Integrative Approach for Precise Genotyping and Transcriptomics of Salt Tolerant Introgression Rice Lines
Bundó Barberà, Mireia (Centre de Recerca en Agrigenòmica)
Martín-Cardoso, Héctor (Centre de Recerca en Agrigenòmica)
Pesenti, Michele (University of Milan. Department of Agricultural and Environmental Sciences)
Gómez-Ariza, Jorge (Centre de Recerca en Agrigenòmica)
Castillo, Laia (Centre de Recerca en Agrigenòmica)
Frouin, Julien (University of Montpellier)
Serrat, Xavier (Universitat de Barcelona. Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals)
Nogués, Salvador (Universitat de Barcelona. Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals)
Courtois, Brigitte (University of Montpellier)
Grenier, Cécile (University of Montpellier)
Sacchi, Gian Attilio (Università degli Studi di Milano. Dipartimento di Scienze Agrarie e Ambientali)
San Segundo, Blanca (Centre de Recerca en Agrigenòmica)

Data:	2022
Resum:	Rice is the most salt sensitive cereal crop and its cultivation is particularly threatened by salt stress, which is currently worsened due to climate change. This study reports the development of salt tolerant introgression lines (ILs) derived from crosses between the salt tolerant indica rice variety FL478, which harbors the Saltol quantitative trait loci (QTL), and the salt-sensitive japonica elite cultivar OLESA. Genotyping-by-sequencing (GBS) and Kompetitive allele specific PCR (KASPar) genotyping, in combination with step-wise phenotypic selection in hydroponic culture, were used for the identification of salt-tolerant ILs. Transcriptome-based genotyping allowed the fine mapping of indica genetic introgressions in the best performing IL (IL22). A total of 1,595 genes were identified in indica regions of IL22, which mainly located in large introgressions at Chromosomes 1 and 3. In addition to OsHKT1;5, an important number of genes were identified in the introgressed indica segments of IL22 whose expression was confirmed [e. g. , genes involved in ion transport, callose synthesis, transcriptional regulation of gene expression, hormone signaling and reactive oxygen species (ROS) accumulation]. These genes might well contribute to salt stress tolerance in IL22 plants. Furthermore, comparative transcript profiling revealed that indica introgressions caused important alterations in the background gene expression of IL22 plants (japonica cultivar) compared with its salt-sensitive parent, both under non-stress and salt-stress conditions. In response to salt treatment, only 8. 6% of the salt-responsive genes were found to be commonly up- or down-regulated in IL22 and OLESA plants, supporting massive transcriptional reprogramming of gene expression caused by indica introgressions into the recipient genome. Interactions among indica and japonica genes might provide novel regulatory networks contributing to salt stress tolerance in introgression rice lines. Collectively, this study illustrates the usefulness of transcriptomics in the characterization of new rice lines obtained in breeding programs in rice.
Ajuts:	European Commission 678168 Ministerio de Economía y Competitividad SEV-2015-0533 Ministerio de Ciencia e Innovación CEX2019-000902-S
Nota:	Altres ajuts: CERCA Programme/Generalitat de Catalunya
Drets:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Llengua:	Anglès
Document:	Article ; recerca ; Versió publicada
Matèria:	Genotyping by sequencing (GBS) ; Oryza sativa (L.) ; Saltol ; Transcriptomics ; Indica and japonica ; Introgression lines (ILs) ; Salinity stress
Publicat a:	Frontiers in plant science, Vol. 12 (January 2022) , art. 797141, ISSN 1664-462X

DOI: 10.3389/fpls.2021.797141
PMID: 35126422

20 p, 11.9 MB

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