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Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance

BACKGROUND: Field resistance is often effective and durable as compared to vertical resistance. The introgression line (INGR15002) derived from O. glumaepatula has proven broad spectrum field resistance for both leaf and neck blast. RESULTS: Quantitative Trait Loci (QTL) analysis of INGR15002, led t...

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Autores principales: Devi, S. J. S. Rama, Singh, Kuldeep, Umakanth, B., Vishalakshi, B., Rao, K. Vijaya Sudhakara, Suneel, B., Sharma, S. K., Kadambari, Gopala Krishna Murthy, Prasad, M. S., Senguttvel, P., Syamaladevi, Divya P., Madhav, M. S.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer US 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7067966/
https://www.ncbi.nlm.nih.gov/pubmed/32166467
http://dx.doi.org/10.1186/s12284-020-00378-4
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author Devi, S. J. S. Rama
Singh, Kuldeep
Umakanth, B.
Vishalakshi, B.
Rao, K. Vijaya Sudhakara
Suneel, B.
Sharma, S. K.
Kadambari, Gopala Krishna Murthy
Prasad, M. S.
Senguttvel, P.
Syamaladevi, Divya P.
Madhav, M. S.
author_facet Devi, S. J. S. Rama
Singh, Kuldeep
Umakanth, B.
Vishalakshi, B.
Rao, K. Vijaya Sudhakara
Suneel, B.
Sharma, S. K.
Kadambari, Gopala Krishna Murthy
Prasad, M. S.
Senguttvel, P.
Syamaladevi, Divya P.
Madhav, M. S.
author_sort Devi, S. J. S. Rama
collection PubMed
description BACKGROUND: Field resistance is often effective and durable as compared to vertical resistance. The introgression line (INGR15002) derived from O. glumaepatula has proven broad spectrum field resistance for both leaf and neck blast. RESULTS: Quantitative Trait Loci (QTL) analysis of INGR15002, led to the identification of two major QTL - qBL3 contributing about 34% and 32% phenotypic variance towards leaf and neck blast resistance, respectively and qBL7 contributing about 25% of phenotypic variance for leaf blast. Further, qBL3 was fine mapped, narrowed down to 300 kb region and a linked SNP maker was identified. By combining mapping with microarray analysis, a candidate gene, Os03g0281466 (malectin-serine threonine kinase), was identified in the fine mapped region and named as Pi68(t). The nucleotide variations in the coding as well as upstream region of the gene was identified through cloning and sequence analysis of Pi68(t) alleles. These significant variations led to the non-synonymous changes in the protein as well as variations (presence/absence) in four important motifs (W-box element; MYC element; TCP element; BIHD1OS) at promoter region those are associated with resistance and susceptible reactions. The effect of qBL3 was validated by its introgression into BPT5204 (susceptible variety) through marker-assisted selection and progeny exhibiting resistance to both leaf and neck blast was identified. Further, the utility of linked markers of Pi68(t) in the blast breeding programs was demonstrated in elite germplasm lines. CONCLUSIONS: This is the first report on the identification and characterization of major effect QTL from O. glumaepatula, which led to the identification of a putative candidate gene, Pi68(t), which confers field resistance to leaf as well as neck blast in rice.
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spelling pubmed-70679662020-03-23 Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance Devi, S. J. S. Rama Singh, Kuldeep Umakanth, B. Vishalakshi, B. Rao, K. Vijaya Sudhakara Suneel, B. Sharma, S. K. Kadambari, Gopala Krishna Murthy Prasad, M. S. Senguttvel, P. Syamaladevi, Divya P. Madhav, M. S. Rice (N Y) Original Article BACKGROUND: Field resistance is often effective and durable as compared to vertical resistance. The introgression line (INGR15002) derived from O. glumaepatula has proven broad spectrum field resistance for both leaf and neck blast. RESULTS: Quantitative Trait Loci (QTL) analysis of INGR15002, led to the identification of two major QTL - qBL3 contributing about 34% and 32% phenotypic variance towards leaf and neck blast resistance, respectively and qBL7 contributing about 25% of phenotypic variance for leaf blast. Further, qBL3 was fine mapped, narrowed down to 300 kb region and a linked SNP maker was identified. By combining mapping with microarray analysis, a candidate gene, Os03g0281466 (malectin-serine threonine kinase), was identified in the fine mapped region and named as Pi68(t). The nucleotide variations in the coding as well as upstream region of the gene was identified through cloning and sequence analysis of Pi68(t) alleles. These significant variations led to the non-synonymous changes in the protein as well as variations (presence/absence) in four important motifs (W-box element; MYC element; TCP element; BIHD1OS) at promoter region those are associated with resistance and susceptible reactions. The effect of qBL3 was validated by its introgression into BPT5204 (susceptible variety) through marker-assisted selection and progeny exhibiting resistance to both leaf and neck blast was identified. Further, the utility of linked markers of Pi68(t) in the blast breeding programs was demonstrated in elite germplasm lines. CONCLUSIONS: This is the first report on the identification and characterization of major effect QTL from O. glumaepatula, which led to the identification of a putative candidate gene, Pi68(t), which confers field resistance to leaf as well as neck blast in rice. Springer US 2020-03-12 /pmc/articles/PMC7067966/ /pubmed/32166467 http://dx.doi.org/10.1186/s12284-020-00378-4 Text en © The Author(s) 2020 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Original Article
Devi, S. J. S. Rama
Singh, Kuldeep
Umakanth, B.
Vishalakshi, B.
Rao, K. Vijaya Sudhakara
Suneel, B.
Sharma, S. K.
Kadambari, Gopala Krishna Murthy
Prasad, M. S.
Senguttvel, P.
Syamaladevi, Divya P.
Madhav, M. S.
Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance
title Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance
title_full Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance
title_fullStr Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance
title_full_unstemmed Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance
title_short Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance
title_sort identification and characterization of a large effect qtl from oryza glumaepatula revealed pi68(t) as putative candidate gene for rice blast resistance
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7067966/
https://www.ncbi.nlm.nih.gov/pubmed/32166467
http://dx.doi.org/10.1186/s12284-020-00378-4
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