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Marker assisted selection

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https://www.readbyqxmd.com/read/28544181/the-k-2-conundrum
#1
Jasmine K Janes, Joshua M Miller, Julian R Dupuis, René M Malenfant, Jamieson C Gorrell, Catherine I Cullingham, Rose L Andrew
Assessments of population genetic structure have become an increasing focus as they can provide valuable insight into patterns of migration and gene flow. STRUCTURE, the most highly cited of several clustering-based methods, was developed to provide robust estimates without the need for populations to be determined a priori. STRUCTURE introduces the problem of selecting the optimal number of clusters and as a result the ΔK method was proposed to assist in the identification of the 'true' number of clusters...
May 21, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28542571/quantitative-trait-loci-for-yield-and-grain-plumpness-relative-to-maturity-in-three-populations-of-barley-hordeum-vulgare-l-grown-in-a-low-rain-fall-environment
#2
Bulti Tesso Obsa, Jason Eglinton, Stewart Coventry, Timothy March, Maxime Guillaume, Thanh Phuoc Le, Matthew Hayden, Peter Langridge, Delphine Fleury
Identifying yield and grain plumpness QTL that are independent of developmental variation or phenology is of paramount importance for developing widely adapted and stable varieties through the application of marker assisted selection. The current study was designed to dissect the genetic basis of yield performance and grain plumpness in southern Australia using three doubled haploid (DH) populations developed from crosses between adapted parents that are similar in maturity and overall plant development. Three interconnected genetic populations, Commander x Fleet (CF), Commander x WI4304 (CW), and Fleet x WI4304 (FW) developed from crossing of Australian elite barley genotypes, were used to map QTL controlling yield and grain plumpness...
2017: PloS One
https://www.readbyqxmd.com/read/28542267/discerning-morpho-anatomical-physiological-and-molecular-multiformity-in-cultivated-and-wild-genotypes-of-lentil-with-reconciliation-to-salinity-stress
#3
Dharmendra Singh, Chandan Kumar Singh, Shanti Kumari, Ram Sewak Singh Tomar, Sourabh Karwa, Rajendra Singh, Raja Bahadur Singh, Susheel Kumar Sarkar, Madan Pal
One hundred and sixty two genotypes of different Lens species were screened for salinity tolerance in hydroponics at 40, 80 and 120 mM sodium chloride (NaCl) for 30 d. The germination, seedling growth, biomass accumulation, seedling survivability, salinity scores, root and shoot anatomy, sodium ion (Na+), chloride ion (Cl-) and potassium ion (K+) concentrations, proline and antioxidant activities were measured to evaluate the performance of all the genotypes. The results were compared in respect of physiological (Na+, K+ and Cl-) and seed yield components obtained from field trials for salinity stress conducted during two years...
2017: PloS One
https://www.readbyqxmd.com/read/28536597/fine-mapping-of-qtls-for-ascochyta-blight-resistance-in-pea-using-heterogeneous-inbred-families
#4
Ambuj B Jha, Krishna K Gali, Bunyamin Tar'an, Thomas D Warkentin
Ascochyta blight (AB) is an important disease of pea which can cause severe grain yield loss under wet conditions. In our previous study, we identified two quantitative trait loci (QTLs) abIII-1 and abI-IV-2 for AB resistance and these QTLs were consistent across locations and/or years in an inter-specific pea population (PR-19) developed from a cross between Alfetta (Pisum sativum) and P651 (P. fulvum). The objectives of this study were to fine map the abIII-1 and abI-IV-2 QTLs using a high density single nucleotide polymorphism (SNP)-based genetic linkage map and analyze identified markers in heterogeneous inbred family (HIF) populations...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28534980/a-proteomic-analysis-identifies-candidate-early-biomarkers-to-predict-ovarian-hyperstimulation-syndrome-in-polycystic-ovarian-syndrome-patients
#5
Lan Wu, Yazhou Sun, Jun Wan, Ting Luan, Qing Cheng, Yong Tan
Ovarian hyperstimulation syndrome (OHSS) is a potentially life‑threatening, iatrogenic complication that occurs during assisted reproduction. Polycystic ovarian syndrome (PCOS) significantly increases the risk of OHSS during controlled ovarian stimulation. Therefore, a more effective early prediction technique is required in PCOS patients. Quantitative proteomic analysis of serum proteins indicates the potential diagnostic value for disease. In the present study, the authors revealed the differentially expressed proteins in OHSS patients with PCOS as new diagnostic biomarkers...
May 18, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28533786/high-density-linkage-map-construction-and-mapping-of-yield-trait-qtls-in-maize-zea-mays-using-the-genotyping-by-sequencing-gbs-technology
#6
Chengfu Su, Wei Wang, Shunliang Gong, Jinghui Zuo, Shujiang Li, Shizhong Xu
Increasing grain yield is the ultimate goal for maize breeding. High resolution quantitative trait loci (QTL) mapping can help us understand the molecular basis of phenotypic variation of yield and thus facilitate marker assisted breeding. The aim of this study is to use genotyping-by-sequencing (GBS) for large-scale SNP discovery and simultaneous genotyping of all F2 individuals from a cross between two varieties of maize that are in clear contrast in yield and related traits. A set of 199 F2 progeny derived from the cross of varieties SG-5 and SG-7 were generated and genotyped by GBS...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28526560/limb-flexion-induced-axial-compression-and-bending-in-human-femoropopliteal-artery-segments
#7
William Poulson, Alexey Kamenskiy, Andreas Seas, Paul Deegan, Carol Lomneth, Jason MacTaggart
BACKGROUND: High failure rates of femoropopliteal artery (FPA) interventions are often attributed in part to severe mechanical deformations that occur with limb movement. Axial compression and bending of the FPA likely play significant roles in FPA disease development and reconstruction failure, but these deformations are poorly characterized. The goal of this study was to quantify axial compression and bending of human FPAs that are placed in positions commonly assumed during the normal course of daily activities...
May 16, 2017: Journal of Vascular Surgery
https://www.readbyqxmd.com/read/28523007/transcriptomic-identification-of-drought-related-genes-and-ssr-markers-in-sudan-grass-based-on-rna-seq
#8
Yongqun Zhu, Xia Wang, Linkai Huang, Chaowen Lin, Xinquan Zhang, Wenzhi Xu, Jianhua Peng, Zhou Li, Haidong Yan, Fuxiang Luo, Xie Wang, Li Yao, Dandan Peng
Sudan grass (Sorghum sudanense) is an annual warm-season gramineous forage grass that is widely used as pasture, hay, and silage. However, drought stress severely impacts its yield, and there is limited information about the mechanisms of drought tolerance in Sudan grass. In this study, we used next-generation sequencing to identify differentially expressed genes (DEGs) in the Sudan grass variety Wulate No.1, and we developed simple sequence repeat (SSR) markers associated with drought stress. From 852,543,826 raw reads, nearly 816,854,366 clean reads were identified and used for analysis...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28516383/genetic-analysis-of-the-lf1-gene-that-controls-leaflet-number-in-soybean
#9
Soon-Chun Jeong, Ji Hong Kim, Dong Nyuk Bae
A high-resolution genetic map that was constructed for the Lf1 -residing region will provide valuable information for map-based cloning and genetic improvement efforts in soybean. Changes in leaf architecture as photosynthesis factories remain a major challenge for the improvement of crop productivity. Unlike most soybeans, which have compound leaves comprising three leaflets, the soybean Lf1 mutant has a high frequency of compound leaves with five leaflets in a partially dominant manner. Here, we generated a fine genetic map to determine the genetic basis of this multifoliolate leaf trait...
May 17, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28507551/deciphering-genomic-regions-for-high-grain-iron-and-zinc-content-using-association-mapping-in-pearl-millet
#10
N Anuradha, C Tara Satyavathi, C Bharadwaj, T Nepolean, S Mukesh Sankar, Sumer P Singh, Mahesh C Meena, Tripti Singhal, Rakesh K Srivastava
Micronutrient malnutrition, especially deficiency of two mineral elements, iron [Fe] and zinc [Zn] in the developing world needs urgent attention. Pearl millet is one of the best crops with many nutritional properties and is accessible to the poor. We report findings of the first attempt to mine favorable alleles for grain iron and zinc content through association mapping in pearl millet. An association mapping panel of 130 diverse lines was evaluated at Delhi, Jodhpur and Dharwad, representing all the three pearl millet growing agro-climatic zones of India, during 2014 and 2015...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28501365/why-natural-killer-cells-are-not-enough-a-further-understanding-of-killer-immunoglobulin-like-receptor-and-human-leukocyte-antigen
#11
REVIEW
Diana Alecsandru, Juan A García-Velasco
The immune system's role in recurrent reproductive failure is a controversial issue in assisted reproduction. Most studies into immune system implication in reproduction have focused on finding markers of peripheral blood and less on the uterine environment. Peripheral blood natural killer cells have become an "immune study core" for women with recurrent miscarriage or recurrent implantation failure, based on the mistaken notion that they cause reproductive failure by killing or "rejecting" the embryo. Maternal-fetal tolerance begins at the uterine level, so successful adaptation to the fetus occurs after a complicated process...
May 10, 2017: Fertility and Sterility
https://www.readbyqxmd.com/read/28493955/molecular-diversity-analysis-drought-related-marker-traits-association-mapping-and-discovery-of-excellent-alleles-for-100-day-old-plants-by-est-ssrs-in-cassava-germplasms-manihot-esculenta-cranz
#12
Bin Wang, Xin Guo, Pingjuan Zhao, Mengbin Ruan, Xiaoling Yu, Liangping Zou, Yiling Yang, Xiao Li, Deli Deng, Jixiang Xiao, Yiwei Xiao, Chunji Hu, Xue Wang, Xiaolin Wang, Wenquan Wang, Ming Peng
Cassava is the third largest food crop of the world and has strong ability of drought tolerance. In order to evaluate the molecular diversity and to discover novel alleles for drought tolerance in cassava germplasms, we examined a total of 107 abiotic stress related expressed sequence tags-simple sequence repeat (EST-SSR) markers in 134 cassava genotypes coming from planting regions worldwide and performed drought related marker-traits association mapping. As results, we successfully amplified 98 of 107 markers in 97 polymorphic loci and 279 alleles, with 2...
2017: PloS One
https://www.readbyqxmd.com/read/28491075/saturation-mapping-of-a-major-effect-qtl-for-stripe-rust-resistance-on-wheat-chromosome-2b-in-cultivar-napo-63-using-snp-genotyping-arrays
#13
Jianhui Wu, Qilin Wang, Shengjie Liu, Shuo Huang, Jingmei Mu, Qingdong Zeng, Lili Huang, Dejun Han, Zhensheng Kang
Stripe rust or yellow rust (YR), caused by Puccinia striiformis f. sp. tritici (Pst), is one of the most important diseases of wheat (Triticum aestivum L.). Widespread deployment of resistant cultivars is the best means of achieving durable disease control. The red grain, spring wheat cultivar Napo 63 produced by CIMMYT in the 1960s shows a high level of adult-plant resistance to stripe rust in the field. To elucidate the genetic basis of resistance in this cultivar we evaluated 224 F2:3 lines and 175 F2:6 recombinant inbred lines (RILs) derived from a cross between Napo 63 and the Pst-susceptible line Avocet S...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28488059/comparative-analysis-of-genetic-architectures-for-nine-developmental-traits-of-rye
#14
Piotr Masojć, P Milczarski, P Kruszona
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...
May 9, 2017: Journal of Applied Genetics
https://www.readbyqxmd.com/read/28484481/qtl-mapping-for-phosphorus-efficiency-and-morphological-traits-at-seedling-and-maturity-stages-in-wheat
#15
Yuanyuan Yuan, Minggang Gao, Mingxia Zhang, Honghua Zheng, Xiuwen Zhou, Ying Guo, Yan Zhao, Fangmei Kong, Sishen Li
Phosphorus (P) efficiency (PE), which comprises phosphorus uptake (PupE) and utilization efficiency (PutE), is considered as one of the most important factors for crop yield. In the present study, 11 seedling traits and 13 maturity traits related to wheat PE and morphology were investigated using a set of recombinant inbred lines (RILs) derived from the cross of "TN 18 × LM 6," under hydroponic culture trials and field trials at low P (LP) and normal P (NP) levels in two different years, respectively. The LP input reduced of biomass, yield and PupE traits, but increased PutE traits...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28482802/high-density-genetic-map-construction-and-qtls-identification-for-plant-height-in-white-jute-corchorus-capsularis-l-using-specific-locus-amplified-fragment-slaf-sequencing
#16
Aifen Tao, Long Huang, Guifen Wu, Reza Keshavarz Afshar, Jianmin Qi, Jiantang Xu, Pingping Fang, Lihui Lin, Liwu Zhang, Peiqing Lin
BACKGROUND: Genetic mapping and quantitative trait locus (QTL) detection are powerful methodologies in plant improvement and breeding. White jute (Corchorus capsularis L.) is an important industrial raw material fiber crop because of its elite characteristics. However, construction of a high-density genetic map and identification of QTLs has been limited in white jute due to a lack of sufficient molecular markers. The specific locus amplified fragment sequencing (SLAF-seq) strategy combines locus-specific amplification and high-throughput sequencing to carry out de novo single nuclear polymorphism (SNP) discovery and large-scale genotyping...
May 8, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28475954/association-analysis-of-snps-in-the-porcine-cyp2e1-gene-with-skatole-indole-and-androstenone-levels-in-backfat-of-a-crossbred-pig-population
#17
Kateřina Zadinová, Roman Stupka, Antonín Stratil, Jaroslav Čítek, Karel Vehovský, Nicole Lebedová, Michal Šprysl, Monika Okrouhlá
The occurrence of boar taint in meat from uncastrated males may significantly affect the economics of pork production. The aim of this study was to analyse associations of four single nucleotide polymorphisms (SNPs) in the porcine CYP2E1 gene with skatole, indole, and androstenone levels in the Czech Large White-Czech Landrace commercial crossbreds. The SNPs were: g.2412C>T, c.1422C>T, c.1423G>A and c.*14G>T. Skatole, indole and androstenone levels were estimated by HPLC, and genotypes at the SNPs were determined by PCR-RFLP...
April 29, 2017: Meat Science
https://www.readbyqxmd.com/read/28470009/transcriptome-analysis-of-orange-head-chinese-cabbage-brassica-rapa-l-ssp-pekinensis-and-molecular-marker-development
#18
Jingjuan Li, Yihui Zhang, Qian Ding, Huayin Li, Lifeng Liu, Fengde Wang, Jianwei Gao
Due to the visual appearance and high carotenoid content, orange inner leaves are a desirable trait for the Chinese cabbage. To understand the molecular mechanism underlying the formation of orange inner leaves, the BrCRTISO (Bra031539) gene, as the Br-or candidate gene, was analyzed among the white and orange varieties, and 7 single nucleotide polymorphisms (SNPs) were identified. However, only one SNP (C(952) to T(952)) altered the amino acid sequence, resulting in a mutation from Leu(318) to Phe(318) in the orange varieties...
2017: International Journal of Genomics
https://www.readbyqxmd.com/read/28466554/motion-of-the-anterior-cruciate-ligament-during-internal-and-external-rotation-at-the-knee-a-cadaveric-study
#19
J Peeler, J Anderson, S Piotrowski, G Stranges
Despite advances in our understanding of anterior cruciate ligament (ACL) anatomy and function, the change in position of the ACL during tibial rotation is not well understood. The purpose of this study was to quantify and compare the movements of the anteromedial (AM) and posterolateral (PL) bundles of the ACL during 15° of medial and lateral rotation (with & without a shear force). Cadaveric knees (12 male/12 female) were dissected and mounted at 90° of knee flexion. Anthropometric features of the ACL and distal femur were recorded, and each bundle was marked at: femoral attachment (FA), midpoint of ligament (MP), and tibial attachment (TA)...
May 2, 2017: Clinical Anatomy
https://www.readbyqxmd.com/read/28458680/genetic-diversity-population-structure-and-linkage-disequilibrium-of-a-core-collection-of-ziziphus-jujuba-assessed-with-genome-wide-snps-developed-by-genotyping-by-sequencing-and-ssr-markers
#20
Wu Chen, Lu Hou, Zhiyong Zhang, Xiaoming Pang, Yingyue Li
Chinese jujube (Ziziphus jujuba Mill) is an economically important fruit species native to China with high nutritious and medicinal value. Genotyping-by-sequencing was used to detect and genotype single nucleotide polymorphisms (SNPs) in a core collection of 150 Chinese jujube accessions and further to characterize their genetic diversity, population structure, and linkage disequilibrium (LD). A total of 4,680 high-quality SNPs were identified, of which 38 sets of tri-allelic SNPs were detected. The average polymorphism information content (PIC) values based on bi-allelic SNPs and tri-allelic SNPs were 0...
2017: Frontiers in Plant Science
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