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Molecular Mapping of QTLs Associated with Lodging Resistance in Dry Direct-Seeded Rice (Oryza sativa L.)

Dry direct-seeded rice (DSR) is an alternative crop establishment method with less water and labor requirement through mechanization. It provides better opportunities for a second crop during the cropping season and therefore, a feasible alternative system to transplanted lowland rice. However, lodg...

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Autores principales: Yadav, Shailesh, Singh, Uma M., Naik, Shilpa M., Venkateshwarlu, Challa, Ramayya, Perumalla J., Raman, K. Anitha, Sandhu, Nitika, Kumar, Arvind
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5567065/
https://www.ncbi.nlm.nih.gov/pubmed/28871266
http://dx.doi.org/10.3389/fpls.2017.01431
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author Yadav, Shailesh
Singh, Uma M.
Naik, Shilpa M.
Venkateshwarlu, Challa
Ramayya, Perumalla J.
Raman, K. Anitha
Sandhu, Nitika
Kumar, Arvind
author_facet Yadav, Shailesh
Singh, Uma M.
Naik, Shilpa M.
Venkateshwarlu, Challa
Ramayya, Perumalla J.
Raman, K. Anitha
Sandhu, Nitika
Kumar, Arvind
author_sort Yadav, Shailesh
collection PubMed
description Dry direct-seeded rice (DSR) is an alternative crop establishment method with less water and labor requirement through mechanization. It provides better opportunities for a second crop during the cropping season and therefore, a feasible alternative system to transplanted lowland rice. However, lodging is one of the major constraints in attaining high yield in DSR. Identification of QTLs for lodging resistance and their subsequent use in improving varieties under DSR will be an efficient breeding strategy to address the problem. In order to map the QTLs associated with lodging resistance, a set of 253 BC(3)F(4) lines derived from a backcross between Swarna and Moroberekan were evaluated in two consecutive years. A total of 12 QTLs associated with lodging resistance traits [culm length (qCL), culm diameter (qCD), and culm strength (qCS)] were mapped on chromosomes 1, 2, 6, and 7 using 193 polymorphic SNP markers. Two major and consistent effect QTLs, namely qCD(1.1) (with R(2) of 10%) and qCS(1.1) (with R(2) of 14%) on chromosome 1 with id1003559 being the peak SNP marker (flanking markers; id1001973-id1006772) were identified as a common genomic region associated with important lodging resistance traits. In silico analysis revealed the presence of Gibberellic Acid 3 beta-hydroxylase along with 34 other putative candidate genes in the marker interval region of id1001973-id1006772. The positive alleles for culm length, culm diameter, and culm strength were contributed by the upland adaptive parent Moroberekan. Our results identified significant positive correlation between lodging related traits (culm length diameter and strength) and grain yield under DSR, indicating the role of lodging resistant traits in grain yield improvement under DSR. Deployment of the identified alleles influencing the culm strength and culm diameter in marker assisted introgression program may facilitate the lodging resistance under DSR.
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spelling pubmed-55670652017-09-04 Molecular Mapping of QTLs Associated with Lodging Resistance in Dry Direct-Seeded Rice (Oryza sativa L.) Yadav, Shailesh Singh, Uma M. Naik, Shilpa M. Venkateshwarlu, Challa Ramayya, Perumalla J. Raman, K. Anitha Sandhu, Nitika Kumar, Arvind Front Plant Sci Plant Science Dry direct-seeded rice (DSR) is an alternative crop establishment method with less water and labor requirement through mechanization. It provides better opportunities for a second crop during the cropping season and therefore, a feasible alternative system to transplanted lowland rice. However, lodging is one of the major constraints in attaining high yield in DSR. Identification of QTLs for lodging resistance and their subsequent use in improving varieties under DSR will be an efficient breeding strategy to address the problem. In order to map the QTLs associated with lodging resistance, a set of 253 BC(3)F(4) lines derived from a backcross between Swarna and Moroberekan were evaluated in two consecutive years. A total of 12 QTLs associated with lodging resistance traits [culm length (qCL), culm diameter (qCD), and culm strength (qCS)] were mapped on chromosomes 1, 2, 6, and 7 using 193 polymorphic SNP markers. Two major and consistent effect QTLs, namely qCD(1.1) (with R(2) of 10%) and qCS(1.1) (with R(2) of 14%) on chromosome 1 with id1003559 being the peak SNP marker (flanking markers; id1001973-id1006772) were identified as a common genomic region associated with important lodging resistance traits. In silico analysis revealed the presence of Gibberellic Acid 3 beta-hydroxylase along with 34 other putative candidate genes in the marker interval region of id1001973-id1006772. The positive alleles for culm length, culm diameter, and culm strength were contributed by the upland adaptive parent Moroberekan. Our results identified significant positive correlation between lodging related traits (culm length diameter and strength) and grain yield under DSR, indicating the role of lodging resistant traits in grain yield improvement under DSR. Deployment of the identified alleles influencing the culm strength and culm diameter in marker assisted introgression program may facilitate the lodging resistance under DSR. Frontiers Media S.A. 2017-08-21 /pmc/articles/PMC5567065/ /pubmed/28871266 http://dx.doi.org/10.3389/fpls.2017.01431 Text en Copyright © 2017 Yadav, Singh, Naik, Venkateshwarlu, Ramayya, Raman, Sandhu and Kumar. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Yadav, Shailesh
Singh, Uma M.
Naik, Shilpa M.
Venkateshwarlu, Challa
Ramayya, Perumalla J.
Raman, K. Anitha
Sandhu, Nitika
Kumar, Arvind
Molecular Mapping of QTLs Associated with Lodging Resistance in Dry Direct-Seeded Rice (Oryza sativa L.)
title Molecular Mapping of QTLs Associated with Lodging Resistance in Dry Direct-Seeded Rice (Oryza sativa L.)
title_full Molecular Mapping of QTLs Associated with Lodging Resistance in Dry Direct-Seeded Rice (Oryza sativa L.)
title_fullStr Molecular Mapping of QTLs Associated with Lodging Resistance in Dry Direct-Seeded Rice (Oryza sativa L.)
title_full_unstemmed Molecular Mapping of QTLs Associated with Lodging Resistance in Dry Direct-Seeded Rice (Oryza sativa L.)
title_short Molecular Mapping of QTLs Associated with Lodging Resistance in Dry Direct-Seeded Rice (Oryza sativa L.)
title_sort molecular mapping of qtls associated with lodging resistance in dry direct-seeded rice (oryza sativa l.)
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5567065/
https://www.ncbi.nlm.nih.gov/pubmed/28871266
http://dx.doi.org/10.3389/fpls.2017.01431
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