rht-b1c-suppressor-alleles-and-rht-b1b-in-wheat-highlights-a-unique-role-for-the-della-n-terminus-in-dormancy
#2
Karel Van De Velde, Peter Michael Chandler, Dominique Van Der Straeten, Antje Rohde
During the Green Revolution, substantial increases in wheat (Triticum aestivum) yields were realized, at least in part, through the introduction of the Reduced height (Rht)-B1b and Rht-D1b semi-dwarfing alleles. In contrast to Rht-B1b and Rht-D1b, the Rht-B1c allele is characterized by extreme dwarfism and exceptionally strong dormancy. Recently, 35 intragenic Rht-B1c suppressor alleles were created in the spring wheat cultivar Maringá, and termed overgrowth (ovg) alleles. Here, 14 ovg alleles with agronomically relevant plant heights were reproducibly classified into nine tall and five semi-dwarf alleles...
January 10, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/28072876/genetic-nature-of-elemental-contents-in-wheat-grains-and-its-genomic-prediction-toward-the-effective-use-of-wheat-landraces-from-afghanistan
#3
Alagu Manickavelu, Tomohiro Hattori, Shuhei Yamaoka, Kazusa Yoshimura, Youichi Kondou, Akio Onogi, Minami Matsui, Hiroyoshi Iwata, Tomohiro Ban
Profiling elemental contents in wheat grains and clarifying the underlying genetic systems are important for the breeding of biofortified crops. Our objective was to evaluate the genetic potential of 269 Afghan wheat landraces for increasing elemental contents in wheat cultivars. The contents of three major (Mg, K, and P) and three minor (Mn, Fe, and Zn) elements in wheat grains were measured by energy dispersive X-ray fluorescence spectrometry. Large variations in elemental contents were observed among landraces...
2017: PloS One
https://www.readbyqxmd.com/read/28055148/genome-wide-association-study-for-13-agronomic-traits-reveals-distribution-of-superior-alleles-in-bread-wheat-from-the-yellow-and-huai-valley-of-china
#4
Congwei Sun, Fuyan Zhang, Xuefang Yan, Xiangfen Zhang, Zhongdong Dong, Dangqun Cui, Feng Chen
Bread wheat is a leading cereal crop worldwide. Limited amount of superior allele loci restricted the progress of molecular improvement in wheat breeding. Here we revealed new allelic variation distribution for 13 yield-related traits in series of genome-wide association studies (GWAS) using the Wheat 90K genotyping assay, characterized in 163 bread wheat cultivars. Agronomic traits were investigated in 14 environments at three locations over three years. After filtering SNP datasets, GWAS using 20,689 high-quality SNPs associated 1,769 significant loci that explained, on average, ~20% of the phenotypic variation, both detected already reported loci and new promising genomic regions...
January 5, 2017: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/28044314/allelic-variations-and-differential-expressions-detected-at-qtl-loci-for-salt-stress-tolerance-in-wheat
#5
Benedict C Oyiga, Ram C Sharma, Michael Baum, Francis C Ogbonnaya, Jens Léon, Agim Ballvora
The increasing salinization of agricultural lands is a threat to global wheat production. Understanding of the mechanistic basis of salt tolerance (ST) is essential for developing breeding and selection strategies that would allow for increased wheat production under saline conditions to meet the increasing global demand. We used a set of 150 diversity panel genotyped with 90 K SNP Chip and phenotyped for ST across three growth stages and for ionic (leaf K(+) and Na(+) contents) traits to dissect the genetic architecture regulating ST in wheat...
January 3, 2017: Plant, Cell & Environment
https://www.readbyqxmd.com/read/28018844/wheat-quality-improvement-at-cimmyt-and-the-use-of-genomic-selection-on-it
#6
REVIEW
Carlos Guzman, Roberto Javier Peña, Ravi Singh, Enrique Autrique, Susanne Dreisigacker, Jose Crossa, Jessica Rutkoski, Jesse Poland, Sarah Battenfield
The International Center for Maize and Wheat Improvement (CIMMYT) leads the Global Wheat Program, whose main objective is to increase the productivity of wheat cropping systems to reduce poverty in developing countries. The priorities of the program are high grain yield, disease resistance, tolerance to abiotic stresses (drought and heat), and desirable quality. The Wheat Chemistry and Quality Laboratory has been continuously evolving to be able to analyze the largest number of samples possible, in the shortest time, at lowest cost, in order to deliver data on diverse quality traits on time to the breeders for making selections for advancement in the breeding pipeline...
December 2016: Applied & Translational Genomics
https://www.readbyqxmd.com/read/28004134/genetic-analysis-and-mapping-of-adult-plant-resistance-loci-to-leaf-rust-in-durum-wheat-cultivar-bairds
#7
Caixia Lan, Bhoja R Basnet, Ravi P Singh, Julio Huerta-Espino, Sybil A Herrera-Foessel, Yong Ren, Mandeep S Randhawa
New leaf rust adult plant resistance (APR) QTL QLr.cim - 6BL was mapped and confirmed the known pleotropic APR gene Lr46 effect on leaf rust in durum wheat line Bairds. CIMMYT-derived durum wheat line Bairds displays an adequate level of adult plant resistance (APR) to leaf rust in Mexican field environments. A recombinant inbred line (RIL) population developed from a cross of Bairds with susceptible parent Atred#1 was phenotyped for leaf rust response at Ciudad Obregon, Mexico, during 2013, 2014, 2015 and 2016 under artificially created epidemics of Puccinia triticina (Pt) race BBG/BP...
December 21, 2016: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/27999580/methodology-for-high-throughput-field-phenotyping-of-canopy-temperature-using-airborne-thermography
#8
David M Deery, Greg J Rebetzke, Jose A Jimenez-Berni, Richard A James, Anthony G Condon, William D Bovill, Paul Hutchinson, Jamie Scarrow, Robert Davy, Robert T Furbank
Lower canopy temperature (CT), resulting from increased stomatal conductance, has been associated with increased yield in wheat. Historically, CT has been measured with hand-held infrared thermometers. Using the hand-held CT method on large field trials is problematic, mostly because measurements are confounded by temporal weather changes during the time required to measure all plots. The hand-held CT method is laborious and yet the resulting heritability low, thereby reducing confidence in selection in large scale breeding endeavors...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27995275/genome-wide-mapping-and-prediction-suggests-presence-of-local-epistasis-in-a-vast-elite-winter-wheat-populations-adapted-to-central-europe
#9
Sang He, Jochen C Reif, Viktor Korzun, Reiner Bothe, Erhard Ebmeyer, Yong Jiang
Genome-wide association mapping as well as marker- and haplotype-based genome-wide selection unraveled a complex genetic architecture of grain yield with absence of large effect QTL and presence of local epistatic effects. The genetic architecture of grain yield determines to a large extent the optimum design of genomic-assisted wheat breeding programs. The main goal of our study was to examine the potential and limitations to dissect the genetic architecture of grain yield in wheat using a large experimental data set...
December 19, 2016: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/27978816/genotype-by-sequencing-facilitates-genetic-mapping-of-a-stem-rust-resistance-locus-in-aegilops-umbellulata-a-wild-relative-of-cultivated-wheat
#10
Erena A Edae, Pablo D Olivera, Yue Jin, Jesse A Poland, Matthew N Rouse
BACKGROUND: Wild relatives of wheat play a significant role in wheat improvement as a source of genetic diversity. Stem rust disease of wheat causes significant yield losses at the global level and stem rust pathogen race TTKSK (Ug99) is virulent to most previously deployed resistance genes. Therefore, the objective of this study was to identify loci conferring resistance to stem rust pathogen races including Ug99 in an Aegilops umbelluata bi-parental mapping population using genotype-by-sequencing (GBS) SNP markers...
December 15, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27942031/evaluation-of-19-460-wheat-accessions-conserved-in-the-indian-national-genebank-to-identify-new-sources-of-resistance-to-rust-and-spot-blotch-diseases
#11
Sundeep Kumar, Sunil Archak, R K Tyagi, Jagdish Kumar, Vikas Vk, Sherry R Jacob, Kalyani Srinivasan, J Radhamani, R Parimalan, M Sivaswamy, Sandhya Tyagi, Mamata Yadav, Jyotisna Kumari, Deepali, Sandeep Sharma, Indoo Bhagat, Madhu Meeta, N S Bains, A K Chowdhury, B C Saha, P M Bhattacharya, Jyoti Kumari, M C Singh, O P Gangwar, P Prasad, S C Bharadwaj, Robin Gogoi, J B Sharma, Sandeep Kumar Gm, M S Saharan, Manas Bag, Anirban Roy, T V Prasad, R K Sharma, M Dutta, Indu Sharma, K C Bansal
A comprehensive germplasm evaluation study of wheat accessions conserved in the Indian National Genebank was conducted to identify sources of rust and spot blotch resistance. Genebank accessions comprising three species of wheat-Triticum aestivum, T. durum and T. dicoccum were screened sequentially at multiple disease hotspots, during the 2011-14 crop seasons, carrying only resistant accessions to the next step of evaluation. Wheat accessions which were found to be resistant in the field were then assayed for seedling resistance and profiled using molecular markers...
2016: PloS One
https://www.readbyqxmd.com/read/27933261/efficient-regeneration-system-from-rye-leaf-base-segments
#12
Kamil Haliloglu, Murat Aydin
Rye is second only to wheat among grains most widely used in the making of bread and is also a very important gene resource for breeding and improvement of wheat and other cereal crops owing to tolerance to abiotic stress factors such as low temperatures, drought and poor soil conditions. However, application of biotechnologies has been limited in rye breeding since it is one of the most recalcitrant species in tissue culture. A simple and fast regeneration system from leaf-base segment explant of rye was developed in this study...
2016: SpringerPlus
https://www.readbyqxmd.com/read/27929044/salt-tolerance-during-germination-and-seedling-growth-of-wild-wheat-aegilops-tauschii-and-its-impact-on-the-species-range-expansion
#13
Daisuke Saisho, Shigeo Takumi, Yoshihiro Matsuoka
Adaptation to edaphic stress may have a key role in plant species range expansion. Aegilops tauschii Coss., the common wheat's D-genome progenitor native to the Transcaucasus-Middle East region, is a good model to study the relationships between soil salinity and plant distributions: one of its intraspecific sublineages, TauL1b, drove the long-distance eastward expansion of this species range reaching semi-arid-central Asia. Salt tolerance during germination and seedling growth was evaluated in 206 Ae. tauschii accessions by treating seeds with NaCl solutions differing in concentrations...
December 8, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27918628/phenotypic-and-genome-wide-association-analysis-of-spike-ethylene-in-diverse-wheat-genotypes-under-heat-stress
#14
Ravi Valluru, Matthew P Reynolds, William J Davies, Sivakumar Sukumaran
The gaseous phytohormone ethylene plays an important role in spike development in wheat (Triticum aestivum). However, the genotypic variation and the genomic regions governing spike ethylene (SET) production in wheat under long-term heat stress remain unexplored. We investigated genotypic variation in the production of SET and its relationship with spike dry weight (SDW) in 130 diverse wheat elite lines and landraces under heat-stressed field conditions. We employed an Illumina iSelect 90K single nucleotide polymorphism (SNP) genotyping array to identify the genetic loci for SET and SDW through a genome-wide association study (GWAS) in a subset of the Wheat Association Mapping Initiative (WAMI) panel...
December 5, 2016: New Phytologist
https://www.readbyqxmd.com/read/27918076/genome-wide-association-analyses-of-54-traits-identified-multiple-loci-for-the-determination-of-floret-fertility-in-wheat
#15
Zifeng Guo, Dijun Chen, Ahmad M Alqudah, Marion S Röder, Martin W Ganal, Thorsten Schnurbusch
Increasing grain yield is still the main target of wheat breeding; yet today's wheat plants utilize less than half of their yield potential. Owing to the difficulty of determining grain yield potential in a large population, few genetic factors regulating floret fertility (i.e. the difference between grain yield potential and grain number) have been reported to date. In this study, we conducted a genome-wide association study (GWAS) by quantifying 54 traits (16 floret fertility traits and 38 traits for assimilate partitioning and spike morphology) in 210 European winter wheat accessions...
December 5, 2016: New Phytologist
https://www.readbyqxmd.com/read/27903632/genomic-prediction-with-pedigree-and-genotype-%C3%A3-environment-interaction-in-spring-wheat-grown-in-south-and-west-asia-north-africa-and-mexico
#16
Sivakumar Sukumaran, Jose Crossa, Diego Jarquin, Marta Lopes, Mathew P Reynolds
Developing genomic selection (GS) models is an important step in applying GS to accelerate the rate of genetic gain in grain yield in plant breeding. In this study, seven genomic prediction models under two cross-validation scenarios were tested on 287 advanced elite spring wheat lines phenotyped for grain yield (GY), thousand-grain weight (GW), grain number (GN), and thermal time for flowering (TTF) in 18 international environments (year-location combinations) in major wheat producing countries in 2010 and 2011...
November 30, 2016: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/27898810/genomic-selection-for-processing-and-end-use-quality-traits-in-the-cimmyt-spring-bread-wheat-breeding-program
#17
Sarah D Battenfield, Carlos Guzmán, R Chris Gaynor, Ravi P Singh, Roberto J Peña, Susanne Dreisigacker, Allan K Fritz, Jesse A Poland
Wheat ( L.) cultivars must possess suitable end-use quality for release and consumer acceptability. However, breeding for quality traits is often considered a secondary target relative to yield largely because of amount of seed needed and expense. Without testing and selection, many undesirable materials are advanced, expending additional resources. Here, we develop and validate whole-genome prediction models for end-use quality phenotypes in the CIMMYT bread wheat breeding program. Model accuracy was tested using forward prediction on breeding lines ( = 5520) tested in unbalanced yield trials from 2009 to 2015 at Ciudad Obregon, Sonora, Mexico...
July 2016: Plant Genome
https://www.readbyqxmd.com/read/27898771/dissection-of-genetic-factors-underlying-wheat-kernel-shape-and-size-in-an-elite-%C3%A3-nonadapted-cross-using-a-high-density-snp-linkage-map
#18
Ajay Kumar, E E Mantovani, R Seetan, A Soltani, M Echeverry-Solarte, S Jain, S Simsek, D Doehlert, M S Alamri, E M Elias, S F Kianian, M Mergoum
Wheat kernel shape and size has been under selection since early domestication. Kernel morphology is a major consideration in wheat breeding, as it impacts grain yield and quality. A population of 160 recombinant inbred lines (RIL), developed using an elite (ND 705) and a nonadapted genotype (PI 414566), was extensively phenotyped in replicated field trials and genotyped using Infinium iSelect 90K assay to gain insight into the genetic architecture of kernel shape and size. A high density genetic map consisting of 10,172 single nucleotide polymorphism (SNP) markers, with an average marker density of 0...
March 2016: Plant Genome
https://www.readbyqxmd.com/read/27898760/exploiting-the-repetitive-fraction-of-the-wheat-genome-for-high-throughput-single-nucleotide-polymorphism-discovery-and-genotyping
#19
Nelly Cubizolles, Elodie Rey, Frédéric Choulet, Hélène Rimbert, Christel Laugier, François Balfourier, Jacques Bordes, Charles Poncet, Peter Jack, Chris James, Jan Gielen, Odile Argillier, Jean-Pierre Jaubertie, Jérôme Auzanneau, Antje Rohde, Pieter B F Ouwerkerk, Viktor Korzun, Sonja Kollers, Laurent Guerreiro, Delphine Hourcade, Olivier Robert, Pierre Devaux, Anna-Maria Mastrangelo, Catherine Feuillet, Pierre Sourdille, Etienne Paux
Transposable elements (TEs) account for more than 80% of the wheat genome. Although they represent a major obstacle for genomic studies, TEs are also a source of polymorphism and consequently of molecular markers such as insertion site-based polymorphism (ISBP) markers. Insertion site-based polymorphisms have been found to be a great source of genome-specific single-nucleotide polymorphism (SNPs) in the hexaploid wheat ( L.) genome. Here, we report on the development of a high-throughput SNP discovery approach based on sequence capture of ISBP markers...
March 2016: Plant Genome
https://www.readbyqxmd.com/read/27898754/genome-wide-association-mapping-of-fusarium-head-blight-resistance-in-wheat-using-genotyping-by-sequencing
#20
Marcio P Arruda, Patrick Brown, Gina Brown-Guedira, Allison M Krill, Carrie Thurber, Keith R Merrill, Bradley J Foresman, Frederic L Kolb
Fusarium head blight (FHB) is one of the most important wheat ( L.) diseases worldwide, and host resistance displays complex genetic control. A genome-wide association study (GWAS) was performed on 273 winter wheat breeding lines from the midwestern and eastern regions of the United States to identify chromosomal regions associated with FHB resistance. Genotyping-by-sequencing (GBS) was used to identify 19,992 single-nucleotide polymorphisms (SNPs) covering all 21 wheat chromosomes. Marker-trait associations were performed with different statistical models, the most appropriate being a compressed mixed linear model (cMLM) controlling for relatedness and population structure...
March 2016: Plant Genome
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