Cited by 372Genetic Mapping and Diversity in Plants and AnimalsRice Cultivation and Yield ImprovementPlant Disease Resistance and Genetics

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Marker-assisted selection to introgress rice QTLs controlling root traits into an Indian upland rice variety

Steele, K. A., Price, A. H., Shashidhar, H. E., Witcombe, J. R.·2006·Theoretical and Applied Genetics

DOI 10.1007/s00122-005-0110-4

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Abstract

A marker-assisted back-crossing (MABC) breeding programme was conducted to improve the root morphological traits, and thereby drought tolerance, of the Indian upland rice variety, Kalinga III. This variety, the recurrent parent in the MABC, had not previously been used for quantitative trait locus (QTL) mapping. The donor parent was Azucena, an upland japonica variety from Philippines. Five segments on different chromosomes were targeted for introgression; four segments carried QTLs for improved root morphological traits (root length and thickness) and the fifth carried a recessive QTL for aroma. Some selection was made at non-target regions for recurrent parent alleles. We describe the selection made in three backcross (BC) generations and two further crosses between BC3 lines to pyramid (stack) all five target segments. Pyramids with four root QTLs were obtained in eight generations, completed in 6 years using 3,000 marker assays in a total of 323 lines. Twenty-two near-isogenic lines (NILs) were evaluated for root traits in five field experiments in Bangalore, India. The target segment on chromosome 9 (RM242-RM201) significantly increased root length under both irrigated and drought stress treatments, confirming that this root length QTL from Azucena functions in a novel genetic background. No significant effects on root length were found at the other four targets. Azucena alleles at the locus RM248 (below the target root QTL on chromosome 7) delayed flowering. Selection for the recurrent parent allele at this locus produced early-flowering NILs that were suited for upland environments in eastern India.

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Authors: Steele, K. A., Price, A. H., Shashidhar, H. E., & Witcombe, J. R.
Affiliations: Bangor University (GB)
University of Aberdeen (GB)
University of Agricultural Sciences, Bangalore (IN)
Corresponding author: Steele, K. A.
ORCID: Steele, K. A.
Price, A. H.
Shashidhar, H. E.
Witcombe, J. R.
Venue: Theoretical and Applied Genetics
Publisher: Springer Science and Business Media LLC
Published: 2005-10-06
Volume: 112
Issue: 2
Pages: 208-221
ISSN: 0040-5752 (ISSN-L)
1432-2242
DOI: 10.1007/s00122-005-0110-4
OpenAlex: W2137677313
Cited by: 370
References: 24
Citations by year: 2026: 6 · 2025: 5 · 2024: 9 · 2023: 10 · 2022: 15 · 2021: 14 · 2020: 36 · 2019: 10 · 2018: 21 · 2017: 17 · 2016: 20 · 2015: 25 · 2014: 20 · 2013: 30 · 2012: 23
FWCI: 8.45
Type: journal article
Language: en
Open access: closed
Licence: www.springer.com/tdm (tdm)
Locations: Theoretical and Applied Genetics (publishedVersion)
PubMed (publishedVersion)
Funders: Department for International Development
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
Life Sciences › Agricultural and Biological Sciences › Plant Science › Rice Cultivation and Yield Improvement
Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Disease Resistance and Genetics
Keywords: marker-assisted backcrossing, rice, upland rice, quantitative trait loci, root traits, drought tolerance, introgression, near-isogenic lines, root length, root thickness, flowering time, Azucena, chromosome 9
MeSH terms: Crosses, Genetic, Genetic Markers, Genotype, India, Phenotype, Oryza, Selection, Genetic, Plant Roots, Chromosomes, Plant, Quantitative Trait Loci

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Marker-assisted selection to introgress rice QTLs controlling root traits into an Indian upland rice variety

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