Polymorphism analysis of genomic regions associated with broad-spectrum effective blast resistance genes for marker development in rice |
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Authors: | G Tacconi V Baldassarre C Lanzanova O Faivre-Rampant S Cavigiolo S Urso E Lupotto G Valè |
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Institution: | (1) CRA-GPG Genomic Research Center, Via S.Protaso, Fiorenzuola d’Arda, Piacenza, Italy;(2) CRA-RIS Rice Research Unit, s.s. to Torino km 2,5, 13100 Vercelli, Italy;(3) Parco Tecnologico Padano, Via Einstein, 26900 Lodi, Italy;(4) CIRAD, UMR BGPI, TA A 54/K, Campus International de Baillarguet, 34398 Montpellier Cedex5, France |
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Abstract: | Cultivated European rice germplasm is generally characterized by moderate to high sensitivity to blast, and blast resistance
is therefore one of the most important traits to improve in rice breeding. We collected a panel of 25 rice genotypes containing
13 broad range rice resistance genes that are commonly used in breeding programs around the world: Pi1, Pi2, Pi5, Pi7, Pi9, Pi33, Pib, Pik, Pik-p, Pita, Pita
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, Piz and Piz-t. The efficiency of the selected Pi genes towards Italian blast pathotypes was tested via artificial inoculation and under natural field infection conditions.
To characterize haplotypes present in the chromosomal regions of the blast resistance genes, a polymorphism search was conducted
in the sequence regions adjacent to the blast resistance by examining DNA from the Pi gene donors with a panel of 5–7 potential receivers (cultivated European rice genotypes). Seven InDel and 8 presence/absence
polymorphisms were directly detected by gel analysis after DNA amplification, while sequencing of 12.870 bp through 32 loci
in different genotypes revealed 85 SNP (one SNP every 151 bp). Seven SSRs were additionally tested revealing 5 polymorphic
markers between donors and receivers. Polymorphisms were used to develop 35 PCR-based molecular markers suitable for introgressing
of Pi genes into a set of the European rice germplasm. For this last purpose, allelic molecular marker variation was evaluated
within a representative collection of about 95 rice genotypes. Polymorphic combinations allowing introgression of the broad
spectrum resistance genes into a susceptible genetic background have been identified, thus confirming the potential of the
identified markers for molecular-assisted breeding. |
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