Journal articles 2012
Documents
Root attributes affecting water uptake of rice (Oryza sativa) under drought
Henry A, Cal AJ, Batoto TC, Torres RO, Serraj R (2012). Root attributes affecting water uptake of rice (Oryza sativa) under drought. Journal of Experimental Botany 63(13):4751–4763. (DOI: 10.1093/jxb/ers150). (G3008.06).
Lowland rice roots have a unique physiological response to drought because of their adaptation to flooded soil. Rice root attributes that facilitate growth under flooded conditions may affect rice response to drought, but the relative roles of root structural and functional characteristics for water uptake under drought in rice are not known. Morphological, anatomical, biochemical, and molecular attributes of soil-grown rice roots were measured to investigate the genotypic variability and genotype×environment interactions of water uptake under variable soil water regimes. Drought-resistant genotypes had the lowest night-time bleeding rates of sap from the root system in the field. Diurnal fluctuation predominated as the strongest source of variation for bleeding rates in the field and root hydraulic conductivity (Lpr) in the greenhouse, and was related to expression trends of various PIP and TIP aquapor- ins. Root anatomy was generally more responsive to drought treatments in drought-resistant genotypes. Suberization and compaction of sclerenchyma layer cells decreased under drought, whereas suberization of the endodermis increased, suggesting differential roles of these two cell layers for the retention of oxygen under flooded conditions (sclerenchyma layer) and retention of water under drought (endodermis). The results of this study point to the genetic variability in responsiveness to drought of rice roots in terms of morphology, anatomy, and function.
Henry A, Cal AJ, Batoto TC, Torres RO, Serraj R (2012). Root attributes affecting water uptake of rice (Oryza sativa) under drought. Journal of Experimental Botany 63(13):4751–4763. (DOI: 10.1093/jxb/ers150). (G3008.06).
Lowland rice roots have a unique physiological response to drought because of their adaptation to flooded soil. Rice root attributes that facilitate growth under flooded conditions may affect rice response to drought, but the relative roles of root structural and functional characteristics for water uptake under drought in rice are not known. Morphological, anatomical, biochemical, and molecular attributes of soil-grown rice roots were measured to investigate the genotypic variability and genotype×environment interactions of water uptake under variable soil water regimes. Drought-resistant genotypes had the lowest night-time bleeding rates of sap from the root system in the field. Diurnal fluctuation predominated as the strongest source of variation for bleeding rates in the field and root hydraulic conductivity (Lpr) in the greenhouse, and was related to expression trends of various PIP and TIP aquapor- ins. Root anatomy was generally more responsive to drought treatments in drought-resistant genotypes. Suberization and compaction of sclerenchyma layer cells decreased under drought, whereas suberization of the endodermis increased, suggesting differential roles of these two cell layers for the retention of oxygen under flooded conditions (sclerenchyma layer) and retention of water under drought (endodermis). The results of this study point to the genetic variability in responsiveness to drought of rice roots in terms of morphology, anatomy, and function.
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Water extraction and root traits in Oryza sativa × Oryza glaberrima introgression lines under different soil moisture regimes
Kijoji AA, Nchimbi-Msolla S, Kanyeka ZL, Klassen SP, Serraj R, Henry A (2012). Water extraction and root traits in Oryza sativa × Oryza glaberrima introgression lines under different soil moisture regimes. Functional Plant Biology 40:54–66. (DOI: 10.1071/FP12163). (G3008.06). Not open access: view abstract
Kijoji AA, Nchimbi-Msolla S, Kanyeka ZL, Klassen SP, Serraj R, Henry A (2012). Water extraction and root traits in Oryza sativa × Oryza glaberrima introgression lines under different soil moisture regimes. Functional Plant Biology 40:54–66. (DOI: 10.1071/FP12163). (G3008.06). Not open access: view abstract
Large-scale development of cost-effective SNP marker assays for diversity assessment and genetic mapping in chickpea and comparative mapping in legumes
Hiremath PJ, Kumar A, Penmetsa RV, Farmer A, Schlueter JA, Chamarthi SK, Whaley AM, Carrasquilla-Garcia N, Gaur PM, Upadhyaya HD, Kavi Kishor PB, Shah TM, Cook DR and Varshney RK (2012). Large-scale development of cost-effective SNP marker assays for diversity assessment and genetic mapping in chickpea and comparative mapping in legumes. Plant Biotechnology Journal published online: 17pp. (DOI: 10.1111/j.1467-7652.2012.00710.x)
Hiremath PJ, Kumar A, Penmetsa RV, Farmer A, Schlueter JA, Chamarthi SK, Whaley AM, Carrasquilla-Garcia N, Gaur PM, Upadhyaya HD, Kavi Kishor PB, Shah TM, Cook DR and Varshney RK (2012). Large-scale development of cost-effective SNP marker assays for diversity assessment and genetic mapping in chickpea and comparative mapping in legumes. Plant Biotechnology Journal published online: 17pp. (DOI: 10.1111/j.1467-7652.2012.00710.x)
Construction of chromosome segment substitution lines in peanut (Arachis hypogaea L.) using a wild synthetic and QTL mapping for plant morphology
Foncéka D, Tossim H-A, Rivallan R, Vignes H, Lacut E, De Bellis F, Faye I, Ndoye O, Leal-Bertioli SCM, Valls JFM, de Bellis F, Faye I, Ndoye O, Leal-Bertioli SCM, Valls JFM, Bertioli DJ, Glaszmann J-C, Courtois B, Rami J-F* (2012). Construction of chromosome segment substitution lines in peanut (Arachis hypogaea L.) using a wild synthetic and QTL mapping for plant morphology. PLoS ONE 7(11):e48642 (DOI:10.1371/journal.pone.0048642). (G3005.05, G4008.49, G4007.13.03).
Chromosome segment substitution lines (CSSLs) are powerful QTL mapping populations that have been used to elucidate the molecular basis of interesting traits of wild species. Cultivated peanut is an allotetraploid with limited genetic diversity. Capturing the genetic diversity from peanut wild relatives is an important objective in many peanut breeding programs. In this study, we used a marker-assisted backcrossing strategy to produce a population of 122 CSSLs from the cross between the wild synthetic allotetraploid (A. ipae¨nsis6A. duranensis)4x and the cultivated Fleur11 variety.
Foncéka D, Tossim H-A, Rivallan R, Vignes H, Lacut E, De Bellis F, Faye I, Ndoye O, Leal-Bertioli SCM, Valls JFM, de Bellis F, Faye I, Ndoye O, Leal-Bertioli SCM, Valls JFM, Bertioli DJ, Glaszmann J-C, Courtois B, Rami J-F* (2012). Construction of chromosome segment substitution lines in peanut (Arachis hypogaea L.) using a wild synthetic and QTL mapping for plant morphology. PLoS ONE 7(11):e48642 (DOI:10.1371/journal.pone.0048642). (G3005.05, G4008.49, G4007.13.03).
Chromosome segment substitution lines (CSSLs) are powerful QTL mapping populations that have been used to elucidate the molecular basis of interesting traits of wild species. Cultivated peanut is an allotetraploid with limited genetic diversity. Capturing the genetic diversity from peanut wild relatives is an important objective in many peanut breeding programs. In this study, we used a marker-assisted backcrossing strategy to produce a population of 122 CSSLs from the cross between the wild synthetic allotetraploid (A. ipae¨nsis6A. duranensis)4x and the cultivated Fleur11 variety.
Phenotyping for drought adaptation in wheat using physiological traits
Monneveux P, Jing R, Misra SC (2012). Phenotyping for drought adaptation in wheat using physiological traits. Frontiers in Plant Physiology 3:429. (DOI: 10.3389/fphys.2012.00429).
Wheat (Triticum spp) is one of the first domesticated food crops. It represents the first source of calories (after rice) and an important source of proteins in developing countries. As a result of the Green Revolution, wheat yield sharply increased due to the use of improved varieties, irrigation, pesticides, and fertilizers. The rate of increase in world wheat production, however, slowed after 1980, except in China, India, and Pakistan. Being adapted to a wide range of moisture conditions, wheat is grown on more land area worldwide than any other crop, including in drought prone areas. In these marginal rain-fed environments where at least 60 m ha of wheat is grown, amount and distribution of rainfall are the predominant factors influencing yield variability. Intensive work has been carried out in the area of drought adaptation over the last decades. Breeding strategies for drought tolerance improvement include: definition of the target environment, choice and characterization of the testing environment, water stress management and characterization, and use of phenotyping traits with high heritability. The use of integrative traits, facilitated by the development and application of new technologies (thermal imaging, spectral reflectance, stable isotopes) is facilitating high throughput phenotyping and indirect selection, consequently favoring yield improvement in drought prone environments.
Monneveux P, Jing R, Misra SC (2012). Phenotyping for drought adaptation in wheat using physiological traits. Frontiers in Plant Physiology 3:429. (DOI: 10.3389/fphys.2012.00429).
Wheat (Triticum spp) is one of the first domesticated food crops. It represents the first source of calories (after rice) and an important source of proteins in developing countries. As a result of the Green Revolution, wheat yield sharply increased due to the use of improved varieties, irrigation, pesticides, and fertilizers. The rate of increase in world wheat production, however, slowed after 1980, except in China, India, and Pakistan. Being adapted to a wide range of moisture conditions, wheat is grown on more land area worldwide than any other crop, including in drought prone areas. In these marginal rain-fed environments where at least 60 m ha of wheat is grown, amount and distribution of rainfall are the predominant factors influencing yield variability. Intensive work has been carried out in the area of drought adaptation over the last decades. Breeding strategies for drought tolerance improvement include: definition of the target environment, choice and characterization of the testing environment, water stress management and characterization, and use of phenotyping traits with high heritability. The use of integrative traits, facilitated by the development and application of new technologies (thermal imaging, spectral reflectance, stable isotopes) is facilitating high throughput phenotyping and indirect selection, consequently favoring yield improvement in drought prone environments.
The effect of tetraploidization of wild Arachis on leaf morphology and other drought-related traits
Leal-Bertioli SCM, Bertioli DJ, Guimarães PM, Pereira TD, Galhardo I, Silva JP, Brasileiro ACM, Oliveira RS, Silva PIT, Vadez V, Araujo ACG (2012). The effect of tetraploidization of wild Arachis on leaf morphology and other drought-related traits. Environmental and Experimental Botany, Volume 84: 17–24. (DOI: 10.1016/j.envexpbot.2012.04.005.) (G6010.01)
Cultivated peanut is an allotetraploid (genome type AABB) with a very narrow genetic base, therefore wild species are an attractive source of new variability and traits. Because most wild species are diploid, the first step of introgression usually involves hybridization of wild species and polyploidization to produce a synthetic allotetraploid (AABB) that is sexually compatible with peanut. This study investigates drought- related traits such as leaf morphology, transpiration profile, chlorophyll meter readings (SCMR), specific leaf area (SLA) and transpiration rate per leaf area for two wild diploids (Arachis duranensis and Arachis ipaënsis) that could be of interest for improvement of the peanut crop. Furthermore, the inheritance of the traits from the diploid to the tetraploid state was investigated. Results showed that whilst some diploid traits such as SCMR, are maintained through hybridization and polyploidization, most characters, such as the leaf area, stomata size, trichome density and transpiration profile, are substantially modified. The study concludes that direct evaluations of drought-related traits in wild diploids may be useful for evaluation of wild species to be used in introgression. However, evaluations on wild-derived synthetic tetraploids are likely to be more informative.
Leal-Bertioli SCM, Bertioli DJ, Guimarães PM, Pereira TD, Galhardo I, Silva JP, Brasileiro ACM, Oliveira RS, Silva PIT, Vadez V, Araujo ACG (2012). The effect of tetraploidization of wild Arachis on leaf morphology and other drought-related traits. Environmental and Experimental Botany, Volume 84: 17–24. (DOI: 10.1016/j.envexpbot.2012.04.005.) (G6010.01)
Cultivated peanut is an allotetraploid (genome type AABB) with a very narrow genetic base, therefore wild species are an attractive source of new variability and traits. Because most wild species are diploid, the first step of introgression usually involves hybridization of wild species and polyploidization to produce a synthetic allotetraploid (AABB) that is sexually compatible with peanut. This study investigates drought- related traits such as leaf morphology, transpiration profile, chlorophyll meter readings (SCMR), specific leaf area (SLA) and transpiration rate per leaf area for two wild diploids (Arachis duranensis and Arachis ipaënsis) that could be of interest for improvement of the peanut crop. Furthermore, the inheritance of the traits from the diploid to the tetraploid state was investigated. Results showed that whilst some diploid traits such as SCMR, are maintained through hybridization and polyploidization, most characters, such as the leaf area, stomata size, trichome density and transpiration profile, are substantially modified. The study concludes that direct evaluations of drought-related traits in wild diploids may be useful for evaluation of wild species to be used in introgression. However, evaluations on wild-derived synthetic tetraploids are likely to be more informative.
Genetic structure, linkage disequilibrium and signature of selection in sorghum; lessons from physically anchored DArT markers
Bouchet S, Pot D, Deu M, Rami JF, Billot C, Perrier CX, Rivallan R, Gardes L, Xia L, Wenzl P, Kilian K, Glaszmann JC (2012). Genetic structure, linkage disequilibrium and signature of selection in sorghum; lessons from physically anchored DArT markers. PLoS ONE 7(3):e33470 (DOI:10.1371/journal.pone.0033470).
Bouchet S, Pot D, Deu M, Rami JF, Billot C, Perrier CX, Rivallan R, Gardes L, Xia L, Wenzl P, Kilian K, Glaszmann JC (2012). Genetic structure, linkage disequilibrium and signature of selection in sorghum; lessons from physically anchored DArT markers. PLoS ONE 7(3):e33470 (DOI:10.1371/journal.pone.0033470).
Genetic dissection of developmental behaviour of grain weight in wheat under diverse temperature and water regimes
Li S, Wang C, Chang X, Jing R (2012). Genetic dissection of developmental behaviour of grain weight in wheat under diverse temperature and water regimes. Genetica 140(7-9):393–405. (DOI: 10.1007/s10709-012-9688-z). (G7010.02.01). Not open access: view abstract
Li S, Wang C, Chang X, Jing R (2012). Genetic dissection of developmental behaviour of grain weight in wheat under diverse temperature and water regimes. Genetica 140(7-9):393–405. (DOI: 10.1007/s10709-012-9688-z). (G7010.02.01). Not open access: view abstract
Integrated genomics, physiology and breeding approaches for improving drought tolerance in crops.
Mir R, Zaman-Allah M, Sreenivasulu N, Trethowan R, Varshney R (2012). Integrated genomics, physiology and breeding approaches for improving drought tolerance in crops. Theoretical and Applied Genetics published online 21pp. Issn: 0040-5752. (DOI: 10.1007/s00122-012-1904-9).
Mir R, Zaman-Allah M, Sreenivasulu N, Trethowan R, Varshney R (2012). Integrated genomics, physiology and breeding approaches for improving drought tolerance in crops. Theoretical and Applied Genetics published online 21pp. Issn: 0040-5752. (DOI: 10.1007/s00122-012-1904-9).
Can genomics boost productivity of orphan crops?
Varshney RK, Ribaut J-M , Buckler ES, Tuberosa R, Rafalski JA and Langridge P (2012). Can genomics boost productivity of orphan crops? Nature Biotechnology 30:1172–1176. (DOI: 10.1038/nbt.2440).
Advances in genomics over the past 20 years have enhanced the precision and efficiency of breeding programsin many temperate cereal crops. One of the first applications of genomics-assisted breeding has been the introgression of loci for resistance to biotic stresses or major quantitative trait loci (QTLs) for tolerance to abiotic stresses into elite genotypes through marker-assisted backcrossing (MABC)4. For instance, introgression of a major QTL for submergence tolerance (Sub1) into widely grown rice varieties has substantially improved yield in >15 million hectares of rain-fed low-land rice in South and Southeast Asia5. Despite this success story, the overall adoption of genomics-assisted breeding in developing countries is still limited especially for complex traits like yield under environmental stress in several other crops.
Varshney RK, Ribaut J-M , Buckler ES, Tuberosa R, Rafalski JA and Langridge P (2012). Can genomics boost productivity of orphan crops? Nature Biotechnology 30:1172–1176. (DOI: 10.1038/nbt.2440).
Advances in genomics over the past 20 years have enhanced the precision and efficiency of breeding programsin many temperate cereal crops. One of the first applications of genomics-assisted breeding has been the introgression of loci for resistance to biotic stresses or major quantitative trait loci (QTLs) for tolerance to abiotic stresses into elite genotypes through marker-assisted backcrossing (MABC)4. For instance, introgression of a major QTL for submergence tolerance (Sub1) into widely grown rice varieties has substantially improved yield in >15 million hectares of rain-fed low-land rice in South and Southeast Asia5. Despite this success story, the overall adoption of genomics-assisted breeding in developing countries is still limited especially for complex traits like yield under environmental stress in several other crops.
