Quantitative trait loci for root-penetration ability and root thickness in rice: Comparison of genetic backgrounds

Zheng, Honggang; Babu, R. Chandra; Pathan, M. S.; Ali, Liakat; Huang, Ning; Courtois, B.; Nguyen, Henry T.

doi:10.1139/g99-065

Cited by 116 publications

(46 citation statements)

References 16 publications

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“…In contrast, the total root length and median root number of Azucena changed little when roots were impeded by a large 7-cm obstacle, but were each reduced by ∼20% in IR64. Interestingly, Azucena appears to be more resistant to compact soils than IR64 (40). In root penetration assays, more Azucena roots penetrated a wax layer, and those that did penetrate were longer than IR64 (40).…”

Section: Discussionmentioning

confidence: 96%

“…Interestingly, Azucena appears to be more resistant to compact soils than IR64 (40). In root penetration assays, more Azucena roots penetrated a wax layer, and those that did penetrate were longer than IR64 (40). It will be interesting to investigate whether the genes underlying growth responses to large obstacles are similar to those controlling root-penetration ability.…”

Section: Discussionmentioning

confidence: 99%

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Genotypic recognition and spatial responses by rice roots

Fang

Clark

Zheng

et al. 2013

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

137

148

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Root system growth and development is highly plastic and is influenced by the surrounding environment. Roots frequently grow in heterogeneous environments that include interactions from neighboring plants and physical impediments in the rhizosphere. To investigate how planting density and physical objects affect root system growth, we grew rice in a transparent gel system in close proximity with another plant or a physical object. Root systems were imaged and reconstructed in three dimensions. Root-root interaction strength was calculated using quantitative metrics that characterize the extent to which the reconstructed root systems overlap each other. Surprisingly, we found the overlap of root systems of the same genotype was significantly higher than that of root systems of different genotypes. Root systems of the same genotype tended to grow toward each other but those of different genotypes appeared to avoid each other. Shoot separation experiments excluded the possibility of aerial interactions, suggesting root communication. Staggered plantings indicated that interactions likely occur at root tips in close proximity. Recognition of obstacles also occurred through root tips, but through physical contact in a size-dependent manner. These results indicate that root systems use two different forms of communication to recognize objects and alter root architecture: root-root recognition, possibly mediated through root exudates, and root-object recognition mediated by physical contact at the root tips. This finding suggests that root tips act as local sensors that integrate rhizosphere information into global root architectural changes.3D reconstruction | imaging | kin recognition P lants interact with the environment in a number of ways (1, 2).Aboveground tissues may identify volatile cues that provide information about their neighbors (3, 4) and detect irradiance, directional light, and light quality (5), whereas belowground tissues, such as roots, can detect changes in soil moisture, nutrient availability, and physical obstacles (6-8). Plants not only detect but also respond to changes in their environment, exhibiting adaptation in their morphology and physiology in response to environmental stimuli (9-14), such as alteration in total root length, root system volume, and root depth (15,16). Phenotypic plasticity of plants in response to environmental heterogeneity may have consequences for plant fitness.Communication among plants is mediated by interactions that take place aboveground (17, 18) and belowground (2,(19)(20)(21). Aboveground interactions have been studied in greater detail, in part because of the accessibility of aerial tissue. However, there is growing interest in root-system architecture and its effect on plant function and fitness (12, 15). Studies of root-system architecture suggest that root systems develop differently in the presence of other root systems. For example, when exposed to the roots of a neighboring plant, common bean plants altered the vertical and horizontal distribution of roo...

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Section: Discussionmentioning

confidence: 96%

Section: Discussionmentioning

confidence: 99%

Genotypic recognition and spatial responses by rice roots

Fang

Clark

Zheng

et al. 2013

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

137

148

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“…At least 24 papers have been published in the last 10 years on quantitative trait locus (QTL) detection for a large number of root parameters in several populations and different growth conditions (Champoux et al 1995;Ray et al 1996;Redona and Mackill 1996;Yadav et al 1997;Price et al 1999Price et al , 2000Price et al , 2002Ali et al 2000;Hemamalini et al 2000;Tripathy et al 2000;Zheng et al 2000Zheng et al , 2003Shen et al 2001;Zhang et al 2001a, b;Kamoshita et al 2002a, b;Courtois et al 2003;Nguyen et al 2004;Xu et al 2004;Li et al 2005b;Horii et al 2006;Yue et al 2006;MacMillan et al 2006).…”

Section: Introductionmentioning

confidence: 99%

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

Courtois

Ahmadi

Khowaja

et al. 2009

Rice

Self Cite

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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“…The recent development of high-density linkage maps has provided the tools for dissecting the genetic basis underlying complex traits, such as drought resistance, into individual components. Quantitative trait locus (QTL) mapping has been carried out in an attempt to determine the genetic basis of several traits that may be related to drought resistance, including OA (Lilley et al 1996;Zhang et al 1999Zhang et al , 2001Robin et al 2003), cellmembrane stability (Tripathy et al 2000), abscisic acid (ABA) content (Quarrie et al 1994(Quarrie et al , 1997, stomatal regulation , leaf water status, and root morphology (Champoux et al 1995;Ray et al 1996;Yadav et al 1997;Ali et al 2000;Courtois et al 2000;Zheng et al 2000;Zhang et al 2001;Kamoshita et al 2002;Price et al 2002). However, it is not clear how these attributes are related to the performance of the genotypes at the whole-plant level, and how they function to reduce the drought damage to fitness-and productivity-related traits.…”

mentioning

confidence: 99%

Genetic Basis of Drought Resistance at Reproductive Stage in Rice: Separation of Drought Tolerance From Drought Avoidance

et al. 2006

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Drought tolerance (DT) and drought avoidance (DA) are two major mechanisms in drought resistance of higher plants. In this study, the genetic bases of DTand DA at reproductive stage in rice were analyzed using a recombinant inbred line population from a cross between an indica lowland and a tropical japonica upland cultivar. The plants were grown individually in PVC pipes and two cycles of drought stress were applied to individual plants with unstressed plants as the control. A total of 21 traits measuring fitness, yield, and the root system were investigated. Little correlation of relative yield traits with potential yield, plant size, and root traits was detected, suggesting that DTand DA were well separated in the experiment. A genetic linkage map consisting of 245 SSR markers was constructed for mapping QTL for these traits. A total of 27 QTL were resolved for 7 traits of relative performance of fitness and yield, 36 QTL for 5 root traits under control, and 38 for 7 root traits under drought stress conditions, suggesting the complexity of the genetic bases of both DT and DA. Only a small portion of QTL for fitness-and yield-related traits overlapped with QTL for root traits, indicating that DT and DA had distinct genetic bases.

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Quantitative trait loci for root-penetration ability and root thickness in rice: Comparison of genetic backgrounds

Cited by 116 publications

References 16 publications

Genotypic recognition and spatial responses by rice roots

Genotypic recognition and spatial responses by rice roots

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

Genetic Basis of Drought Resistance at Reproductive Stage in Rice: Separation of Drought Tolerance From Drought Avoidance

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