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A critical evaluation of the effect of population size and phenotypic measurement on QTL detection and localization using a large F2 murine mapping population Genet. Mol. Biol.
Li,Xinmin; Quigg,Richard J; Zhou,Jian; Xu,Shizhong; Masinde,Godfred; Mohan,Subburaman; Baylink,David J..
Population size and phenotypic measurement are two key factors determining the detection power of quantitative trait loci (QTL) mapping. We evaluated how these two controllable factors quantitatively affect the detection of QTL and their localization using a large F2 murine mapping population and found that three main points emerged from this study. One finding was that the sensitivity of QTL detection significantly decreased as the population size decreased. The decrease in the percentage logarithm of the odd score (LOD score, which is a statistical measure of the likelihood of two loci being lied near each other on a chromosome) can be estimated using the formula 1 - n/N, where n is the smaller and N the larger population size. This empirical formula has...
Tipo: Info:eu-repo/semantics/article Palavras-chave: QTL mapping; Mice; Detection power; Population size; Phenotypic measurement.
Ano: 2006 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572006000100030
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Combining Two-Stage Testing and Interval Mapping Strategies to Detect QTL for Resistance to Bonamiosis in the European Flat Oyster Ostrea edulis ArchiMer
Lallias, Delphine; Gomez-raya, L.; Haley, C. S.; Arzul, Isabelle; Heurtebise, Serge; Beaumont, A. R.; Boudry, Pierre; Lapegue, Sylvie.
We have identified quantitative trait loci (QTL) in the flat oyster (Ostrea edulis) for resistance to Bonamia ostreae, a parasite responsible for the dramatic reduction in the aquaculture of this species. An F-2 family from a cross between a wild oyster and an individual from a family selected for resistance to bonamiosis was cultured with wild oysters injected with the parasite, leading to 20% cumulative mortality. Selective genotyping of 92 out of a total of 550 F-2 progeny (i.e., 46 heavily infected oysters that died and 46 parasite-free oysters that survived) was performed using 20 microsatellites and 34 amplification fragment length polymorphism primer pairs. Both a two-stage testing strategy and QTL interval mapping methods were used. The two-stage...
Tipo: Text Palavras-chave: Statistical power; Survival analysis; QTL mapping; Disease resistance; Ostrea edulis.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/2009/publication-6682.pdf
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Host/nonhost status and genetics of resistance in barley against three pathotypes of Magnaporthe blast fungi. Repositório Alice
AGHNOUM, R; BVINDI, C.; MENET, G.; D?HOOP, B.; MACIEL, J. L. N.; NIKS, R. E..
Blast disease, caused by the Magnapor the oryzae/griseaspecies complex, occurs in a wide rangeof wild and cultivated gramineous plant species including rice, wheat and barley. We inoculated a collection of cultivated (Hordeum vulgaressp.vul-gareL.) and wild (ssp.spontaneum) barley accessions with M. oryzae Oryzapathotype (MoO),Triticumpathotype (MoT) and Pennisetumpathotype (MsP) to quantify the host status of barley, and to identify sources of blast resistance. Unlike wheat, the barleygene pool is rich with sources of complete and partialresistance againstMagnaporthe. Cultivated barleyappeared a nonhost to MsP, whereas wild barleyshowed some degree of susceptibility. All 153 testedrice accessions were resistant to the MoT isolate,suggesting that rice is...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Association mapping; QTL mapping; Mlo; GWAS; Blast fungi; Magnaporthe blast fungi; Magnaporthe oryzae/grisea; Barley; Blast disease; Magnaporthe oryzae; Triticum.
Ano: 2019 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1121056
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Mapping of quantitative trait loci and confirmation of the FAT1 region on chromosome 4 in an F2 population of pigs Genet. Mol. Biol.
Silva,Kleibe de Moraes; Paixão,Débora Martins; Silva,Priscila Vendramini; Solero,Bruna Pena; Pereira,Mario Sérgio; Lopes,Paulo Sávio; Guimarães,Simone Eliza Facioni.
The objective was to map QTL on porcine chromosome 4 and to associate them with carcass and internal organ traits in an F2 population. The F1 population was produced by outbreed crossing, using two native Brazilian breed Piau boars and 18 commercial sows. A total of 617 F2 animals issued from 11 F1 boars and 54 F1 sows were typed for a total of five microsatellite markers. The data were analyzed by multiple regressions developed for the analysis of crosses between outbred lines, using the QTL Express software. Significant evidence for QTL was found for pig chromosome 4 regarding carcass and internal organ traits. All QTL were detected in the same region of the chromosome, designated FAT1.
Tipo: Info:eu-repo/semantics/article Palavras-chave: Fatness; Pig production; Divergent crosses; Microsatellite markers; QTL mapping.
Ano: 2008 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572008000300013
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Mapping QTLs for drought tolerance in a SEA 5 x AND 277 common bean cross with SSRs and SNP markers. Repositório Alice
BRIÑEZ, B.; PERSEGUINI, J. M. K. C.; ROSA, J. S.; BASSI, D.; GONÇALVES, J. G. R.; ALMEIDA, C.; PAULINO, J. F. de C.; BLAIR, M. W.; CHIORATTO, A. F.; CARBONELL, S. A. M.; VALDISSER, P. A. M. R.; VIANELLO, R. P.; BENCHIMOL-REIS, L. L..
The common bean is characterized by high sensitivity to drought and low productivity. Breeding for drought resistance in this species involves genes of different genetic groups. In this work, we used a SEA 5 x AND 277 cross to map quantitative trait loci associated with drought tolerance in order to assess the factors that determine the magnitude of drought response in common beans. A total of 438 polymorphic markers were used to genotype the F8 mapping population. Phenotyping was done in two greenhouses, one used to simulate drought and the other to simulate irrigated conditions. Fourteen traits associated with drought tolerance were measured to identify the quantitative trait loci (QTLs). The map was constructed with 331 markers that covered all 11...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: QTL mapping; Interpopulation gene-pool; Feijão; Marcador molecular; Deficiência hídrica; Plant-water relations; Genetic markers; Abiotic stress; Quantitative trait loci.
Ano: 2017 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1078353
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Mapping QTLs for drought tolerance in a SEA 5 x AND 277 common bean cross with SSRs and SNP markers Genet. Mol. Biol.
Briñez,Boris; Perseguini,Juliana Morini Küpper Cardoso; Rosa,Juliana Santa; Bassi,Denis; Gonçalves,João Guilherme Ribeiro; Almeida,Caléo; Paulino,Jean Fausto de Carvalho; Blair,Matthew Ward; Chioratto,Alisson Fernando; Carbonell,Sérgio Augusto Morais; Valdisser,Paula Arielle Mendes Ribeiro; Vianello,Rosana Pereira; Benchimol-Reis,Luciana Lasry.
Abstract The common bean is characterized by high sensitivity to drought and low productivity. Breeding for drought resistance in this species involves genes of different genetic groups. In this work, we used a SEA 5 x AND 277 cross to map quantitative trait loci associated with drought tolerance in order to assess the factors that determine the magnitude of drought response in common beans. A total of 438 polymorphic markers were used to genotype the F8 mapping population. Phenotyping was done in two greenhouses, one used to simulate drought and the other to simulate irrigated conditions. Fourteen traits associated with drought tolerance were measured to identify the quantitative trait loci (QTLs). The map was constructed with 331 markers that covered all...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Abiotic stress; Interpopulation gene-pool; Molecular markers; QTL mapping; Water deficit.
Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000500813
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QTL for resistance to summer mortality and OsHV-1 load in the Pacific oyster (Crassostrea gigas) ArchiMer
Sauvage, Christopher; Boudry, Pierre; De Koning, D. -j.; Haley, C. S.; Heurtebise, Serge; Lapegue, Sylvie.
P>Summer mortality is a phenomenon severely affecting the aquaculture production of the Pacific oyster (Crassostrea gigas). Although its causal factors are complex, resistance to mortality has been described as a highly heritable trait, and several pathogens including the virus Ostreid Herpes virus type 1 (OsHV-1) have been associated with this phenomenon. A QTL analysis for survival of summer mortality and OsHV-1 load, estimated using real-time PCR, was performed using five F-2 full-sib families resulting from a divergent selection experiment for resistance to summer mortality. A consensus linkage map was built using 29 SNPs and 51 microsatellite markers. Five significant QTL were identified and assigned to linkage groups V, VI, VII and IX. Analysis of...
Tipo: Text Palavras-chave: Crassostrea gigas; Herpes virus; Pacific oyster; QTL mapping; Summer mortality.
Ano: 2010 URL: http://archimer.ifremer.fr/doc/00011/12241/9063.pdf
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QTLs identification for characteristics of the root system in upland rice through DNA microarray Agronomy
Terra, Thiago Gledson Rios; Rodrigues, Haroldo Silva; Rangel, Paulo Hideo Nakano; Tomaz, Rafael Simões; Cruz, Cosme Damião; Borém, Aluízio.
The aim of this work is the construction of a genetic map and identification of quantitative trait loci (QTLs) that control characteristics of the root system of rice. We evaluated a F2:3 population composed of 150 families from the cross between the varieties IAC 165 × BRS Primavera. Genotyping was performed in the F2 population using 3,742 SNP (Single Nucleotide Polymorphism) markers. The evaluation of the root system in the F3 population was performed through a large-scale phenotyping method based on image generation with a CI-600 root scanner and on quantification through the WinRhizo® software. The experiment was arranged in a randomized block design with three replications performed under greenhouse. The variables analyzed were root length, root...
Tipo: Info:eu-repo/semantics/article Palavras-chave: 5.01.03.05-9 genomic; Oryza sativa L.; DNA chip; QTL mapping; Abiotic stress Melhoramento Vegetal.
Ano: 2016 URL: http://periodicos.uem.br/ojs/index.php/ActaSciAgron/article/view/30534
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Quantitative trait loci for carcass, internal organ and meat quality traits on porcine chromosomes 16, 17 and 18 Genet. Mol. Biol.
Paixão,Débora M.; Silva Filho,Miguel I. da; Pereira,Mário S.; Lopes,Marcos S.; Barbosa,Leandro; Souza,Katiene Régia Silva; Lopes,Paulo S.; Guimarães,Simone E.F..
The objective of this study was to map quantitative trait loci (QTL) on porcine chromosomes 16, 17 and 18 and to determine their association with carcass, organ and meat quality traits. An F2 population was produced by crossing two boars of the naturalized Brazilian Piau breed with 18 commercial females (Landrace x Large White x Pietrain). The population was genotyped for 11 microsatellite markers distributed over the three chromosomes and the results were used to construct a marker-specific linkage map for the population. Analysis of the polymorphic information content showed that the microsatellite markers were adequate for the study of quantitative traits. QTL were identified by regression interval mapping using QTL Express software. QTL not previously...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Divergent crosses; Microsatellite markers; Pig production; QTL mapping.
Ano: 2008 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572008000500016
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The genetic dissection of quantitative traits in crops Electron. J. Biotechnol.
Semagn,Kassa; Bjørnstad,Åsmund; Xu,Yunbi.
Most traits of interest in plant breeding show quantitative inheritance, which complicate the breeding process since phenotypic performances only partially reflects the genetic values of individuals. The genetic variation of a quantitative trait is assumed to be controlled by the collective effects of quantitative trait loci (QTLs), epistasis (interaction between QTLs), the environment, and interaction between QTL and environment. Exploiting molecular markers in breeding involve finding a subset of markers associated with one or more QTLs that regulate the expression of complex traits. Many QTL mapping studies conducted in the last two decades identified QTLs that generally explained a significant proportion of the phenotypic variance, and therefore, gave...
Tipo: Journal article Palavras-chave: Association mapping; Linkage disequilibrium; Markers assisted selection; Molecular breeding; Molecular markers; Quantitative trait; QTL mapping; QTL analysis.
Ano: 2010 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582010000500016
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Two independent grain-length mutants mapped to a single region on the long arm of chromosome 2 in rice Bragantia
Jiang,Liangrong; Zheng,Jingsheng; Zhang,Zhiyong; Chen,Xiaolong; Chen,Fangyu; Wang,Tiansheng; Huang,Yumin; Wang,Houcong; Hong,Zonglie; Huang,Rongyu.
ABSTRACT Grain shape in rice is a key determinant of grain appearance, yield and market value, and thus has been widely studied. Rice mutant lines with long-grain phenotypes were previously isolated from an M2 population derived from mutagenized mature pollen grains that were treated with gamma-ray irradiation for a cultivar Ma85. To understand the genetic basis underlying the long-grain trait, two mutant lines, JF171 and JF178, were crossed with the short-grain parents JF222 and Samba, generating three F2 populations. Molecular marker-based genetic analysis was employed to detect the major QTLs that affected grain length, grain width, length-to-width ratio and grain weight. Based on the data obtained for the three populations, a joint major QTL for grain...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Oryza sativa L.; Grain length; QTL mapping; Marker-assisted breeding.
Ano: 2018 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0006-87052018000300452
Registros recuperados: 11
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