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A deterministic simulation study of embryo marker-assisted selection for age at first calving in Nellore (Bos indicus) beef cattle Genet. Mol. Biol.
Rosa,Artur J.M.; Bijma,Piter; Oliveira,Henrique N.; Lôbo,Raysildo B.; van Arendonk,Johan A.M..
We used deterministic simulation of four alternative multiple ovulation and embryo manipulation (MOET) closed nucleus schemes to investigate the benefits of using marker-assisted selection (MAS) of Nellore (Bos indicus) beef cattle embryos prior to transplantation to reduce the age at first calving (AFC). We found that MAS resulted in increased genetic gain as compared to selection without AFC quantitative trait loci (AFC-QTL) information. With single-stage selection the genetic response (GR) increased as follows: GR = 0.68% when the AFC-QTL explained 0.02 of the AFC additive genetic variance (sigma2A); GR = 1.76% for AFC-QTL explaining 0.05 sigma2A; GR = 3.7% for AFC-QTL explaining 0.1 sigma2A; and GR = 55.76% for AFC-QTL explaining 0.95 sigma2A. At the...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Age at first calving; Beef cattle; Marker-assisted selection; Pre-selection; Quantitative trait loci.
Ano: 2007 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572007000400008
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Analytical and numerical comparisons of two methods of estimation of additive × additive interaction of QTL effects Scientia Agricola
Bocianowski,Jan.
Epistasis (additive × additive interaction) plays an important role in the genetic architecture of complex traits. This study presents analytical and numerical comparisons of two methods of estimation of additive × additive interaction of QTL effects. In the first method, we observed only the plant phenotype, while in the second method we have additional information from the molecular markers observations. In this study, two data sets were analyzed: i) 150 barley (Hordeum vulgare L.) doubled-haploid lines derived from the cross Steptoe × Morex and ii) 145 doubled-haploid lines of barley obtained from the cross Harrington × TR306. In total, 153 sets of observations were analyzed. The additive × additive interaction effect calculated on the basis of the...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Nonallelic interaction effect; Doubled haploid lines; Quantitative trait loci.
Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0103-90162012000400002
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Candidate genes for male and female reproductive traits in Canchim beef cattle. Repositório Alice
BUZANSKAS, M. E.; GROSSI, D. do A.; VENTURA, R. V.; SCHENKEL, F. S.; CHUD, T. C. S.; STAFUZZA, N. B.; ROLA, L. D.; MEIRELLES, S. L. C.; MOKRY, F. B.; MUDADU, M. de A.; HIGA, R. H.; SILVA, M. V. G. B.; ALENCAR, M. M. de; REGITANO, L. C. de A.; MUNARI, D. P..
Background: Beef cattle breeding programs in Brazil have placed greater emphasis on the genomic study of reproductive traits of males and females due to their economic importance. In this study, genome-wide associations were assessed for scrotal circumference at 210 d of age, scrotal circumference at 420 d of age, age at first calving, and age at second calving, in Canchim beef cattle. Data quality control was conducted resulting in 672,778 SNPs and 392 animals. Results: Associated SNPs were observed for scrotal circumference at 420 d of age (435 SNPs), followed by scrotal circumference at 210 d of age (12 SNPs), age at first calving (six SNPs), and age at second calving (four SNPs). We investigated whether significant SNPs were within genic or surrounding...
Tipo: Artigo de periódico Palavras-chave: Polimorfismo de nucleotídeo único; Gado de corte; Gado Canchim; Beef cattle; Genome-wide association study; Single nucleotide polymorphism; Quantitative trait loci.
Ano: 2017 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1074373
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Caracterização genotípica de linhagem de corte e postura empregando chip de 60 k em região pleiotrópica do cromossomo 1. Repositório Alice
ROSÁRIO, M. F. do; ATTILIO, D. B.; BRASSALOTI, R. A.; LEDUR, M. C.; COUTINHO, L. L..
Tipo: Separatas Palavras-chave: QTL; SNPs; Single nucleotide.; Genética; Linhagem; Frango de corte; Galinha para postura; Polymorphism; Quantitative trait loci; Laying Hens; Chicken breeds..
Ano: 2013 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/968936
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Co-localization of QTL for root traits under low phosphorus availability with candidate genes homologues to PSTOL1 in maize. Repositório Alice
AZEVEDO, G. C.; CHEAVEGATTI-GIANOTTO, A.; NEGRI, B. F.; HUFNAGEL, B.; LANA, U. G. P.; SILVA, L. C.; MAGALHAES, J. V.; GARCIA, A. A. F.; SOUSA, S. M. de; GUIMARAES, C. T..
Tipo: Parte de livro Palavras-chave: Milho; Gene; Fósforo; Quantitative trait loci.
Ano: 2013 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/977225
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Dissecting the genetic basis of wheat blast resistance in the Brazilian wheat cultivar BR 18-Terena. Repositório Alice
GODDARD, R.; STEED, A.; CHINOY, C.; FERREIRA, J. R.; SCHEEREN, P. L.; MACIEL, J. L. N.; CAIERAO, E.; TORRES, G. A. M.; CONSOLI, L.; SANTANA, F. M.; FERNANDES, J. M. C.; SIMMONDS, J.; UAUY, C.; COCKRAM, J.; NICHOLSON, P..
Background: Wheat blast, caused by Magnaporthe oryzae Triticum (MoT) pathotype, is a global threat to wheat (Triticum aestivum L.) production. Few blast resistance (R) genes have been identified to date, therefore assessing potential sources of resistance in wheat is important. The Brazilian wheat cultivar BR 18-Terena is considered one of the best sources of resistance to blast and has been widely used in Brazilian breeding programmes, however the underlying genetics of this resistance are unknown. Results: BR 18-Terena was used as the common parent in the development of two recombinant inbred line (RIL) F6 populations with the Brazilian cultivars Anahuac 75 and BRS 179. Populations were phenotyped for resistance at the seedling and heading stage using...
Tipo: Artigo de periódico Palavras-chave: Wheat blast; Seedling resistance; Head resistance; Single nucleotide polymorphism (SNP) genotyping; Triticum Aestivum; Magnaporthe oryzae; Quantitative trait loci; Genotyping.
Ano: 2020 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1124870
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Genetic linkage map of Phaseolus vulgaris and identification of QTLs responsible for resistance to Xanthomonas axonopodis pv. phaseoli Trop. Plant Pathol.
Santos,Amaury S.; Bressan-Smith,Ricardo E.; Pereira,Messias G.; Rodrigues,Rosana; Ferreira,Claudia F..
Common bean (Phaseolus vulgaris) cultivars with a high degree of resistance to Xanthomonas axonopodis pv. phaseoli (Xap) are not available in Brazil. Despite many studies, a low degree of resistance to Xap continues to exist due to its complex genetic inheritance, which is not well known. The objectives of this research were to complement a common bean genetic map based on the cross between a susceptible genotype 'HAB-52' and a resistant genotype 'BAC-6', and to map and analyze genomic regions (quantitative trait loci – QTLs) related to Xap resistance. Eleven linkage groups were determined using 143 RAPD markers, covering 1,234.5 cM of the genome. This map was used to detect QTLs associated with Xap resistance on leaves and pods. The averages of disease...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Common bean; Quantitative trait loci; Common bacterial blight; Disease resistance.
Ano: 2003 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-41582003000100001
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Genome-wide association study for femur-related traits in broilers. Repositório Alice
ONO, R. K.; IBELLI, A. M. G.; CANTAO, M. E.; PEIXOTO, J. de O.; SOLLERO, B. P.; SUREK, D.; MOREIRA, G. C. M.; GODOY, T. F.; COUTINHO, L. L.; LEDUR, M. C..
Abstract: Due to the intense selection for heavier and faster growing broilers, metabolic disorders such as skeletal problems became a worldwide concern. Advances in genome-wide association study (GWAS) methodologies increased the possibility of elucidating the genetic architecture controlling bone integrity traits. Therefore, the aim of this study was to perform a GWAS to identify potential genetic markers and candidate genes associated with femur traits in a paternal broiler line developed by Embrapa. To this, three femur bone-related traits were evaluated in 1,433 chickens: dry matter (FDM), ash content (FAC) and breaking strength (FBS). Chickens were genotyped using the 600K Affymetrix® Axiom® HD panel. A total of 16 regions associated to FAC, being a...
Tipo: Separatas Palavras-chave: Integridade óssea; Características do fêmur; Associação genômica; QTLs; Melhoramento Genético Animal; Frango de Corte; Formação Óssea; Fêmur; Animal genetic resources; Broiler chickens; Bone metabolism; Quantitative trait loci.
Ano: 2018 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1093205
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Genome-wide detection of CNVs and their association with performance traits in broilers. Repositório Alice
FERNANDES, A. C.; SILVA, V. H. da; GOES, C. P.; MOREIRA, G. C. M.; GODOY, T. F.; IBELLI, A. M. G.; PEIXOTO, J. de O.; CANTAO, M. E.; LEDUR, M. C.; REZENDE, F. M. de; COUTINHO, L. L..
Abstract Background: Copy number variations (CNVs) are a major type of structural genomic variants that underlie genetic architecture and phenotypic variation of complex traits, not only in humans, but also in livestock animals. We identified CNVs along the chicken genome and analyzed their association with performance traits. Genome-wide CNVs were inferred from Affymetrix® high density SNP-chip data for a broiler population. CNVs were concatenated into segments and association analyses were performed with linear mixed models considering a genomic relationship matrix, for birth weight, body weight at 21, 35, 41 and 42 days, feed intake from 35 to 41 days, feed conversion ratio from 35 to 41 days and, body weight gain from 35 to 41 days of age. Results: We...
Tipo: Artigo de periódico Palavras-chave: GWAS; CNVs; Copy number variations; QTLs; QPCR; Desempenho zootécnico; Genética Animal; Gallus Domesticus; Performance; Animal genetics; Genome-wide association study; Animal performance; Quantitative trait loci; Quantitative polymerase chain reaction; Gallus gallus.
Ano: 2021 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1133197
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Identification of mutations in a QTL region on chromosome 3 associated with fatness in chickens. Repositório Alice
MOREIRA, G. C. M.; GODOY, T. F.; BOSCHIERO, C.; LEDUR, M. C.; GASPARIN, G.; ANDRADE, S. C. da S.; PADUAN, M.; COUTINHO, L. L..
Tipo: Separatas Palavras-chave: Mutations segregating; QTL; Galinha; Melhoramento genético animal; Chickens; Quantitative trait loci.
Ano: 2013 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/971381
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Identification of polymorphisms in a QTL region on chicken chromosome 2 associated with muscle deposition. Repositório Alice
GODOY, T. F.; MOREIRA, G. C. M.; BOSCHIERO, C.; LEDUR, M. C.; GASPARIN, G.; ANDRADE, S. C. da S.; PADUAN, M.; COUTINHO, L. L..
Tipo: Separatas Palavras-chave: Galinha; Polimorfismo genético; Chickens; Genetic polymorphism; Quantitative trait loci.
Ano: 2013 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/971356
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Identification of QTLS associated with percentage of dry matter and midrib color in sorghum. Repositório Alice
PINTO, M. de O.; ROCHA, D. D. D.; SILVA, L. F.; BERNARDINO, K. C.; PASTINA, M. M.; MAGALHAES, J. V. de; SCHAFFERT, R. E..
Tipo: Parte de livro Palavras-chave: Sorghum Bicolor; Gene; Quantitative trait loci.
Ano: 2017 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1091327
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Inheritance study and linkage mapping of resistance loci to Hemileia vastatrix in Híbrido de Timor UFV 443-03. Repositório Alice
PESTANA, K. N.; CAPUCHO, A. S.; CAIXETA, E. T.; ALMEIDA, D. P. de; ZAMBOLIM, E. M.; CRUZ, C. D.; ZAMBOLIM, L.; PEREIRA, A. A.; OLIVEIRA, A. C. B. de; SAKIYAMA, N. S..
Coffee leaf rust (CLR) caused by Hemileia vastatrix Berk. et Br. is one of the major Coffea arabica diseases world-wide. CLR resistance has been attributed to at least nine dominant genes, as single or in combination. We present an inheritance study and mapping loci involved in the Híbrido de Timor (HDT) UFV 443-03 resistance to race I, race II, and pathotype 001 of H. vastatrix . Molecular markers were used to ascertain the phenotypic results and to map the putative resistance loci. For all tree isolates, the inheritance study indicated that the resistance of HDT UFV 443-03 is conditioned by two independent dominant loci or by three independent loci (two dominant and one recessive). Molecular marker analyses ascertained that the resistance of HDT UFV...
Tipo: Artigo de periódico Palavras-chave: Leaf rust; Breeding; Chromosome mapping; Quantitative trait loci.
Ano: 2015 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1039824
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Mapping a QTL conferring resistance to Fusarium head blight on chromosome 1B in winter wheat (Triticum aestivum L.) OAK
Nishio, Zenta; Orme, Chihiro; Ito, Miwako; Tabiki, Tadashi; Nagasawa, Koichi; Miura, Hideho.
Fusarium head blight (FHB) is one of the most devastating diseases of wheat (Triticum aestivum L.), and the development of cultivars with FHB resistance is the most effective way to control the disease. Yumechikara is a Japanese hard red winter wheat cultivar that shows moderate resistance to FHB with superior bread-making quality. To identify quantitative trait loci (QTLs) for FHB resistance in Yumechikara, we evaluated doubled haploid lines derived from a cross between Yumechikara and a moderate susceptible cultivar, Kitahonami, for FHB resistance in a 5-year field trial, and we analyzed polymorphic molecular markers between the parents. Our analysis of these markers identified two FHB-resistance QTLs, one from Yumechikara and one from Kitahonami. The...
Palavras-chave: Fusarium head blight; Wheat; Resistance; Quantitative trait loci.
Ano: 2016 URL: http://ir.obihiro.ac.jp/dspace/handle/10322/4454
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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 de periódico 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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Marker-assisted pyramiding of resistance loci to grape downy mildew PAB
Saifert,Luciano; Sánchez-Mora,Fernando David; Assumpção,Wilson Taybar; Zanghelini,Jean Alberto; Giacometti,Renan; Novak,Eduardo Irineu; Vesco,Lírio Luiz Dal; Nodari,Rubens Onofre; Eibach,Rudolf; Welter,Leocir José.
Abstract: The objective of this work was to use a marker-assisted selection for pyramiding the resistance loci Rpv1 and Rpv3.1 in grapevine (Vitis vinifera), and to evaluate their conferred resistance against Brazilian downy mildew (Plasmopara viticola) isolates. A progeny of 23 plants, segregating for the two resistance loci, was obtained by the cross between the Gf 2000-305-122 and Gf.Ga-52-42 genotypes. The progeny was genotyped with four microsatellite markers and phenotyped for resistance to P. viticola using a bioassay with leaf discs. Six plants containing the Rpv1 and Rpv3.1 pyramided loci were identified by the molecular analysis. Plants harboring the Rpv1 + Rpv3.1, Rpv3.1, and Rpv1 loci showed 12.8, 30.0, and 33.1 sporangiophores per leaf disc,...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Plasmopara viticola; Vitis vinifera; Enological quality; Genetic resistance to disease; Grapevine breeding; Quantitative trait loci.
Ano: 2018 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-204X2018000500602
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Multitrait composite interval mapping reveals pleiotropic QTL on chicken chromosome 1. Repositório Alice
ROSÁRIO, M. F. do; GAZAFFI, R.; MOURA, A. S. A. M. T.; LEDUR, M. C.; NONES, K.; GARCIA, A.; COUTINHO, L. L..
Tipo: Separatas Palavras-chave: Mapeamento genético; Cromossomo; Galinha; Quantitative trait loci; Chickens.
Ano: 2012 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/970538
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Muscle allele-specifc expression QTLs may afect meat quality traits in Bos indicus. Repositório Alice
BRUSCADIN, J. J.; SOUZA, M. M. de; OLIVEIRA, K. S. de; ROCHA, M. I. P.; AFONSO, J.; CARDOSO, T. F.; ZERLOTINI NETO, A.; COUTINHO, L. L.; NICIURA, S. C. M.; REGITANO, L. C. de A..
Single nucleotide polymorphisms (SNPs) located in transcript sequences showing allele-specifc expression (ASE SNPs) were previously identifed in the Longissimus thoracis muscle of a Nelore (Bos indicus) population consisting of 190 steers. Given that the allele-specifc expression pattern may result from cis-regulatory SNPs, called allele-specifc expression quantitative trait loci (aseQTLs), in this study, we searched for aseQTLs in a window of 1 Mb upstream and downstream from each ASE SNP. After this initial analysis, aiming to investigate variants with a potential regulatory role, we further screened our aseQTL data for sequence similarity with transcription factor binding sites and microRNA (miRNA) binding sites. These aseQTLs were overlapped with...
Tipo: Artigo de periódico Palavras-chave: Expressão gênica; Functional genomics; Regulação gênica; Polimorfismo de nucleotídeo único; Gene regulation; Animal biotechnology; Bos Indicus; Gado Nelore; Animal breeding; Gene expression; Genetic markers; Genetics; Genome; Genomics; Genotype; Single nucleotide polymorphism; Quantitative trait loci.
Ano: 2021 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1131654
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Muscle allele-specific expression QTLs may affect meat quality traits in Bos indicus. Repositório Alice
BRUSCADIN, J. J.; SOUZA, M. M. de; OLIVEIRA, K. S. de; ROCHA, M. I. P.; AFONSO, J.; CARDOSO, T. F.; ZERLOTINI NETO, A.; COUTINHO, L. L.; NICIURA, S. C. M.; REGITANO, L. C. de A..
Abstract. Single nucleotide polymorphisms (SNPs) located in transcript sequences showing allele-specific expression (ASE SNPs) were previously identified in the Longissimus thoracis muscle of a Nelore (Bos indicus) population consisting of 190 steers. Given that the allele-specific expression pattern may result from cis-regulatory SNPs, called allele-specific expression quantitative trait loci (aseQTLs), in this study, we searched for aseQTLs in a window of 1 Mb upstream and downstream from each ASE SNP. After this initial analysis, aiming to investigate variants with a potential regulatory role, we further screened our aseQTL data for sequence similarity with transcription factor binding sites and microRNA (miRNA) binding sites. These aseQTLs were...
Tipo: Artigo de periódico Palavras-chave: Polimorfismo de nucleotídeo único; Loci de característica quantitativa; Expressão alélica; Imprint genômico; Allelic expression; Allele-specific expression; Gado Nelore; Bos Indicus; Single nucleotide polymorphism; Quantitative trait loci; Genomic imprinting.
Ano: 2021 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1133623
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Physical mapping of genes in the porcine ovarian transcriptome. Repositório Alice
CAETANO, A. R.; EDEAL, J. B.; BURNS, K.; JOHNSON, R. K.; TUGGLE, C. K.; POMP, D..
Tipo: Separatas Palavras-chave: Expression profiling; Mapa genético; Folículo ovariano; Radiação híbrida; Suíno; Expressed sequence tags; Quantitative trait loci.
Ano: 2005 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/184136
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