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https://www.readbyqxmd.com/read/28449374/genetic-variability-in-adenosine-deaminase-like-contributes-to-variation-in-alcohol-preference-in-mice
#1
Heidi M B Lesscher, Alexis Bailey, Louk J M J Vanderschuren
BACKGROUND: A substantial part of the risk for alcohol use disorder (AUD) is determined by genetic factors. We previously used chromosome substitution (CSS) mice, to identify a QTL for alcohol preference on mouse chromosome 2. The aim of this study was to identify candidate genes within this QTL that confer the risk for alcohol preference. METHODS: In order to delineate the neurobiological underpinnings of alcohol consumption, we expanded on the QTL approach to identify candidate genes for high alcohol preference in mice...
April 27, 2017: Alcoholism, Clinical and Experimental Research
https://www.readbyqxmd.com/read/28449076/qtl-analysis-of-the-developmental-response-to-l-glutamate-in-arabidopsis-roots-and-its-genotype-by-environment-interactions
#2
Pia Walch-Liu, Rhonda C Meyer, Thomas Altmann, Brian G Forde
Primary root growth in Arabidopsis and a number of other species has previously been shown to be remarkably sensitive to the presence of external glutamate, with glutamate signalling eliciting major changes in root architecture. Using two recombinant inbred lines from reciprocal crosses between Arabidopsis accessions C24 and Col-0, we have identified one large-effect quantitative trait locus (QTL), GluS1, and two minor QTLs, GluS2 and GluS3, which together accounted for 41% of the phenotypic variance in glutamate sensitivity...
April 26, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/28449073/genetics-of-phenotypic-plasticity-and-biomass-traits-in-hybrid-willows-across-contrasting-environments-and-years
#3
Sofia Berlin, Henrik R Hallingbäck, Friderike Beyer, Nils-Erik Nordh, Martin Weih, Ann-Christin Rönnberg-Wästljung
Background and Aims: Phenotypic plasticity can affect the geographical distribution of taxa and greatly impact the productivity of crops across contrasting and variable environments. The main objectives of this study were to identify genotype-phenotype associations in key biomass and phenology traits and the strength of phenotypic plasticity of these traits in a short-rotation coppice willow population across multiple years and contrasting environments to facilitate marker-assisted selection for these traits...
April 25, 2017: Annals of Botany
https://www.readbyqxmd.com/read/28448537/mapping-of-quantitative-trait-loci-associated-with-resistance-to-net-form-net-blotch-pyrenophora-teres-f-teres-in-a-doubled-haploid-norwegian-barley-population
#4
Ronja Wonneberger, Andrea Ficke, Morten Lillemo
Barley net blotch caused by the necrotrophic fungus Pyrenophora teres is a major barley disease in Norway. It can cause grain shriveling and yield losses, and resistance in currently grown cultivars is insufficient. In this study, a set of 589 polymorphic SNP markers was used to map resistance loci in a population of 109 doubled haploid lines from a cross between the closely related Norwegian cultivars Arve (moderately susceptible) and Lavrans (moderately resistant). Resistance to three net form net blotch (P...
2017: PloS One
https://www.readbyqxmd.com/read/28447117/a-new-major-effect-qtl-for-waterlogging-tolerance-in-wild-barley-h-spontaneum
#5
Xuechen Zhang, Yun Fan, Sergey Shabala, Anthony Koutoulis, Lana Shabala, Peter Johnson, Hongliang Hu, Meixue Zhou
We report the first study on the unique allele from wild barley that can improve waterlogging tolerance in cultivated barley with a substantially higher contribution to aerenchyma formation. Waterlogging is one of the major abiotic stresses that dramatically reduce barley crop yield. Direct selection on waterlogging tolerance in the field is less effective due to its viability to environment. The most effective way of selection is to choose traits that make significant contributions to the overall tolerance and are easy to score...
April 26, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28446764/complexity-of-genetic-mechanisms-conferring-nonuniformity-of-recombination-in-maize
#6
Qingchun Pan, Min Deng, Jianbing Yan, Lin Li
Recombinations occur nonuniformly across the maize genome. To dissect the genetic mechanisms underlying the nonuniformity of recombination, we performed quantitative trait locus (QTL) mapping using recombinant inbred line populations. Genome-wide QTL scan identified hundreds of QTLs with both cis-prone and trans- effects for recombination number variation. To provide detailed insights into cis- factors associated with recombination variation, we examined the genomic features around recombination hot regions, including density of genes, DNA transposons, retrotransposons, and some specific motifs...
April 26, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28445652/identification-of-quantitative-trait-loci-underlying-seed-protein-content-of-soybean-including-main-epistatic-and-qtl-%C3%A3-environment-effects-in-different-regions-of-northeast-china
#7
Weili Teng, Wen Li, Q I Zhang, Depeng Wu, Xue Zhao, Haiyan Li, Yingpeng Han, Wenbin Li
The objective here was to identify QTL, their epistatic effects and QTLs x environments interaction underlying soybean protein content (PC). The mapping population, consisted of 129 recombinant inbred lines (RILs), was created by crossing 'Dongnong46' and 'L-100'. Phenotypic data of the parents and RILs were collected for four years in three locations of Heilongjiang Province of China. A total of 213 simple sequence repeat markers were used to construct a genetic linkage map. Eight QTLs, located on seven chromosomes (Chr), were identified to be associated with PC among the ten tested environments...
April 26, 2017: Genome Génome / Conseil National de Recherches Canada
https://www.readbyqxmd.com/read/28444412/biochemical-and-genetic-analyses-of-n-metabolism-in-maize-testcross-seedlings-1-leaves
#8
Ignacio Trucillo Silva, Hari Kishan R Abbaraju, Lynne P Fallis, Hongjun Liu, Michael Lee, Kanwarpal S Dhugga
Aside from the identification of 32 QTL for N metabolism in the seedling leaves of a maize testcross population, alanine aminotransferase was found to be a central enzyme in N assimilation. Excessive application of nitrogen (N) fertilizer to grow commercial crops like maize is a cause of concern because of the runoff of excess N into streams and rivers. Breeding maize with improved N use efficiency (NUE) would reduce environmental pollution as well as input costs for the farmers. An understanding of the genetics underlying N metabolism is key to breeding for NUE...
April 25, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28443103/genotyping-by-sequencing-for-snp-based-linkage-analysis-and-identification-of-qtls-linked-to-fruit-quality-traits-in-japanese-plum-prunus-salicina-lindl
#9
Juan A Salazar, Igor Pacheco, Paulina Shinya, Patricio Zapata, Claudia Silva, Mallikarjuna Aradhya, Dianne Velasco, David Ruiz, Pedro Martínez-Gómez, Rodrigo Infante
Marker-assisted selection (MAS) in stone fruit (Prunus species) breeding is currently difficult to achieve due to the polygenic nature of the most relevant agronomic traits linked to fruit quality. Genotyping by sequencing (GBS), however, provides a large quantity of useful data suitable for fine mapping using Single Nucleotide Polymorphisms (SNPs) from a reference genome. In this study, GBS was used to genotype 272 seedlings of three F1 Japanese plum (Prunus salicina Lindl) progenies derived from crossing "98-99" (as a common female parent) with "Angeleno," "September King," and "September Queen" as male parents...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28442482/a-bag3-coding-variant-in-mice-determines-susceptibility-to-ischemic-limb-muscle-myopathy-by-directing-autophagy
#10
Joseph M McClung, Timothy J McCord, Terence E Ryan, Cameron A Schmidt, Thomas D Green, Kevin W Southerland, Jessica L Reinardy, Sarah B Mueller, Talaignair N Venkatraman, Christopher D Lascola, Sehoon Keum, Douglas A Marchuk, Espen E Spangenburg, Ayotunde O Dokun, Brian H Annex, Christopher D Kontos
Background -Critical limb ischemia (CLI) is a manifestation of peripheral artery disease (PAD) that carries significant mortality and morbidity risk in humans, although its genetic determinants remain largely unknown. We previously discovered two overlapping quantitative trait loci (QTL) in mice, Lsq-1 and Civq-1, that affected limb muscle survival and stroke volume following femoral artery or middle cerebral artery ligation, respectively. Here we report that a Bag3 variant (Ile81Met) segregates with tissue protection from hindlimb ischemia (HLI)...
April 25, 2017: Circulation
https://www.readbyqxmd.com/read/28439856/the-generation-of-doubled-haploid-lines-for-qtl-mapping
#11
Daniele L Filiault, Danelle K Seymour, Ravi Maruthachalam, Julin N Maloof
Recombinant inbred lines (RILs) are an essential tool for quantitative trait locus (QTL) mapping in Arabidopsis thaliana. Conventionally, the development of these lines is a time-consuming and tedious process requiring six to eight generations of selfing. Here, we describe an alternative approach: the rapid generation of RILs in A. thaliana via the creation of doubled haploids. In this method, F1 plants are crossed to an engineered haploid inducer to produce haploid plants. The chromosomes of these haploids then spontaneously double, generating immortalized homozygous F2 lines called doubled haploid RILs (DH RILs)...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28439810/qtls-and-analysis-of-the-candidate-gene-for-amylose-protein-and-moisture-content-in-rice-oryza-sativa-l
#12
Ester Bruno, Yun-Sik Choi, Il Kyung Chung, Kyung-Min Kim
In this study, we determined using NIRS the heritability percentage of amylose, protein, and moisture content in polished and unpolished rice in a CNDH population derived from a cross between Cheongcheong and Nagdong rice varieties. The results revealed a higher heritability percentage for the amylose content and compromised heritability for protein and moisture contents. We also conducted QTL analysis of rice for these major components and identified their chromosomal locations on a physical map. We found a total of four QTLs affecting the amylose, protein, and moisture contents of grain on chromosome 7...
May 2017: 3 Biotech
https://www.readbyqxmd.com/read/28439621/qtl-mapping-of-domestication-and-diversifying-selection-related-traits-in-round-fruited-semi-wild-xishuangbanna-cucumber-cucumis-sativus-l-var-xishuangbannanesis
#13
Yupeng Pan, Shuping Qu, Kailiang Bo, Meiling Gao, Kristin R Haider, Yiqun Weng
QTL analysis revealed 11 QTL underlying flowering time and fruit size variation in the semi-wild Xishuangbanna cucumber, of which, FT6.2 and FS5.2 played the most important roles in determining photoperiod-dependent flowering time and round-fruit shape, respectively. Flowering time and fruit size are two important traits in domestication and diversifying selection in cucumber, but their genetic basis is not well understood. Here we reported QTL mapping results on flowering time and fruit size with F2 and F2:3 segregating populations derived from the cross between WI7200, a small fruited, early flowering primitive cultivated cucumber and WI7167, a round-fruited, later flowering semi-wild Xishuangbanna (XIS) cucumber...
April 24, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28429828/genomic-clustering-of-adaptive-loci-during-parallel-evolution-of-an-australian-wildflower
#14
Federico Roda, Greg M Walter, Rick Nipper, Daniel Ortiz-Barrientos
The buildup of the phenotypic differences that distinguish species has long intrigued biologists. These differences are often inherited as stable polymorphisms that allow the co-segregation of adaptive variation within species, and facilitate the differentiation of complex phenotypes between species. It has been suggested that the clustering of adaptive loci could facilitate this process but evidence is still scarce. Here we used QTL analysis to study the genetic basis of phenotypic differentiation between coastal populations of the Australian wildflower Senecio lautus...
April 21, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28428796/expression-profiling-coupled-with-in-silico-mapping-identifies-candidate-genes-for-reducing-aflatoxin-accumulation-in-maize
#15
Ramesh Dhakal, Chenglin Chai, Ratna Karan, Gary L Windham, William P Williams, Prasanta K Subudhi
Aflatoxin, produced by Aspergillus flavus, is hazardous to health of humans and livestock. The lack of information about large effect QTL for resistance to aflatoxin accumulation is a major obstacle to employ marker-assisted selection for maize improvement. The understanding of resistance mechanisms of the host plant and the associated genes is necessary for improving resistance to A. flavus infection. A suppression subtraction hybridization (SSH) cDNA library was made using the developing kernels of Mp715 (resistant inbred) and B73 (susceptible inbred) and 480 randomly selected cDNA clones were sequenced to identify differentially expressed genes (DEGs) in response to A...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28428791/genome-wide-association-study-for-pre-harvest-sprouting-resistance-in-a-large-germplasm-collection-of-chinese-wheat-landraces
#16
Yong Zhou, Hao Tang, Meng-Ping Cheng, Kwame O Dankwa, Zhong-Xu Chen, Zhan-Yi Li, Shang Gao, Ya-Xi Liu, Qian-Tao Jiang, Xiu-Jin Lan, Zhi-En Pu, Yu-Ming Wei, You-Liang Zheng, Lee T Hickey, Ji-Rui Wang
Pre-harvest sprouting (PHS) is mainly caused by the breaking of seed dormancy in high rainfall regions, which leads to huge economic losses in wheat. In this study, we evaluated 717 Chinese wheat landraces for PHS resistance and carried out genome-wide association studies (GWAS) using to 9,740 DArT-seq and 178,803 SNP markers. Landraces were grown across six environments in China and germination testing of harvest-ripe grain was used to calculate the germination rate (GR) for each accession at each site. GR was highly correlated across all environments...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28427323/detection-of-qtl-for-traits-related-to-adaptation-to-sub-optimal-climatic-conditions-in-chickens
#17
Ching-Yi Lien, Michèle Tixier-Boichard, Shih-Wen Wu, Woei-Fuh Wang, Chen Siang Ng, Chih-Feng Chen
BACKGROUND: Growth traits can be used as indicators of adaptation to sub-optimal conditions. The current study aimed at identifying quantitative trait loci (QTL) that control performance under variable temperature conditions in chickens. METHODS: An F2 population was produced by crossing the Taiwan Country chicken L2 line (selected for body weight, comb area, and egg production) with an experimental line of Rhode Island Red layer R- (selected for low residual feed consumption)...
April 20, 2017: Genetics, Selection, Evolution: GSE
https://www.readbyqxmd.com/read/28424719/comparative-analysis-of-root-traits-and-the-associated-qtls-for-maize-seedlings-grown-in-paper-roll-hydroponics-and-vermiculite-culture-system
#18
Zhigang Liu, Kun Gao, Shengchen Shan, Riling Gu, Zhangkui Wang, Eric J Craft, Guohua Mi, Lixing Yuan, Fanjun Chen
Root system architecture (RSA) plays an important role in the acquisition of both nitrogen (N) and phosphorus (P) from the environment. Currently RSA is rarely considered as criteria for selection to improve nutrient uptake efficiency in crop breeding. Under field conditions roots can be greatly influenced by uncontrolled environment factors. Therefore, it is necessary to develop fast selection methods for evaluating root traits of young seedlings in the lab which can then be related to high nutrient efficiency of adult plants in the field...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28424708/quantitative-trait-locus-mapping-for-verticillium-wilt-resistance-in-an-upland-cotton-recombinant-inbred-line-using-snp-based-high-density-genetic-map
#19
Koffi Kibalou Palanga, Muhammad Jamshed, Md Harun Or Rashid, Juwu Gong, Junwen Li, Muhammad Sajid Iqbal, Aiying Liu, Haihong Shang, Yuzhen Shi, Tingting Chen, Qun Ge, Zhen Zhang, Tussipkan Dilnur, Weijie Li, Pengtao Li, Wankui Gong, Youlu Yuan
Verticillium wilt (VW) caused by Verticillium dahlia Kleb is one of the most destructive diseases of cotton. Numerous efforts have been made to improve the resistance of upland cotton against VW, with little progress achieved due to the paucity of upland cotton breeding germplasms with high level of resistance to VW. Gossypium barbadense was regarded as more resistant compared to upland cotton; however, it is difficult to apply the resistance from G. barbadense to upland cotton improvement because of the hybrid breakdown and the difficulty to fix resistant phenotype in their interspecific filial...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28424047/deciphering-mechanisms-underlying-the-genetic-variation-of-general-production-and-liver-quality-traits-in-the-overfed-mule-duck-by-pqtl-analyses
#20
Yoannah François, Alain Vignal, Caroline Molette, Nathalie Marty-Gasset, Stéphane Davail, Laurence Liaubet, Christel Marie-Etancelin
BACKGROUND: The aim of this study was to analyse the mechanisms that underlie phenotypic quantitative trait loci (QTL) in overfed mule ducks by identifying co-localized proteomic QTL (pQTL). The QTL design consisted of three families of common ducks that were progeny-tested by using 294 male mule ducks. This population of common ducks was genotyped using a genetic map that included 334 genetic markers located across 28 APL chromosomes (APL for Anas platyrhynchos). Mule ducks were phenotyped for 49 traits related to growth, metabolism, overfeeding ability and meat and fatty liver quality, and 326 soluble fatty liver proteins were quantified...
April 19, 2017: Genetics, Selection, Evolution: GSE
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