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Marker assisted selection

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https://www.readbyqxmd.com/read/28634484/manipulation-of-metabolic-pathways-to-develop-vitamin-enriched-crops-for-human-health
#1
REVIEW
Ling Jiang, Weixuan Wang, Tong Lian, Chunyi Zhang
Vitamin deficiencies are major forms of micronutrient deficiencies, and are associated with huge economic losses as well as severe physical and intellectual damages to humans. Much evidence has demonstrated that biofortification plays an important role in combating vitamin deficiencies due to its economical and effective delivery of nutrients to populations in need. Biofortification enables food plants to be enriched with vitamins through conventional breeding and/or biotechnology. Here, we focus on the progress in the manipulation of the vitamin metabolism, an essential part of biofortification, by the genetic modification or by the marker-assisted selection to understand mechanisms underlying metabolic improvement in food plants...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28633351/data-compression-can-discriminate-broilers-by-selection-line-detect-haplotypes-and-estimate-genetic-potential-for-complex-phenotypes
#2
N J Hudson, R J Hawken, R Okimoto, R L Sapp, A Reverter
Accurately establishing the relationships among individuals lays the foundation for genetic analyses such as genome-wide association studies and identification of selection signatures. Of particular interest to the poultry industry are estimates of genetic merit based on molecular data. These estimates can be commercially exploited in marker-assisted breeding programs to accelerate genetic improvement. Here, we test the utility of a new method we have recently developed to estimate animal relatedness and applied it to genetic parameter estimation in commercial broilers...
June 15, 2017: Poultry Science
https://www.readbyqxmd.com/read/28630621/development-of-snp-genotyping-assays-for-seed-composition-traits-in-soybean
#3
Gunvant Patil, Juhi Chaudhary, Tri D Vuong, Brian Jenkins, Dan Qiu, Suhas Kadam, Grover J Shannon, Henry T Nguyen
Seed composition is one of the most important determinants of the economic values in soybean. The quality and quantity of different seed components, such as oil, protein, and carbohydrates, are crucial ingredients in food, feed, and numerous industrial products. Soybean researchers have successfully developed and utilized a diverse set of molecular markers for seed trait improvement in soybean breeding programs. It is imperative to design and develop molecular assays that are accurate, robust, high-throughput, cost-effective, and available on a common genotyping platform...
2017: International Journal of Plant Genomics
https://www.readbyqxmd.com/read/28628238/a-genome-wide-association-study-of-23-agronomic-traits-in-chinese-wheat-landraces
#4
Yaxi Liu, Yu Lin, Shang Gao, Zhanyi Li, Jian Ma, Mei Deng, Guoyue Chen, Yuming Wei, Youliang Zheng
Uncovering the genetic basis of agronomic traits in wheat landraces is important for ensuring global food security via the development of improved varieties. Here, 723 wheat landraces from 10 Chinese agro-ecological zones were evaluated for 23 agronomic traits in six environments. All accessions could be clustered into five subgroups based on phenotypic data via discriminant function analysis, which was highly consistent with genotypic classification. A genome-wide association study was conducted for these traits using 52,303 DArT-seq markers to identify marker-trait associations and candidate genes...
June 19, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28626463/cereal-crop-proteomics-systemic-analysis-of-crop-drought-stress-responses-towards-marker-assisted-selection-breeding
#5
REVIEW
Arindam Ghatak, Palak Chaturvedi, Wolfram Weckwerth
Sustainable crop production is the major challenge in the current global climate change scenario. Drought stress is one of the most critical abiotic factors which negatively impact crop productivity. In recent years, knowledge about molecular regulation has been generated to understand drought stress responses. For example, information obtained by transcriptome analysis has enhanced our knowledge and facilitated the identification of candidate genes which can be utilized for plant breeding. On the other hand, it becomes more and more evident that the translational and post-translational machinery plays a major role in stress adaptation, especially for immediate molecular processes during stress adaptation...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28624908/development-and-validation-of-kasp-markers-for-the-greenbug-resistance-gene-gb7-and-the-hessian-fly-resistance-gene-h32-in-wheat
#6
Chor-Tee Tan, Hangjin Yu, Yan Yang, Xiangyang Xu, Mingshun Chen, Jackie C Rudd, Qingwu Xue, Amir M H Ibrahim, Lisa Garza, Shichen Wang, Mark E Sorrells, Shuyu Liu
Greenbug and Hessian fly are important pests that decrease wheat production worldwide. We developed and validated breeder-friendly KASP markers for marker-assisted breeding to increase selection efficiency. Greenbug (Schizaphis graminum Rondani) and Hessian fly [Mayetiola destructor (Say)] are two major destructive insect pests of wheat (Triticum aestivum L.) throughout wheat production regions in the USA and worldwide. Greenbug and Hessian fly infestation can significantly reduce grain yield and quality. Breeding for resistance to these two pests using marker-assisted selection (MAS) is the most economical strategy to minimize losses...
June 17, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28620209/using-variable-importance-measures-to-identify-a-small-set-of-snps-to-predict-heading-date-in-perennial-ryegrass
#7
Stephen L Byrne, Patrick Conaghan, Susanne Barth, Sai Krishna Arojju, Michael Casler, Thibauld Michel, Janaki Velmurugan, Dan Milbourne
Prior knowledge on heading date enables the selection of parents of synthetic cultivars that are well matched with respect to time of heading, which is essential to ensure plants put together will cross pollinate. Heading date of individual plants can be determined via direct phenotyping, which has a time and labour cost. It can also be inferred from family means, although the spread in days to heading within families demands roguing in first generation synthetics. Another option is to predict heading date from molecular markers...
June 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28616692/a-minimally-invasive-method-for-profiling-volatile-organic-compounds-within-postmortem-internal-gas-reservoirs
#8
Katelynn A Perrault, Pierre-Hugues Stefanuto, Lena M Dubois, Vincent Varlet, Silke Grabherr, Jean-François Focant
In forensic casework, non-invasive and minimally-invasive methods for postmortem examinations are extremely valuable. Whole body postmortem computed tomography (PMCT) is often used to provide visualization of the internal characteristics of a body prior to more invasive procedures and has also been used to locate gas reservoirs inside the body to assist in determining cause of death. Preliminary studies have demonstrated that exploiting the volatile organic compounds (VOCs) located in these gas reservoirs by comprehensive two-dimensional gas chromatography-high-resolution time-of-flight mass spectrometry (GC×GC-HRTOF-MS) may assist in providing information regarding the postmortem interval...
June 15, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28615065/genome-wide-association-study-and-genomic-prediction-for-fatty-acid-composition-in-chinese-simmental-beef-cattle-using-high-density-snp-array
#9
Bo Zhu, Hong Niu, Wengang Zhang, Zezhao Wang, Yonghu Liang, Long Guan, Peng Guo, Yan Chen, Lupei Zhang, Yong Guo, Heming Ni, Xue Gao, Huijiang Gao, Lingyang Xu, Junya Li
BACKGROUND: Fatty acid composition of muscle is an important trait contributing to meat quality. Recently, genome-wide association study (GWAS) has been extensively used to explore the molecular mechanism underlying important traits in cattle. In this study, we performed GWAS using high density SNP array to analyze the association between SNPs and fatty acids and evaluated the accuracy of genomic prediction for fatty acids in Chinese Simmental cattle. RESULTS: Using the BayesB method, we identified 35 and 7 regions in Chinese Simmental cattle that displayed significant associations with individual fatty acids and fatty acid groups, respectively...
June 14, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28611814/mapping-and-preliminary-analysis-of-aborted-microspores-ams-as-the-candidate-gene-underlying-the-male-sterility-ms-5-mutant-in-melon-cucumis-melo-l
#10
Yunyan Sheng, Yudan Wang, Shiqi Jiao, Yazhong Jin, Peng Ji, Feishi Luan
Melon is an important agricultural and economic vegetable crop worldwide. The genetic male sterility mutant (ms-5) has a recessive nuclear gene that controls the male sterility germplasm. Male sterility could reduce the cost of F1 seed production in melon, but heterozygous fertile plants should be removed before pollination. In this study, bulked segregant analysis combined with specific length amplified fragment sequencing was applied to map the single nuclear male sterility recessive gene. A 30-kb candidate region on chromosome 9 located on scaffold 000048 and spanning 2,522,791 to 2,555,104 bp was identified and further confirmed by cleavage amplified polymorphic sequence markers based on parental line resequencing data and classical mapping of 252 F2 individuals...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28608948/utilization-of-uplc-q-tof-ms-based-metabolomics-and-aflp-based-marker-assisted-selection-to-facilitate-assist-conventional-breeding-of-polygala-tenuifolia
#11
Juan Li, Dan-Dan Wang, Xiao-Shuang Xu, Lu Bai, Bing Peng, Ya-Jie Pu, Hong-Ling Tian, Xue-Mei Qin, Fu-Sheng Zhang, Cun-Gen Ma
As one of the most important traditional Chinese medicine, the quality of Polygala tenuifolia is difficult to control and a new method must be established to facilitate/assist the breeding of P. tenuifolia. In this study, UPLC/Q-TOF MS-based metabolomics analysis was performed to determine the chemical composition and screen metabolite biomarkers according to agronomic traits. A total of 29 compounds and 18 metabolite biomarkers were found. AFLP-based marker-assisted selection (MAS) was used to identify molecular marker bands and screen characteristic bands associated with specific agronomic traits...
June 13, 2017: Chemistry & Biodiversity
https://www.readbyqxmd.com/read/28607074/carbohydrate-microarrays-and-their-use-for-the-identification-of-molecular-markers-for-plant-cell-wall-composition
#12
Ian P Wood, Bruce M Pearson, Enriqueta Garcia-Gutierrez, Lenka Havlickova, Zhesi He, Andrea L Harper, Ian Bancroft, Keith W Waldron
Genetic improvement of the plant cell wall has enormous potential to increase the quality of food, fibers, and fuels. However, the identification and characterization of genes involved in plant cell wall synthesis is far from complete. Association mapping is one of the few techniques that can help identify candidate genes without relying on our currently incomplete knowledge of cell wall synthesis. However, few cell wall phenotyping methodologies have proven sufficiently precise, robust, or scalable for association mapping to be conducted for specific cell wall polymers...
June 12, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28600722/genetic-dissection-of-plant-growth-habit-in-chickpea
#13
Hari D Upadhyaya, Deepak Bajaj, Rishi Srivastava, Anurag Daware, Udita Basu, Shailesh Tripathi, Chellapilla Bharadwaj, Akhilesh K Tyagi, Swarup K Parida
A combinatorial genomics-assisted breeding strategy encompassing association analysis, genetic mapping and expression profiling is found most promising for quantitative dissection of complex traits in crop plants. The present study employed GWAS (genome-wide association study) using 24,405 SNPs (single nucleotide polymorphisms) obtained with genotyping-by-sequencing (GBS) of 92 sequenced desi and kabuli accessions of chickpea. This identified eight significant genomic loci associated with erect (E)/semi-erect (SE) vs...
June 9, 2017: Functional & Integrative Genomics
https://www.readbyqxmd.com/read/28596779/characterization-of-aldehyde-oxidase-ao-genes-involved-in-the-accumulation-of-carotenoid-pigments-in-wheat-grain
#14
Pasqualina Colasuonno, Ilaria Marcotuli, Maria L Lozito, Rosanna Simeone, Antonio Blanco, Agata Gadaleta
Aldehyde Oxidase (AO) enzyme (EC 1.2.3.1) catalyzes the final steps of carotenoid catabolism and it is a key enzyme in the abscisic acid (ABA) biosynthesis. AO isoforms are located in the cytosolic compartment of tissues in many plants, where induce the oxidation of aldehydes into carboxylic acid, and in addition, catalyze the hydroxylation of some heterocycles. The goal of the present study was to characterize the AO genes involved in the accumulation of carotenoid pigments in wheat grain, an important quantitative trait controlled by multiple genes...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28596776/genome-wide-association-mapping-of-loci-associated-with-plant-growth-and-forage-production-under-salt-stress-in-alfalfa-medicago-sativa-l
#15
Xiang-Ping Liu, Long-Xi Yu
Salinity tolerance is highly desirable to sustain alfalfa production in marginal lands that have been rendered saline. In this study, we used a diverse panel of 198 alfalfa accessions for mapping loci associated with plant growth and forage production under salt stress using genome-wide association studies (GWAS). The plants were genotyped using genotyping-by-sequencing (GBS). A greenhouse procedure was used for phenotyping four agronomic and physiological traits affected by salt stress, including dry weight (DW), plant height (PH), leaf chlorophyll content (LCC), and stomatal conductance (SC)...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28590463/prediction-and-association-mapping-of-agronomic-traits-in-maize-using-multiple-omic-data
#16
Y Xu, C Xu, S Xu
Genomic selection holds a great promise to accelerate plant breeding via early selection before phenotypes are measured, and it offers major advantages over marker-assisted selection for highly polygenic traits. In addition to genomic data, metabolome and transcriptome are increasingly receiving attention as new data sources for phenotype prediction. We used data available from maize as a model to compare the predictive abilities of three different omic data sources using eight representative methods for six traits...
June 7, 2017: Heredity
https://www.readbyqxmd.com/read/28589757/quantitative-trait-loci-for-slow-rusting-resistance-to-leaf-rust-in-doubled-haploid-wheat-population-ci13227-x-lakin
#17
Yue Lu, Robert Bowden, Guorong Zhang, Xiangyang Xu, Allan Fritz, Guihua Bai
CI13227 is a US winter wheat line with adult-plant slow-rusting resistance that has been the subject of several studies on the characteristics and components of slow-rusting. Previous genetic studies used different populations and approaches and came to different conclusions about the genetic basis of resistance in CI13227. To clarify the situation, a new doubled haploid (DH) population of CI13227 x Lakin was produced and a linkage map was constructed using 5570 single nucleotide polymorphism (SNP) markers derived from wheat 90K SNP assays and 84 simple sequence repeat (SSR) markers...
June 7, 2017: Phytopathology
https://www.readbyqxmd.com/read/28588598/genetic-gains-in-grain-yield-of-a-maize-population-improved-through-marker-assisted-recurrent-selection-under-stress-and-non-stress-conditions-in-west-africa
#18
Rekiya O Abdulmalik, Abebe Menkir, Silvestro K Meseka, Nnanna Unachukwu, Shehu G Ado, Joseph D Olarewaju, Daniel A Aba, Sarah Hearne, Jose Crossa, Melaku Gedil
Marker-assisted recurrent selection (MARS) is a breeding method used to accumulate favorable alleles that for example confer tolerance to drought in inbred lines from several genomic regions within a single population. A bi-parental cross formed from two parents that combine resistance to Striga hermonthica with drought tolerance, which was improved through MARS, was used to assess changes in the frequency of favorable alleles and its impact on inbred line improvement. A total of 200 testcrosses of randomly selected S1 lines derived from the original (C0) and advanced selection cycles of this bi-parental population, were evaluated under drought stress (DS) and well-watered (WW) conditions at Ikenne and under artificial Striga infestation at Abuja and Mokwa in Nigeria in 2014 and 2015...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28588394/the-two-row-malting-barley-cultivar-new-sachiho-golden-with-null-lipoxygenase-1-improves-flavor-stability-in-beer-and-was-developed-by-marker-assisted-selection
#19
Mika Oozeki, Toshinori Sotome, Naoto Haruyama, Masahiro Yamaguchi, Hirohisa Watanabe, Takeshi Okiyama, Tsuneo Kato, Toshiyuki Takayama, Makoto Oyama, Takashi Nagamine, Yasuo Suzuki, Takako Toyoshima, Takahiro Sekiwa, Kaori Oono, Tetsuya Saito, Masao Usui, Shin Arai, Terunobu Kumekawa, Emiko Suzuki, Kaori Shirama, Makoto Kihara, Takehiro Hoki, Hideki Matsubara, Ryo Ohsawa
Lipoxygenase-1 (LOX-1) null 'New Sachiho Golden' is a two-row malting barley (Hordeum vulgare L.) cultivar released in 2015 that was developed at the Tochigi Prefectural Agricultural Experimental Station by backcross breeding using the high-yield leading cultivar 'Sachiho Golden' as a recurrent parent and the LOX-1 null mutant 'Daikei LM1' as a non-recurrent parent. To develop 'New Sachiho Golden' we used a simple LOX activity assay and marker-assisted selection. This is the first LOX-1 null malting barley cultivar in Japan that is resistant to barley yellow mosaic virus (types I-III)...
March 2017: Breeding Science
https://www.readbyqxmd.com/read/28588389/microsatellite-markers-for-the-triticum-timopheevi-derived-leaf-rust-resistance-gene-lr18-on-wheat-5bl-chromosome
#20
Ali Aliakbari Sadeghabad, Ali Dadkhodaie, Bahram Heidari, Hooman Razi, Reza Mostowfizadeh-Ghalamfarsa
Leaf rust, caused by Puccinia triticina, is a common wheat disease worldwide. Developing resistant cultivars through deploying new or pyramiding resistance genes in a suitable line, is the most effective approach to control this disease. However, to stack genes in a genotype, efficient and reliable markers are required. In the present study, F2 plants and their corresponding F3 families from a cross between the resistant line; Thatcher (Tc) Lr18, and the susceptible cultivar 'Boolani' were used to map rust resistance gene, Lr18 using SSR markers on chromosome 5BL of hexaploid wheat...
March 2017: Breeding Science
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