Using an incomplete block design to allocate lines to environments improves sparse genome-based prediction in plant breeding

Osval Antonio Montesinos-Lopez ABELARDO MONTESINOS LOPEZ RICARDO ACOSTA DIAZ Rajeev Varshney Jose Crossa ALISON BENTLEY (2022, [Artículo])

Genomic selection (GS) is a predictive methodology that trains statistical machine-learning models with a reference population that is used to perform genome-enabled predictions of new lines. In plant breeding, it has the potential to increase the speed and reduce the cost of selection. However, to optimize resources, sparse testing methods have been proposed. A common approach is to guarantee a proportion of nonoverlapping and overlapping lines allocated randomly in locations, that is, lines appearing in some locations but not in all. In this study we propose using incomplete block designs (IBD), principally, for the allocation of lines to locations in such a way that not all lines are observed in all locations. We compare this allocation with a random allocation of lines to locations guaranteeing that the lines are allocated to

the same number of locations as under the IBD design. We implemented this benchmarking on several crop data sets under the Bayesian genomic best linear unbiased predictor (GBLUP) model, finding that allocation under the principle of IBD outperformed random allocation by between 1.4% and 26.5% across locations, traits, and data sets in terms of mean square error. Although a wide range of performance improvements were observed, our results provide evidence that using IBD for the allocation of lines to locations can help improve predictive performance compared with random allocation. This has the potential to be applied to large-scale plant breeding programs.

CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA Bayes Theorem Genome Inflammatory Bowel Diseases Models, Genetic Plant Breeding

EGS planning, production, maintenance of inbred lines and Quality Assurance/Quality Control (QA/QC)

Fidelis Owino Berhanu Tadesse Ertiro (2022, [Objeto de congreso])

CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA INBRED LINES SEED QUALITY QUALITY CONTROL GENETIC MARKERS

Preliminary dissection of grain yield and related traits at differential nitrogen levels in diverse pre-breeding wheat germplasm through association mapping

Achla Sharma Juan Burgueño Prashant Vikram Nitika Sandhu Satinder Kaur Parveen Chhuneja (2023, [Artículo])

Plant Nitrogen Use Efficiency Pre-Breeding Lines Genome-Wide Association Study Marker Trait Association CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA WHEAT PRE-BREEDING BREEDING LINES NITROGEN LANDRACES GENETIC MARKERS

Breeding for native genetic resistance to FAW in Africa-adapted early- and intermediate-maturing tropical maize germplasm

Yoseph Beyene Anani Bruce Manje Gowda Andrew Chavangi Prasanna Boddupalli (2023, [Objeto de congreso])

CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA BREEDING GENETIC RESISTANCE MAIZE GERMPLASM HYBRIDS

Chapter 9. Genome-informed discovery of genes and framework of functional genes in wheat

awais rasheed Rudi Appels (2024, [Capítulo de libro])

Wheat Genomics KASP Markers Gene Discovery Functional Markers Gene Networks CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA WHEAT GENOMICS SINGLE NUCLEOTIDE POLYMORPHISMS FUNCTIONAL GENOMICS

Molecular pre-breeding in wheat physiology

David González-Diéguez (2023, [Objeto de congreso])

CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA WHEAT PRE-BREEDING MOLECULAR GENETICS MARKER-ASSISTED SELECTION INTROGRESSION

Complex traits and candidate genes: estimation of genetic variance components across multiple genetic architectures

GIOVANNY COVARRUBIAS-PAZARAN Hans-Peter Piepho (2023, [Artículo])

Average Semivariance Linear Mixed Model Variance Component Estimation Polygenic Inheritance Oligogenic Inheritance Mendelian Inheritance CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA MENDELISM GENETIC VARIANCE GENOME-WIDE ASSOCIATION STUDIES PHENOTYPES CHROMOSOME MAPPING

Celebrating Professor Rajeev K. Varshney's transformative research odyssey from genomics to the field on his induction as Fellow of the Royal Society

Vanika Garg Rutwik Barmukh Manish Roorkiwal Chris Ojiewo Abhishek Bohra MAHENDAR THUDI Vikas Kumar Singh Himabindu Kudapa Reyaz Mir Chellapilla Bharadwaj Xin Liu Manish Pandey (2024, [Artículo])

Agricultural Biotechnology Crop Genomics Genome Sequencing CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA BIOTECHNOLOGY CROPS GENOMICS PLANT BREEDING AGRICULTURE GENETIC IMPROVEMENT

COMPOSICIÓN FLORÍSTICA DE CUATRO HÁBITATS EN EL RANCHO LAS PAPAS DE ARRIBA, MUNICIPIO DE OJUELOS DE JALISCO, JALISCO, MÉXICO

Mollie Harker LUZ ADRIANA GARCIA RUBIO MONICA ELIZABETH RIOJAS LOPEZ (2008, [Artículo])

En el rancho Las Papas de Arriba, municipio de Ojuelos de Jalisco, Jalisco se estudió la composición florística y las formas biológicas de cuatro hábitats: matorral xerófilo crasicaule, pastizal, cultivo maduro de nopal tunero (Opuntia spp.) y cultivo joven de nopal tunero, con el objetivo de dar cuenta de la riqueza de este sitio y comparar la fisonomía de los diferentes ambientes. El catálogo consta de 356 especies y taxa subespecíficos, las que representan 73 familias y 230 géneros de plantas vasculares. Las familias con mayor número de géneros y especies son Asteraceae (48, 76), Poaceae (29, 46), Fabaceae (13, 19) y Cactaceae (6, 19) y los géneros con mayor riqueza Opuntia (10), Euphorbia (9), Solanum (7), Pseudognaphalium (6), Bouteloua (6), Ipomoea (6) y Muhlenbergia (6). Del total de especies registradas, 36% son endémicas de México y 4% son introducidas; nueve no se conocían antes de Jalisco y cinco tienen problemas de conservación. Las formas de vida mejor representadas son las plantas herbáceas con 285 especies, anuales 108 y perennes 177 (en conjunto alcanzando 80% del total). El matorral muestra la mayor diversidad alfa con 223 especies (62.6 % del total) y es el hábitat más complejo en fisonomía conteniendo siete formas de vida, así como el que presenta el mayor número de elementos exclusivos. El pastizal contiene 119 especies (33.4% del total), el cultivo maduro de nopal 138 (38.8%) y el cultivo joven de nopal 132 (37.1%). Estos dos últimos hábitats fueron los más similares en cuanto a la composición florística compartiendo 35% de las especies.

BIOLOGÍA Y QUÍMICA CIENCIAS DE LA VIDA BIOLOGÍA VEGETAL (BOTÁNICA) BOTÁNICA GENERAL BOTÁNICA GENERAL

Results from rapid-cycle recurrent genomic selection in spring bread wheat

Susanne Dreisigacker Paulino Pérez-Rodríguez Leonardo Abdiel Crespo Herrera Alison Bentley Jose Crossa (2023, [Artículo])

Genomic-Assisted Breeding Molecular Markers Pedigree Information Genomic Prediction CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA GENOMICS GENETIC MARKERS WHEAT BREEDING PROGRAMMES