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Marker assisted selection

Jin S Xiong, Steven E McKeand, Fikret Isik, Jill Wegrzyn, David B Neale, Zhao-Bang Zeng, Luciano da Costa E Silva, Ross W Whetten
BACKGROUND: The use of wood as an industrial raw material has led to development of plantation forestry, in which trees are planted, managed, and harvested as crops. The productivity of such plantations often exceeds that of less-intensively-managed forests, and land managers have the option of choosing specific planting stock to produce specific types of wood for industrial use. Stem forking, or division of the stem into two or more stems of roughly equal size, is a character trait important in determining the quality of the stem for production of solid wood products...
October 18, 2016: BMC Genetics
Shengfu Zhong, Lixia Ma, Syeda Akash Fatima, Jiezhi Yang, Wanquan Chen, Taiguo Liu, Yuting Hu, Qing Li, Jingwei Guo, Min Zhang, Li Lei, Xin Li, Shengwen Tang, Peigao Luo
The wheat powdery mildew resistance gene Pm40, which is located on chromosomal arm 7BS, is effective against nearly all prevalent races of Blumeria graminis f. sp tritici (Bgt) in China and is carried by the common wheat germplasm PI 672538. A set of the F1, F2 and F2:3 populations from the cross of the resistant PI 672538 with the susceptible line L1034 were used to conduct genetic analysis of powdery mildew resistance and construct a high-density linkage map of the Pm40 gene. We constructed a high-density linkage genetic map with a total length of 6...
2016: PloS One
Debojit Gogoi, Dilip Kumar Pal, Malay K Bera
Laparoscopic donor nephrectomy (LDN) can be performed via either transperitoneal or retroperitoneal approach. Very few studies have been carried out till now, comparing immunologic and inflammatory responses in donors after these two approaches. This is a prospective observational study. Selection of approach was decided by the operating surgeon. All patients underwent peripheral venous blood sampling preoperatively and 24 h postoperatively for the measurement of C-reactive protein (CRP), interleukein-6 (IL-6), total leukocyte count (TLC), blood urea nitrogen (BUN), and serum creatinine (SCr)...
September 2016: Saudi Journal of Kidney Diseases and Transplantation
Ying Liu, Lili Yu, Yue Qu, Jingjing Chen, Xiexiang Liu, Huilong Hong, Zhangxiong Liu, Ruzhen Chang, Matthew Gilliham, Lijuan Qiu, Rongxia Guan
Soil salinity reduces soybean growth and yield. The recently identified GmSALT3 (Glycine max salt Tolerance-associated gene on chromosome 3) has the potential to improve soybean yields in salinized conditions. Here we evaluate the impact of GmSALT3 on soybean performance under saline or non-saline conditions. Three sets of near isogenic lines (NILs), with genetic similarity of 95.6-99.3% between each pair of NIL-T and NIL-S, were generated from a cross between two varieties 85-140 (salt-sensitive, S) and Tiefeng 8 (salt-tolerant, T) by using marker-assisted selection...
2016: Frontiers in Plant Science
L C Emebiri, M-K Tan, M El-Bouhssini, O Wildman, A Jighly, W Tadesse, F C Ogbonnaya
This research provides the first report of a major locus controlling wheat resistance to Sunn pest. It developed and validated SNP markers that will be useful for marker-assisted selection. Sunn pest (Eurygaster integriceps Puton) is the most destructive insect pest of bread wheat and durum wheat in West and Central Asia and East Europe. Breeding for resistance at the vegetative stage of growth is vital in reducing the damage caused by overwintered adult populations that feed on shoot and leaves of seedlings, and in reducing the next generation of pest populations (nymphs and adults), which can cause damage to grain quality by feeding on spikes...
October 15, 2016: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
David Bouget, Max Allan, Danail Stoyanov, Pierre Jannin
In recent years, tremendous progress has been made in surgical practice for example with Minimally Invasive Surgery (MIS). To overcome challenges coming from deported eye-to-hand manipulation, robotic and computer-assisted systems have been developed. Having real-time knowledge of the pose of surgical tools with respect to the surgical camera and underlying anatomy is a key ingredient for such systems. In this paper, we present a review of the literature dealing with vision-based and marker-less surgical tool detection...
September 13, 2016: Medical Image Analysis
Jingyin Yu, Komivi Dossa, Linhai Wang, Yanxin Zhang, Xin Wei, Boshou Liao, Xiurong Zhang
Microsatellite DNAs (or SSRs) are important genomic components involved in many important biological functions. SSRs have been extensively exploited as molecular markers for diverse applications including genetic diversity, linkage/association mapping of gene/QTL, marker-assisted selection, variety identification and evolution analysis. However, a comprehensive database or web service for studying microsatellite DNAs and marker development in plants is lacking. Here, we developed a database, PMDBase, which integrates large amounts of microsatellite DNAs from genome sequenced plant species and includes a web service for microsatellite DNAs identification...
October 12, 2016: Nucleic Acids Research
Xuechen Zhang, Sergey Shabala, Anthony Koutoulis, Lana Shabala, Meixue Zhou
We projected meta-QTL (MQTL) for drought, salinity, and waterlogging tolerance to the physical map of barley through meta-analysis. The positions of these MQTL were refined and candidate genes were identified. Drought, salinity and waterlogging are three major abiotic stresses limiting barley yield worldwide. Breeding for abiotic stress-tolerant crops has drawn increased attention, and a large number of quantitative trait loci (QTL) for drought, salinity, and waterlogging tolerance in barley have been detected...
October 11, 2016: Planta
Waleed F A Marei, D Claire Wathes, Kabir A Raheem, Omnia Mohey-Elsaeed, Fataneh Ghafari, Ali A Fouladi-Nashta
An increasing number of reports suggests a role of hyaluronan (HA) in female reproduction and interest in its application in assisted reproduction is rising. However, there are contrasting data about the effectiveness of adding HA to the embryo-transfer medium on improving pregnancy rates. Using sheep as an experimental model, the studies reported here analysed the impact of HA infusion into the uterus on embryo attachment to uterine luminal epithelium (LE) and expression of selected markers of uterine receptivity...
October 11, 2016: Reproduction, Fertility, and Development
Longxin Wang, Bowen Wang, Qingzhang Du, Jinhui Chen, Jiaxing Tian, Xiaohui Yang, Deqiang Zhang
Photosynthesis is one of the most important reactions on earth. PsbW, a nuclear-encoded subunit of photosystem II (PSII), stabilizes PSII structure and plays an important role in photosynthesis. Here, we used candidate gene-based linkage disequilibrium (LD) mapping to detect significant associations between allelic variations of PtoPsbW and traits related to photosynthesis, growth, and wood properties in Populus tomentosa. PtoPsbW showed the highest expression in leaves and it increased during the development of these leaves, suggesting that PtoPsbW may play an important role in plant growth and development...
October 8, 2016: Molecular Genetics and Genomics: MGG
Gabriel Feresin Pantalião, Marcelo Narciso, Cléber Guimarães, Adriano Castro, José Manoel Colombari, Flavio Breseghello, Luana Rodrigues, Rosana Pereira Vianello, Tereza Oliveira Borba, Claudio Brondani
The identification of rice drought tolerant materials is crucial for the development of best performing cultivars for the upland cultivation system. This study aimed to identify markers and candidate genes associated with drought tolerance by Genome Wide Association Study analysis, in order to develop tools for use in rice breeding programs. This analysis was made with 175 upland rice accessions (Oryza sativa), evaluated in experiments with and without water restriction, and 150,325 SNPs. Thirteen SNP markers associated with yield under drought conditions were identified...
October 8, 2016: Genetica
Dorcus C Gemenet, Willmar L Leiser, Francesca Beggi, Ludger H Herrmann, Vincent Vadez, Henry F W Rattunde, Eva Weltzien, Charles T Hash, Andreas Buerkert, Bettina I G Haussmann
West Africa (WA) is among the most food insecure regions. Rapid human population growth and stagnating crop yields greatly contribute to this fact. Poor soil fertility, especially low plant available phosphorus (P) is constraining food production in the region. P-fertilizer use in WA is among the lowest in the world due to inaccessibility and high prices, often unaffordable to resource-poor subsistence farmers. This article provides an overview of soil P-deficiency in WA and opportunities to overcome it by exploiting sorghum and pearl millet genetic diversity...
2016: Frontiers in Plant Science
Pratibha Kottapalli, Mauricio Ulloa, Kameswara Rao Kottapalli, Paxton Payton, John Burke
The objective of this study was to explore the known narrow genetic diversity and discover single-nucleotide polymorphic (SNP) markers for marker-assisted breeding within Pima cotton (Gossypium barbadense L.) leaf transcriptomes. cDNA from 25-day plants of three diverse cotton genotypes [Pima S6 (PS6), Pima S7 (PS7), and Pima 3-79 (P3-79)] was sequenced on Illumina sequencing platform. A total of 28.9 million reads (average read length of 138 bp) were generated by sequencing cDNA libraries of these three genotypes...
2016: Genomics Insights
Rishi Srivastava, Deepak Bajaj, Yogesh K Sayal, Prabina K Meher, Hari D Upadhyaya, Rajendra Kumar, Shailesh Tripathi, Chellapilla Bharadwaj, Atmakuri R Rao, Swarup K Parida
The discovery and large-scale genotyping of informative gene-based markers is essential for rapid delineation of genes/QTLs governing stress tolerance and yield component traits in order to drive genetic enhancement in chickpea. A genome-wide 119169 and 110491 ISM (intron-spanning markers) from 23129 desi and 20386 kabuli protein-coding genes and 7454 in silico InDel (insertion-deletion) (1-45-bp)-based ILP (intron-length polymorphism) markers from 3283 genes were developed that were structurally and functionally annotated on eight chromosomes and unanchored scaffolds of chickpea...
November 2016: Plant Science: An International Journal of Experimental Plant Biology
Pedro Correa Brauner, Albrecht E Melchinger, Tobias A Schrag, H Friedrich Utz, Wolfgang Schipprack, Bettina Kessel, Milena Ouzunova, Thomas Miedaner
Six quantitative trait loci (QTL) for Gibberella ear rot resistance in maize were tested in two different genetic backgrounds; three QTL displayed an effect in few near isogenic line pairs. Few quantitative trait loci (QTL) mapping studies for Gibberella ear rot (GER) have been conducted, but no QTL have been verified so far. QTL validation is prudent before their implementation into marker-assisted selection (MAS) programs. Our objectives were to (1) validate six QTL for GER resistance, (2) evaluate the QTL across two genetic backgrounds, (3) investigate the genetic background outside the targeted introgressions...
October 5, 2016: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
Z Yang, X Li, N Zhang, Y N Zhang, H W Jiang, J Gao, B K Kuai, Y L Ding, X Q Huang
Maize (Zea mays L.) is one of the most important food crops throughout the world, and provides oil and proteins to humans and livestock. Kernel oil and protein content in maize are two complex quantitative traits. In order to identify quantitative trait loci (QTL) controlling oil and protein concentration in maize kernels, and to evaluate their genetic effects, QTL analysis was conducted on an F3:4 population derived from a cross between an inbred line with a low oil and protein concentration (Zheng58) and an inbred line with a higher oil and protein concentration (B73)...
September 30, 2016: Genetics and Molecular Research: GMR
H Zhou, B H Cai, Z Q Lü, Z H Gao, Y S Qiao
Simple sequence repeats (SSRs), one of the most powerful molecular markers, can be used for DNA fingerprinting, variety identification, genetic mapping, and marker-assisted selection. Using the pear's (Pyrus pyrifolia Nakai) 75,764 unigenes (55,676,271 bp) obtained by deep transcriptome sequencing, a total of 10,622 novel SSRs were identified in 9154 unigenes, accounting for 14.02% of all unigenes. The average length and distribution of these SSRs was about 16 bp and 5.24 kb, respectively. Dinucleotide repeat motifs were the main type, with a frequency of 55...
September 23, 2016: Genetics and Molecular Research: GMR
M L Guedes, C A B P Pinto, G H M R Ribeiro, D H Lyra, O L G Carneiro
Disease-resistant potato cultivars with good tuber appearance and desirable agronomic traits are essential for meeting the demands of producers and the market. Attaining these cultivars is the focus of potato breeding programs whose aim is to benefit the productive chain. The purpose of this study was to estimate combining abilities and evaluate potato clones based on tuber appearance, yield, and resistance to the PVY and PVX viruses. Crosses between four commercial cultivars of potato with good tuber appearance were performed, using eight clones with proven resistance to PVY and PVX from the breeding program of UFLA...
September 16, 2016: Genetics and Molecular Research: GMR
N Hernández, J C Martínez-González, G M Parra-Bracamonte, A M Sifuentes-Rincón, N López-Villalobos, S T Morris, F Briones-Encinia, E Ortega-Rivas, V I Pacheco-Contreras, And L A Meza-García
Polymorphisms in candidate genes can produce significant and favorable changes in the phenotype, and therefore are useful for the identification of the best combination of favorable variants for marker-assisted selection. In the present study, an assessment to evaluate the effect of 11 single nucleotide polymorphisms (SNPs) in candidate genes on live weight traits of registered Brahman cattle was performed. Data from purebred bulls were used in this assessment. The dataset included birth (BW), weaning (WW), and yearling (YW) weights...
September 2, 2016: Genetics and Molecular Research: GMR
W-G Li, Y-Y Zhang, D-D Wang
Stearoyl-coenzyme A desaturase 1 (SCD1) is the key limiting enzyme in the synthesis of monounsaturated fatty acids, and plays a crucial role in the regulation of oleic acid. In this study, 165 ten-week-old Cherry Valley ducks were used to investigate single nucleotide polymorphisms (SNPs) in the 5' regulatory region of the SCD1 gene, and their associations with duck serum biochemical levels and fatty acid composition. Two novel SNPs, g.936516 C > G and g.936551 T > C, were found by polymerase chain reaction-single-strand conformation polymorphism analysis and DNA sequencing methods, exhibiting six genotypes (AA, BB, CC, AB, AC, and BC)...
August 30, 2016: Genetics and Molecular Research: GMR
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