Genome wide association studies for japonica rice resistance to blast in field and controlled conditions

Rice

Giampiero Valè¹  Andrea Volante²  Elisa Zampieri³  Luigi Cattivelli⁴  Francesca Desiderio⁴  Chiara Biselli⁴  Alessandro Tondelli⁴  Pamela Abbruscato⁵  Barbara Menin⁶  Laura Casella⁷  Susan R. McCouch⁸  Namrata Singh⁸  Didier Tharreau⁹ 

[1] Council for Agricultural Research and Economics-Research Centre for Cereal and Industrial Crops, s.s. 11 to Torino, km 2.5, 13100, Vercelli, Italy;Dipartimento di Scienze e Innovazione Tecnologica, Complesso Universitario S. Giuseppe, University of Piemonte Orientale, Piazza S. Eusebio 5, 13100, Vercelli, Italy;Council for Agricultural Research and Economics-Research Centre for Cereal and Industrial Crops, s.s. 11 to Torino, km 2.5, 13100, Vercelli, Italy;Present Address: CREA Research Centre for Vegetable and Ornamental Crops, Corso Inglesi 508, 18038, Sanremo, IM, Italy;Council for Agricultural Research and Economics-Research Centre for Cereal and Industrial Crops, s.s. 11 to Torino, km 2.5, 13100, Vercelli, Italy;Present Address: Institute for Sustainable Plant Protection, National Research Council, Turin, Italy;Council for Agricultural Research and Economics-Research Centre for Genomics and Bioinformatics, via S. Protaso 302, 29017, Fiorenzuola d’Arda, PC, Italy;PTP Science Park, Rice Genomics Unit, via Einstein, 26900, Lodi, Italy;PTP Science Park, Rice Genomics Unit, via Einstein, 26900, Lodi, Italy;Centre for Sustainable Future Technologies, Istituto Italiano di Tecnologia, Via Livorno 60, 10144, Torino, Italy;SA.PI.SE. Coop. Agricola, via G. Mameli 7, 13100, Vercelli, Italy;School of Integrative Plant Sciences, Plant Breeding and Genetics section, Cornell University, Ithaca, 14850, New York, USA;UMR BGPI, CIRAD, TA A54/K, F 34398, Montpellier, France;BGPI, Université de Montpellier, CIRAD, INRA, Montpellier SupAgro, Montpellier, France;

关键词: Rice;    Blast disease;    Genome-wide association study (GWAS);    Marker-trait associations (MTAs);    Blast resistance;   

DOI  :  10.1186/s12284-020-00431-2

来源: Springer

【 摘 要 】

BackgroundRice blast, caused by the fungus Pyricularia oryzae, represents the most damaging fungal disease of rice worldwide. Utilization of rice resistant cultivars represents a practical way to control the disease. Most of the rice varieties cultivated in Europe and several other temperate regions are severely depleted of blast resistance genes, making the identification of resistant sources in genetic background adapted to temperate environments a priority. Given these assumptions, a Genome Wide Association Study (GWAS) for rice blast resistance was undertaken using a panel of 311 temperate/tropical japonica and indica accessions adapted to temperate conditions and genotyped with 37,423 SNP markers. The panel was evaluated for blast resistance in field, under the pressure of the natural blast population, and in growth chamber, using a mixture of three different fungal strains.ResultsThe parallel screening identified 11 accessions showing high levels of resistance in the two conditions, representing potential donors of resistance sources harbored in rice genotypes adapted to temperate conditions. A general higher resistance level was observed in tropical japonica and indica with respect to temperate japonica varieties. The GWAS identified 14 Marker-Traits Associations (MTAs), 8 of which discovered under field conditions and 6 under growth chamber screening. Three MTAs were identified in both conditions; five MTAs were specifically detected under field conditions while three for the growth chamber inoculation. Comparative analysis of physical/genetic positions of the MTAs showed that most of them were positionally-related with cloned or mapped blast resistance genes or with candidate genes whose functions were compatible for conferring pathogen resistance. However, for three MTAs, indicated as BRF10, BRF11–2 and BRGC11–3, no obvious candidate genes or positional relationships with blast resistance QTLs were identified, raising the possibility that they represent new sources of blast resistance.ConclusionsWe identified 14 MTAs for blast resistance using both field and growth chamber screenings. A total of 11 accessions showing high levels of resistance in both conditions were discovered. Combinations of loci conferring blast resistance were identified in rice accessions adapted to temperate conditions, thus allowing the genetic dissection of affordable resistances present in the panel. The obtained information will provide useful bases for both resistance breeding and further characterization of the highlighted resistance loci.

【 授权许可】

CC BY