G3: Genes, Genomes, Genetics

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Genomic Selection in Multi-environment Crop Trials
G3: Genes, Genomes, Genetics - Tập 6 Số 5 - Trang 1313-1326 - 2016
Helena Oakey, B. R. Cullis, R. Thompson, Jordi Comadran, Claire Halpin, Robbie Waugh
AbstractGenomic selection in crop breeding introduces modeling challenges not found in animal studies. These include the need to accommodate replicate plants for each line, consider spatial variation in field trials, address line by environment interactions, and capture nonadditive effects. Here, we propose a flexible single-stage genomic selection approach that resolves these issues. Our linear m... hiện toàn bộ
A Targeted Capture Linkage Map Anchors the Genome of the Schistosomiasis Vector Snail, Biomphalaria glabrata
G3: Genes, Genomes, Genetics - Tập 7 Số 7 - Trang 2353-2361 - 2017
Jacob A. Tennessen, Stephanie R. Bollmann, Michael S. Blouin
Abstract The aquatic planorbid snail Biomphalaria glabrata is one of the most intensively-studied mollusks due to its role in the transmission of schistosomiasis. Its 916 Mb genome has recently been sequenced and annotated, but it remains poorly assembled. Here, we used targeted capture markers to map over 10,000 B. glabrata scaffolds in a linkage cross of 94 F1 offspring, generating 24 linkage gr... hiện toàn bộ
Single-Step BLUP with Varying Genotyping Effort in Open-Pollinated Picea glauca
G3: Genes, Genomes, Genetics - Tập 7 Số 3 - Trang 935-942 - 2017
Blaise Ratcliffe, Omnia Gamal El‐Dien, Eduardo P. Cappa, Ilga Porth, Jaroslav Klápště, Charles Chen, Yousry A. El‐Kassaby
Abstract Maximization of genetic gain in forest tree breeding programs is contingent on the accuracy of the predicted breeding values and precision of the estimated genetic parameters. We investigated the effect of the combined use of contemporary pedigree information and genomic relatedness estimates on the accuracy of predicted breeding values and precision of estimated genetic parameters, as we... hiện toàn bộ
Genetic Linkage Mapping of Economically Important Traits in Cultivated Tetraploid Potato (Solanum tuberosum L.)
G3: Genes, Genomes, Genetics - Tập 5 Số 11 - Trang 2357-2364 - 2015
Alicia N. Massa, Norma C. Manrique‐Carpintero, Joseph Coombs, Daniel G. Zarka, Anne E Boone, W. W. Kirk, Christine A. Hackett, Glenn J. Bryan, David S. Douches
Abstract The objective of this study was to construct a single nucleotide polymorphism (SNP)-based genetic map at the cultivated tetraploid level to locate quantitative trait loci (QTL) contributing to economically important traits in potato (Solanum tuberosum L.). The 156 F1 progeny and parents of a cross (MSL603) between “Jacqueline Lee” and “MSG227-2” were genotyped using the Infinium 8303 Pota... hiện toàn bộ
Aspergillus fumigatusMADS-Box Transcription FactorrlmAIs Required for Regulation of the Cell Wall Integrity and Virulence
G3: Genes, Genomes, Genetics - Tập 6 Số 9 - Trang 2983-3002 - 2016
Marina Campos Rocha, João Henrique Tadini Marilhano Fabri, Krissia Franco de Godoy, Patrícia Alves de Castro, Juliana Issa Hori, Anderson Ferreira da Cunha, Mark Arentshorst, Arthur F. J. Ram, Cees A. M. J. J. van den Hondel, Gustavo H. Goldman, Iran Malavazi
AbstractThe Cell Wall Integrity (CWI) pathway is the primary signaling cascade that controls the de novo synthesis of the fungal cell wall, and in Saccharomyces cerevisiae this event is highly dependent on the RLM1 transcription factor. Here, we investigated the function of RlmA in the fungal pathogen Aspergillus fumigatus. We show that the ΔrlmA strain exhibits an altered cell wall organization i... hiện toàn bộ
A Genetic Map BetweenGossypium hirsutumand the Brazilian EndemicG. mustelinumand Its Application to QTL Mapping
G3: Genes, Genomes, Genetics - Tập 6 Số 6 - Trang 1673-1685 - 2016
Baohua Wang, Liu Li-mei, Dong Zhang, Zhimin Zhuang, Hui Guo, Xin Qiao, Lijuan Wei, Junkang Rong, O. Lloyd May, Andrew H. Paterson, Peng W. Chee
AbstractAmong the seven tetraploid cotton species, little is known about transmission genetics and genome organization in Gossypium mustelinum, the species most distant from the source of most cultivated cotton, G. hirsutum. In this research, an F2 population was developed from an interspecific cross between G. hirsutum and G. mustelinum (HM). A genetic linkage map was constructed mainly using sim... hiện toàn bộ
A Genome Assembly of the Barley ‘Transformation Reference’ Cultivar Golden Promise
G3: Genes, Genomes, Genetics - Tập 10 Số 6 - Trang 1823-1827 - 2020
Miriam Schreiber, Martin Mascher, Jonathan Wright, Sudharsan Padmarasu, Axel Himmelbach, Darren Heavens, Linda Milne, Bernardo Clavijo, Nils Stein, Robbie Waugh
AbstractBarley (Hordeum vulgare) is one of the most important crops worldwide and is also considered a research model for the large-genome small grain temperate cereals. Despite genomic resources improving all the time, they are limited for the cv. Golden Promise, the most efficient genotype for genetic transformation. We have developed a barley cv. Golden Promise reference assembly integrating Il... hiện toàn bộ
Stacks: Building and Genotyping Loci De Novo From Short-Read Sequences
G3: Genes, Genomes, Genetics - Tập 1 Số 3 - Trang 171-182 - 2011
Julian Catchen, Angel Amores, Paul A. Hohenlohe, William A. Cresko, John H. Postlethwait
Abstract Advances in sequencing technology provide special opportunities for genotyping individuals with speed and thrift, but the lack of software to automate the calling of tens of thousands of genotypes over hundreds of individuals has hindered progress. Stacks is a software system that uses short-read sequence data to identify and genotype loci in a set of individuals either de novo or by comp... hiện toàn bộ
Nuclear Gene Variation in Wild Brown Rats
G3: Genes, Genomes, Genetics - Tập 2 Số 12 - Trang 1661-1664 - 2012
Rob W. Ness, Yao‐Hua Zhang, Lin Cong, Yu Wang, Peter D. Keightley
AbstractAlthough the brown rat (Rattus norvegicus) is widely used as a model mammal throughout biological sciences, little is known about genetic variation in wild rat populations or the relationship of commonly used inbred strains to their wild relatives. We sampled wild brown rats from the species’ presumed ancestral range in NW China and from a derived population in the UK and estimated nucleot... hiện toàn bộ
A Resource of Quantitative Functional Annotation forHomo sapiensGenes
G3: Genes, Genomes, Genetics - Tập 2 Số 2 - Trang 223-233 - 2012
Murat Taşan, Harold J. Drabkin, John Beaver, Hon Nian Chua, Julie Dunham, Weidong Tian, Judith A. Blake, Frederick P. Roth
AbstractThe body of human genomic and proteomic evidence continues to grow at ever-increasing rates, while annotation efforts struggle to keep pace. A surprisingly small fraction of human genes have clear, documented associations with specific functions, and new functions continue to be found for characterized genes. Here we assembled an integrated collection of diverse genomic and proteomic data ... hiện toàn bộ
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