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

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

On-farm assessment of yield and quality traits in durum wheat

Facundo Tabbita Iván Ortíz-Monasterios Francisco Javier Pinera-Chavez Maria Itria Ibba Carlos Guzman (2023, [Artículo])

BACKGROUND: Durum wheat is key source of calories and nutrients for many regions of the world. Demand for it is predicted to increase. Further efforts are therefore needed to develop new cultivars adapted to different future scenarios. Developing a novel cultivar takes, on average, 10 years and advanced lines are tested during the process, in general, under standardized conditions. Although evaluating candidate genotypes for commercial release under different on-farm conditions is a strategy that is strongly recommended, its application for durum wheat and particularly for quality traits has been limited. This study evaluated the grain yield and quality performance of eight different genotypes across five contrasting farmers’ fields over two seasons. Combining different analysis strategies, the most outstanding and stable genotypes were identified. RESULTS: The analyses revealed that some traits were mainly explained by the genotype effect (thousand kernel weight, flour sodium dodecyl sulfate sedimentation volume, and flour yellowness), others by the management practices (yield and grain protein content), and others (test weight) by the year effect. In general, yield showed the highest range of variation across genotypes, management practices, and years and test weight the narrowest range. Flour yellowness was the most stable trait across management conditions, while yield-related traits were the most unstable. We also determined the most representative and discriminative field conditions, which is a beneficial strategy when breeders are constrained in their ability to develop multi-environment experiments. CONCLUSIONS: We concluded that assessing genotypes in different farming systems is a valid and complementary strategy for on-station trials for determining the performance of future commercial cultivars in heterogeneous environments to improve the breeding process and resources.

Wheat Quality GGE Analysis Flour Yellowness CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA FLOURS WHEAT QUALITY YIELDS FIELD EXPERIMENTATION

Las patologías de los recubrimientos en muros y su repercusión en la salud respiratoria de los usuarios

Rosario Tovar (2023, [Tesis de doctorado])

251 páginas. Doctorado en Diseño Bioclimático.

El nivel de calidad del aire interior (CAI) tiene incidencia directa en la salud humana, por eso, es objeto de estudio del diseño bioclimático, toda vez que éste promueve el aprovechamiento de los factores ambientales para la creación y acondicionamiento de espacios en los que los usuarios experimenten confort y bienestar. Además, de impulsar la construcción con sentido común, en donde prevalezca el uso racional de los recursos y una baja dependencia energética. En la presente tesis se pudieron identificar las propiedades de los materiales más comunes que conforman los recubrimientos de muros (cal, cemento, mortero de cemento y yeso) para reconocer los que mejor se adaptan al clima en la Cd. de México, mismos que según se pudo constatar, contribuyen en el control de algunos factores de riesgo (físico: humedad, químico: tóxicos y biológico: microbios) relacionados con una baja calidad del aire al interior de las viviendas. Tal función mitiga o reduce la aparición de algunos de los padecimientos respiratorios más frecuentes en los usuarios como: alergias, asma, rinitis, gripe y sinusitis. Los análisis a los que fueron sometidos los recubrimientos de cuatro materiales ligantes, permitieron evaluar su desempeño ante factores ambientales semi-controlados (temperatura, humedad relativa y concentración de dióxido de carbono) inherentes al funcionamiento del propio espacio interior y al lugar de emplazamiento del mismo. Obviamente, todos los recubrimientos reaccionaron de forma distinta y acorde con las propiedades físicas y químicas de los materiales presentes en cada uno de ellos. Siendo las variaciones más representativas y satisfactorias, las relacionadas con la permeabilidad y el efecto biocida de los recubrimientos hechos con mezcla de cal. Las patologías que mostraron algunos recubrimientos a lo largo del periodo de monitoreo, debido a la insuficiente gestión de la humedad, al alto desarrollo microbiano y a la naturaleza química del material ligante, fueron criptoeflorescencias, moho, bacterias y desprendimiento/diseminación de partículas; mismas que se consideraron definitorias para establecer que al igual que los seres vivos, los materiales de construcción necesitan rangos higrotérmicos específicos, que permitan su óptimo estado de operación. En apego a lo anteriormente citado, es que se considera conveniente concientizar a la población en temas tan importantes para el bienestar social, como la selección de materiales y -consecuente- conservación de los recubrimientos de muros, no sólo para disminuir los costos de ejecución y mantenimiento, sino para aprovechar sus propiedades, ya que tienen una incidencia directa en lo relacionado con el control de las condiciones ambientales básicas, la regulación de la calidad del aire interior y por ende, en la salud de los usuarios. Dicha labor puede iniciar en la etapa formativa de los profesionales de la construcción, con la intención de normalizar el estudio o correcta selección de los sistemas constructivos en función del clima, pero también identificando la función de cada espacio; para garantizar así, que las propuestas de diseño responderán -satisfactoriamente- a los requerimientos de regulación de la humedad, mediante su absorción, transpiración y/o evaporación.

The level of indoor air quality (IAQ) has a direct incidence on the human health, therefore, is the object of study of bioclimatic design, since it promotes the harnessing environmental factors for the creation and conditioning of spaces in which users experience comfort and well-being. In addition, to encourage construction with common sense, where the rational use of resources and low energy dependence prevail. In this thesis it has been identified the properties of the materials that make up the most common wall coverings (hydrated lime, cement, cement mortar and gypsum) for recognizing those that best adapt to the weather in Mexico City, as it could be verified, they contribute to the control of some risk factors (physical:moisture, chemical:toxics and biological:microbes) related with a low indoor air quality at dwellings. This function mitigates or reduces the appearance of some of the most frequent respiratory ailments in users such as: allergies, asthma, rhinitis, flu and sinusitis. The analyses to which the coatings of four binding materials were subjected, allowed to evaluate their performance in the face of semi-controlled environmental factors (temperature, relative humidity, and carbon dioxide concentration) inherent to the operation of the interior space itself and the place of its location. Obviously, all the coatings reacted differently and according with the physical and chemical properties of the materials in each of them. Being the most representative and satisfactory variations, those related to the permeability and biocidal effect of coatings made with hydrated lime mixture. The pathologies that some coatings showed throughout the monitoring period, due to insufficient moisture management, the high microbial development, and the chemical nature of the binding material, were cryptoefflorescences, mold, bacteria and particle shedding/dissemination; they were defining to establish that in similar way to living beings, building materials need specific hygrothermal ranges, to let them works in an optimal state. According with the above, it is considered convenient to raise awareness among the population on issues as important for social welfare, such as the selection of materials and -consequently- conservation of wall coverings, not only to reduce the costs of execution and maintenance, but to take advantage of their properties, since they have a direct incidence in all related with the control of basic environmental conditions, the regulation of indoor air quality and therefore, in users’ health. This work can begin in the formative stage of construction professionals, with the intention of standardizing the study or correct selection of construction systems depending on the weather, but also identifying the function of each space; to guarantee that the design proposals will respond -satisfactorily- to the requirements of humidity regulation, through its absorption, transpiration and/or evaporation.

Muro, recubrimientos, patologías, salud. Wall, coating, pathologies, health. Indoor air pollution--Health aspects. Architecture--Health aspects. Interior walls. Protective coatings. Lime as a disinfectant. Building materials. Communicable diseases--Transmission--Prevention. Contaminación del aire interior. Muros interiores. Revestimientos. Cal como desinfectante. RA577.5 HUMANIDADES Y CIENCIAS DE LA CONDUCTA CIENCIAS DE LAS ARTES Y LAS LETRAS ARQUITECTURA DISEÑO ARQUITECTÓNICO

Indian wheat genomics initiative for harnessing the potential of wheat germplasm resources for breeding disease-resistant, nutrient-dense, and climate-resilient cultivars

Sundeep Kumar Reyaz Mir Pawan Kulwal UTTAM KUMAR suneel kumar Shailendra Sharma Ravinder Singh Amit Singh Dr. Subhash Bhardwaj Manoj Prasad Kuldeep Singh (2022, [Artículo])

Indian Wheat Genomics Initiative Genomic Selection CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA WHEAT GENETIC RESOURCES MARKER-ASSISTED SELECTION GENE BANKS STRESS ABIOTIC STRESS BIOTIC STRESS

Energy and economic efficiency of climate-smart agriculture practices in a rice–wheat cropping system of India

Manish Kakraliya Deepak Bijarniya Parbodh Chander Sharma ML JAT (2022, [Artículo])

Intensive Tillage Conventional Rice–Wheat Systems Energy Efficiency On-Farm Studies Climate-Smart Agricultural Practices CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA CLIMATE-SMART AGRICULTURE RICE WHEAT CROPPING SYSTEMS

Chapter 17. Conserving wheat genetic resources

Filippo Guzzon Maraeva Gianella Thomas Payne (2022, [Capítulo de libro])

Genetic Reserves Seed Conservation Wheat Wild Relatives CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA GERMPLASM BANKS ON-FARM CONSERVATION SEEDS SEED VIABILITY WHEAT

Genome-wide association study of common resistance to rust species in tetraploid wheat

Daniela Marone Anna Maria Mastrangelo Karim Ammar Filippo Maria Bassi Meinan Wang Xianming Chen Diego Rubiales Oadi Matny Brian Steffenson (2024, [Artículo])

Wheat Rusts Tetraploid Wheat Multi-Location Trials CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA QUANTITATIVE TRAIT LOCI TETRAPLOIDY WHEAT RUSTS GENOME-WIDE ASSOCIATION STUDIES

Visualising the pattern of long-term genotype performance by leveraging a genomic prediction model

Vivi Arief Ian Delacy Thomas Payne Kaye Basford (2022, [Artículo])

Factor Analytic Genotype-By-Year Historical Data Relationship Matrix CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA GENOTYPES PLANT BREEDING SPRING WHEAT RESEARCH

Impact of different on-farm management practices on bread wheat quality: a case study in the Yaqui Valley

Facundo Tabbita Iván Ortíz-Monasterios Francisco Javier Pinera-Chavez Maria Itria Ibba Carlos Guzman (2023, [Artículo])

BACKGROUND: Continuous development of new wheat varieties is necessary to satisfy the demands of farmers, industry, and consumers. The evaluation of candidate genotypes for commercial release under different on-farm conditions is a strategy that has been strongly recommended to assess the performance and stability of new cultivars in heterogeneous environments and under different farming systems. The main objectives of this study were to evaluate the grain yield and quality performance of ten different genotypes across six contrasting farmers' field conditions with different irrigation and nitrogen fertilization levels, and to develop suggestions to aid breeding programs and farmers to use resources more efficiently. Genotype and genotype by environment (GGE) interaction biplot analyses were used to identify the genotypes with the strongest performance and greatest stability in the Yaqui Valley. RESULTS: Analyses showed that some traits were mainly explained by the genotype effect, others by the field management conditions, and the rest by combined effects. The most representative and diverse field conditions in the Yaqui Valley were also identified, a useful strategy when breeders have limited resources. The independent effects of irrigation and nitrogen levels and their interaction were analyzed for each trait. The results showed that full irrigation was not always necessary to maximize grain yield in the Yaqui Valley. Other suggestions for more efficient use of resources are proposed. CONCLUSIONS: The combination of on-farm trials with GGE interaction analyses is an effective strategy to include in breeding programs to improve processes and resources. Identifying the most outstanding and stable genotypes under real on-farm systems is key to the development of novel cultivars adapted to different management and environmental conditions.

Wheat Quality Bread Wheat Bread-Making CIENCIAS AGROPECUARIAS Y BIOTECNOLOGÍA SOFT WHEAT QUALITY FARMING SYSTEMS