Integrating multi-locus genome-wide association studies with transcriptomic data to identify genetic loci underlying adult root trait responses to drought stress in flax (Linum usitatissimum L.)

Primer Autor
Soto-Cerda, Braulio J.
Co-autores
Larama, Giovanni
Gajardo, Humberto
Inostroza-Blancheteau, Claudio
Cloutier, Sylvie
Fofana, Bourlaye
Abanto, Michel
Aravena, Gabriela
Título
Integrating multi-locus genome-wide association studies with transcriptomic data to identify genetic loci underlying adult root trait responses to drought stress in flax (Linum usitatissimum L.)
Editorial
PERGAMON-ELSEVIER SCIENCE LTD
Revista
ENVIRONMENTAL AND EXPERIMENTAL BOTANY
Lenguaje
en
Resumen
Water stress is a major constraint on crop production and, root systems are one of the key features of plants determining drought tolerance and yield. In this study, five root morphological traits and their stability indices were evaluated at the reproductive stage on an association panel consisting of 120 diverse Linum usitatissimum accessions grown under well-watered and water-limiting conditions. To identify quantitative trait loci (QTL) and candidate genes positively influencing root traits under drought, combined multi-locus genome-wide association studies (ML-GWAS) and transcriptomic data analysis were carried out. A total of 112 QTL were identified accounting for 0.45-24.28 % of the phenotypic variation for root-related traits. Fifty QTL were detected by at least two ML-GWAS models, and 26 were co-located with previously reported QTL associated with yield-related traits under drought and early root and shoot development. Phenotypic differences between two contrasting subsets of accessions for the traits assessed were attributable to the accumulation of positive QTL alleles (PQTL), where the subset with the largest number of PQTL registered 154 % and 69 % greater total root length and yield under drought stress, respectively, than the subset with the fewest PQTL. Transcriptomic data analysis identified 766 differentially expressed genes (DEGs) responsive to drought stress in 108 QTL. Annotation of the 766 DEGs yielded functional genes involved in root development, stomatal closure, ROS (reactive oxygen species) scavenging, and hormone responses, among others. Taken together, the combined use of GWAS and transcriptomic data analyses provide the foundation for our enhanced understanding of root trait morphological changes in response to drought stress, and to achieve superior yield resilience/stability under water shortages in flax through enhanced molecular breeding. Data availability: All data supporting the findings of this study are available within the paper and within its Supplementary data
Tipo de Recurso
artículo original
Description
This work was funded by Fondo Nacional de Desarrollo Cientifico y Tecnologico (FONDECYT) project No1161133. Universidad Catolica de Temuco acknowledges the collaboration of Agriculture and Agri-Food Canada (AAFC) and the Total Utilization Flax GENomics (TUFGEN) project formerly funded by Genome Canada and other stakeholders of the Canadian flax industry.
Este trabajo fue financiado por el proyecto No1161133 del Fondo Nacional de Desarrollo Científico y Tecnológico (FONDECYT). La Universidad Católica de Temuco reconoce la colaboración de Agriculture and Agri-Food Canada (AAFC) y el proyecto Total Utilization Flax GENomics (TUFGEN), anteriormente financiado por Genome Canada y otras partes interesadas de la industria canadiense del lino.
doi
10.1016/j.envexpbot.2022.105019
Formato Recurso
PDF
Palabras Claves
Drought stress
Root traits
Linum usitatissimum
Multi-locus GWAS
Candidate genes
RNA-Seq
ABSCISIC-ACID
SYSTEM ARCHITECTURE
EMPIRICAL BAYES
GRAIN-YIELD
TOLERANCE
GROWTH
WHEAT
OVEREXPRESSION
ADAPTATION
EXPRESSION
Ubicación del archivo
http://dx.doi.org/10.1016/j.envexpbot.2022.105019
Categoría OCDE
Ciencias Vegetales
Ciencias Ambientales
Materias
Estrés por sequía
Rasgos de raíz
Linum usitatissimum
GWAS multilocus
Genes candidatos
RNA-Seq
ÁCIDO ABSCISICO
ARQUITECTURA DEL SISTEMA
BAHÍAS EMPÍRICAS
RENDIMIENTO DE GRANOS
TOLERANCIA
CRECIMIENTO
TRIGO
SOBREEXPRESIÓN
ADAPTACIÓN
EXPRESIÓN
Disciplinas de la OCDE
Fitomejoramiento y protección vegetal
Biotecnología agrícola
Genética y Herencia
Título de la cita (Recomendado-único)
Integrating multi-locus genome-wide association studies with transcriptomic data to identify genetic loci underlying adult root trait responses to drought stress in flax (Linum usitatissimum L.)
Identificador del recurso (Mandatado-único)
artículo original
Versión del recurso (Recomendado-único)
version publicada
Condición de la licencia (Recomendado-repetible)
0
Derechos de acceso
metadata
Access Rights
metadata
Referencia del Financiador (Mandatado si es aplicable-repetible)
ANID-FONDECYT 1161133
ANID FONDECYT 1161133
Id de Web of Science
WOS:000858932100002
Colecciones
Colección Publicaciones Científicas
Colección ANID
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