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

Steele, Katherine A.; Price, Adam H.; Shashidhar, H. E.; Witcombe, J. R.

doi:10.1007/s00122-005-0110-4

Cited by 317 publications

(196 citation statements)

References 22 publications

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“…MAS has been applied to pyramid QTL for several root traits (93,94), which resulted in positive effects for increasing root length and root mass. However, the effects of the change in root traits on drought resistance at the field level remained to be determined.…”

Section: Identification Of Genes For Drought Resistance and Developmementioning

confidence: 99%

Strategies for developing Green Super Rice

Zhang

2007

Proc. Natl. Acad. Sci. U.S.A.

729

438

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This contribution is part of the special series of Inaugural Articles by members of the National Academy of Sciences elected on May 1, 2007.From a global viewpoint, a number of challenges need to be met for sustainable rice production: (i) increasingly severe occurrence of insects and diseases and indiscriminate pesticide applications; (ii) high pressure for yield increase and overuse of fertilizers; (iii) water shortage and increasingly frequent occurrence of drought; and (iv) extensive cultivation in marginal lands. A combination of approaches based on the recent advances in genomic research has been formulated to address these challenges, with the long-term goal to develop rice cultivars referred to as Green Super Rice. On the premise of continued yield increase and quality improvement, Green Super Rice should possess resistances to multiple insects and diseases, high nutrient efficiency, and drought resistance, promising to greatly reduce the consumption of pesticides, chemical fertilizers, and water. Large efforts have been focused on identifying germplasms and discovering genes for resistance to diseases and insects, N-and P-use efficiency, drought resistance, grain quality, and yield. The approaches adopted include screening of germplasm collections and mutant libraries, gene discovery and identification, microarray analysis of differentially regulated genes under stressed conditions, and functional test of candidate genes by transgenic analysis. Genes for almost all of the traits have now been isolated in a global perspective and are gradually incorporated into genetic backgrounds of elite cultivars by molecular marker-assisted selection or transformation. It is anticipated that such strategies and efforts would eventually lead to the development of Green Super Rice.genomics ͉ rice genetic improvement ͉ sustainable agriculture

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Section: Identification Of Genes For Drought Resistance and Developmementioning

confidence: 99%

Strategies for developing Green Super Rice

Zhang

2007

Proc. Natl. Acad. Sci. U.S.A.

729

438

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“…These studies led to marker-aided selection, enabling validation of the position and effect of some of the QTLs (Shen et al 2001;Steele et al 2006) and to on-going QTL cloning work (Ahmadi et al, unpublished results).…”

Section: Introductionmentioning

confidence: 99%

Rice Root Genetic Architecture: Meta-analysis from a Drought QTL Database

Courtois

Ahmadi

Khowaja

et al. 2009

Rice

256

185

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During the last 10 years, a large number of quantitative trait loci (QTLs) controlling rice root morphological parameters have been detected in several mapping populations by teams interested in improving drought resistance in rice. Compiling these data could be extremely helpful in identifying candidate genes by positioning consensus QTLs with more precision through meta-QTL analysis. We extracted information from 24 published papers on QTLs controlling 29 root parameters including root number, maximum root length, root thickness, root/ shoot ratio, and root penetration index. A web-accessible database of 675 root QTLs detected in 12 populations was constructed. This database includes also all QTLs for drought resistance traits in rice published between 1995 and 2007. The physical position on the pseudochromosomes of the markers flanking each QTL was determined. An overview of the number of root QTLs in 5-Mb segments covering the whole genome revealed the existence of "hot spots," The 32 trait × chromosome combinations comprising six or more QTLs were subjected to a meta-QTL analysis using the software package MetaQTL. The method enabled us both to determine the likely number of true QTLs in these areas using an Akaike information criterion and to estimate their position. The meta-QTL confidence intervals were notably reduced and, for the smallest ones, encompassed only a few genes.

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“…Quantitative trait locus (QTL) analysis can provide information relevant to agronomic traits using molecular markers to identify specific regions of the genome affecting any measurable trait (Tanksley 1993). To date, a large number of QTLs associated with various traits including yield and its components, quality traits, environmental stress tolerance, and disease and insect resistances from interspecific crosses, have been identified in rice (Xiao et al 1998;Xiong et al 1999;Moncada et al 2001;Brondani et al 2002;Cai & Morishima 2002;Multani et al 2003;Septiningsih et al 2003; Thomson et al 2003;Aluko et al 2004;Jin et al 2005;Suh et al 2005;Yoon et al 2006;Mei et al 2006;Tian et al 2006;Steele et al 2006). However, most of these QTLs were identified by using AA genome species as a donor parent in wide hybridization due to the easy gene transfer through conventional hybridization and selection.…”

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confidence: 99%

QTL analysis for yield related traits using populations derived from an indica-japonica hybrid in rice (Oryza sativaL.)

Rahman¹,

Khanam²,

Koh³

2008

CZECH J GENET PLANT

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Introgression has been achieved from a wild species Oryza minuta (2n = 48, BBCC, Acc No.101141) into O. sativa subsp. indica IR71033-121-15. This introgression line was developed at International Rice Research Institute (IRRI) through embryo rescue as well as three backcrosses using IR31917-45-3-2 as a recurrent parent. These two IR lines resemble each other but differ in several important agronomic traits, which can be attributable to O. minuta introgressions. Out of 530 STS markers tested for introgression analysis, at least 14 introgressed chromosomal segments from O. minuta were detected throughout 12 chromosomes. Most of the introgressed segments were quite small in size, as they were detected by single markers and flanking markers were negative for introgressions. A population from the cross between japonica cultivar Junambyeo and introgressed indica line IR71033-121-15, consisting of 146 plants, was evaluated for ten agronomic traits. Genotyping of F2 lines and phenotyping from both F<sub>2</sub> and F<sub>3</sub> were considered for QTL analysis. A total of 11 single-locus QTLs (S-QTLs) were identified for ten traits, i.e. days to heading (DTH), panicle number (PN), spikelet fertility (SF), panicle length (PL), spikelet per panicle (SPP), grain length (GL), grain width (GW), grain length to width ratio (GLW) and grain thickness (GT) in both populations. The O. minuta derived alleles of QTLs, spp6, gl3, glw3, glw5 and t12 were detected in both populations indicating robust QTLs for these traits. QTLs from O. minuta introgression could be new sources of natural genetic variation for genetic improvement of rice.

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

Cited by 317 publications

References 22 publications

Strategies for developing Green Super Rice

Strategies for developing Green Super Rice

Rice Root Genetic Architecture: Meta-analysis from a Drought QTL Database

QTL analysis for yield related traits using populations derived from an indica-japonica hybrid in rice (Oryza sativaL.)

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