Stacks: Building and Genotyping Loci De Novo From Short-Read Sequences 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 i...... hiện toàn bộ A New Chicken Genome Assembly Provides Insight into Avian Genome Structure Tập 7 Số 1 - Trang 109-117 - 2017
Wesley C. Warren, LaDeana W. Hillier, Chad Tomlinson, Patrick Minx, Milinn Kremitzki, Tina Graves, Chris Markovic, Nathan Bouk, Kim D. Pruitt, Françoise Thibaud‐Nissen, Valérie Schneider, Tamer Mansour, C. Titus Brown, Aleksey V. Zimin, Rachel Hawken, Mitch Abrahamsen, Alexis Black Pyrkosz, Mireille Morisson, Valérie Fillon, Alain Vignal, William Chow, Kerstin Howe, Janet E. Fulton, Marcia M. Miller, Peter V. Lovell, Claudio V. Mello, Morgan Wirthlin, Andrew S. Mason, Richard Kuo, David W. Burt, Jerry B. Dodgson, Hans H. Cheng
Abstract
The importance of the Gallus gallus (chicken) as a model organism and agricultural animal merits a continuation of sequence assembly improvement efforts. We present a new version of the chicken genome assembly (Gallus_gallus-5.0; GCA_000002315.3), built from combined long single molecule sequencing technology, finished BACs, and improved phy...... hiện toàn bộ Genomic Selection in Multi-environment Crop Trials 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 re...... hiện toàn bộ Aspergillus fumigatusMADS-Box Transcription FactorrlmAIs Required for Regulation of the Cell Wall Integrity and Virulence 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...... hiện toàn bộ A Genome Assembly of the Barley ‘Transformation Reference’ Cultivar Golden Promise 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 ...... hiện toàn bộ Genetic Linkage Mapping of Economically Important Traits in Cultivated Tetraploid Potato (Solanum tuberosum L.) 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 “MSG22...... hiện toàn bộ Single-Step BLUP with Varying Genotyping Effort in Open-Pollinated Picea glauca 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 ...... hiện toàn bộ Linking anthocyanin diversity, hue, and genetics in purple corn Tập 11 Số 2 - 2021
Laura A. Chatham, John A. Juvik
Abstract
While maize with anthocyanin-rich pericarp (purple corn) is rising in popularity as a source of natural colorant for foods and beverages, information on color range and stability—factors associated with anthocyanin decorations and compositional profiles—is currently limited. Furthermore, to maximize the scalability and meet growing demands, ...... hiện toàn bộ Nuclear Gene Variation in Wild Brown Rats 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 populatio...... hiện toàn bộ