Journal articles 2012
Documents
Matita, a new retroelement from peanut: Characterization and evolutionary context in the light of the Arachis A–B genome divergence
Nielen S, Vidigal BS, Leal-Bertioli SCM, Ratnaparkhe M, Paterson AH, Garsmeur O, D'Hont A, Guimarães PM and Bertioli D (2012). Matita, a new retroelement from peanut: Characterization and evolutionary context in the light of the Arachis A–B genome divergence. Molecular Genetics and Genomics 287(1):21–38 (DOI: 10.1007/s00438-011-0656-6). First published online in November 2011. Not open access; view abstract. (G6010.01)
Nielen S, Vidigal BS, Leal-Bertioli SCM, Ratnaparkhe M, Paterson AH, Garsmeur O, D'Hont A, Guimarães PM and Bertioli D (2012). Matita, a new retroelement from peanut: Characterization and evolutionary context in the light of the Arachis A–B genome divergence. Molecular Genetics and Genomics 287(1):21–38 (DOI: 10.1007/s00438-011-0656-6). First published online in November 2011. Not open access; view abstract. (G6010.01)
Modelling possible benefits of root related traits to enhance terminal drought adaptation of chickpea
Vadez V, Soltani A, Sinclair TR (2012). Modelling possible benefits of root related traits to enhance terminal drought adaptation of chickpea. Field Crops Research 137:108–115. (DOI: 10.1016/j.fcr.2012.07.022). Not open access: view abstract
Vadez V, Soltani A, Sinclair TR (2012). Modelling possible benefits of root related traits to enhance terminal drought adaptation of chickpea. Field Crops Research 137:108–115. (DOI: 10.1016/j.fcr.2012.07.022). Not open access: view abstract
Molecular genetic diversity analysis in emmer wheat (Triticum dicoccon Schrank) from India
Salunkhe A, Tamhankar S, Tetali S, Zaharieva M, Bonnett D, Trethowan R and Misra S (2012). Molecular genetic diversity analysis in emmer wheat (Triticum dicoccon Schrank) from India. Genetic Resources and Crop Evolution published online. Print ISSN: 0925-9864, Online ISSN: 1573-5109. (DOI: 10.1007/s10722-012-9823-9). Not open access: view abstract
Salunkhe A, Tamhankar S, Tetali S, Zaharieva M, Bonnett D, Trethowan R and Misra S (2012). Molecular genetic diversity analysis in emmer wheat (Triticum dicoccon Schrank) from India. Genetic Resources and Crop Evolution published online. Print ISSN: 0925-9864, Online ISSN: 1573-5109. (DOI: 10.1007/s10722-012-9823-9). Not open access: view abstract
Molecular marker analysis and validation of resistance to cassava mosaic disease in elite cassava genotypes in Nigeria
Okogbenin E, Egesi CN, Olasanmi B, Ogundapo O, Kahya S, Hurtado P, Marin J, Akinbo O, Mba C, Gomez H, de Vicente C, Baiyeri S, Uguru M, Ewa F, Fregene M (2012). Molecular marker analysis and validation of resistance to cassava mosaic disease in elite cassava genotypes in Nigeria. Crop Science 52(6): 2576–2586. (DOI: 10.2135/cropsci2011.11.0586). (G7009.10/G7010.01.02). Not open access: view abstract
Okogbenin E, Egesi CN, Olasanmi B, Ogundapo O, Kahya S, Hurtado P, Marin J, Akinbo O, Mba C, Gomez H, de Vicente C, Baiyeri S, Uguru M, Ewa F, Fregene M (2012). Molecular marker analysis and validation of resistance to cassava mosaic disease in elite cassava genotypes in Nigeria. Crop Science 52(6): 2576–2586. (DOI: 10.2135/cropsci2011.11.0586). (G7009.10/G7010.01.02). Not open access: view abstract
Molecular markers and their application to cassava breeding: past, present and future
Ferguson M, Rabbi I, Kim DJ, Gedil M, Lopez-Lavalle LA, Okogbenin E (2012). Molecular markers and their application to cassava breeding: past, present and future. Tropical Plant Biology 5(1): (2012), 95–109, (DOI:10.1007/s12042-011-9087-0). Not open access: view abstract
Ferguson M, Rabbi I, Kim DJ, Gedil M, Lopez-Lavalle LA, Okogbenin E (2012). Molecular markers and their application to cassava breeding: past, present and future. Tropical Plant Biology 5(1): (2012), 95–109, (DOI:10.1007/s12042-011-9087-0). Not open access: view abstract
Next-generation sequencing technologies: opportunities and obligations in plant genomics
Varshney RK and May GD (2012). Next-generation sequencing technologies: opportunities and obligations in plant genomics. Briefings in Functional Genomics 11(1):1–2. (DOI: 10.1093/bfgp/els001). Not open access: view abstract
Varshney RK and May GD (2012). Next-generation sequencing technologies: opportunities and obligations in plant genomics. Briefings in Functional Genomics 11(1):1–2. (DOI: 10.1093/bfgp/els001). Not open access: view abstract
Opportunities for exploiting variations in haulm fodder traits of intermittent drought tolerant lines in a reference collection of groundnut (Arachis hypogeae L.)
Blümmel M, Ratnakumar P, and Vadez V (2012). Opportunities for exploiting variations in haulm fodder traits of intermittent drought tolerant lines in a reference collection of groundnut (Arachis hypogeae L.). Field Crops Research 126:200–206, ISSN 0378-4290. (DOI:10.1016/j.fcr.2011.10.004). Not open access: view abstract
Blümmel M, Ratnakumar P, and Vadez V (2012). Opportunities for exploiting variations in haulm fodder traits of intermittent drought tolerant lines in a reference collection of groundnut (Arachis hypogeae L.). Field Crops Research 126:200–206, ISSN 0378-4290. (DOI:10.1016/j.fcr.2011.10.004). Not open access: view abstract
ParentChecker: a computer program for automated inference of missing parental genotype calls and linkage phase correction
Hu Z, Ehlers JD, Roberts PA, Close TJ, Lucas MR, Wanamaker S, Xu S (2012). ParentChecker: a computer program for automated inference of missing parental genotype calls and linkage phase correction. BMC Genetics 13:9. (DOI: 10.1186/1471-2156-13-9). (G6010.02/G7010.07.01).
ParentChecker is a user-friendly tool that uses the segregation patterns of progeny to infer missing genotype information of parental lines that have been used to construct a mapping population. It can also be used to automate correction of linkage phase errors in genotypic data that are in ABH format.
ParentChecker efficiently improves genetic mapping datasets for cases where parental information is incomplete by automating the process of inferring missing genotypes of inbred mapping populations and can also be used to correct linkage phase errors in ABH formatted datasets.
Hu Z, Ehlers JD, Roberts PA, Close TJ, Lucas MR, Wanamaker S, Xu S (2012). ParentChecker: a computer program for automated inference of missing parental genotype calls and linkage phase correction. BMC Genetics 13:9. (DOI: 10.1186/1471-2156-13-9). (G6010.02/G7010.07.01).
ParentChecker is a user-friendly tool that uses the segregation patterns of progeny to infer missing genotype information of parental lines that have been used to construct a mapping population. It can also be used to automate correction of linkage phase errors in genotypic data that are in ABH format.
ParentChecker efficiently improves genetic mapping datasets for cases where parental information is incomplete by automating the process of inferring missing genotypes of inbred mapping populations and can also be used to correct linkage phase errors in ABH formatted datasets.
Phenotyping chickpeas and pigeonpeas for adaptation to drought
Upadhyaya HD, Kashiwagi J, Varshney RK, Gaur PM, Saxena KB, Krishnamurthy L, Gowda CLL, Pundir RPS, Chaturvedi SK, Basu PS and Singh IP (2012). Phenotyping chickpeas and pigeonpeas for adaptation to drought. Frontiers in Plant Physiology 3:179. (DOI: 10.3389/fphys.2012.00179).
The chickpea and pigeonpea are protein-rich grain legumes used for human consumption in many countries. Grain yield of these crops is low to moderate in the semi-arid tropics with large variation due to high GxE interaction. In the Indian subcontinent chickpea is grown in the post-rainy winter season on receding soil moisture, and in other countries during the cool and dry post winter or spring seasons. The pigeonpea is sown during rainy season which flowers and matures in post-rainy season. The rainy months are hot and humid with diurnal temperature varying between 25 and 35˚C (maximum) and 20 and 25˚C (minimum) with an erratic rainfall. The available soil water during post-rainy season is about 200–250 mm which is bare minimum to meet the normal evapotranspiration. Thus occur- rence of drought is frequent and at varying degrees. To enhance productivity of these crops cultivars tolerant to drought need to be developed.
Upadhyaya HD, Kashiwagi J, Varshney RK, Gaur PM, Saxena KB, Krishnamurthy L, Gowda CLL, Pundir RPS, Chaturvedi SK, Basu PS and Singh IP (2012). Phenotyping chickpeas and pigeonpeas for adaptation to drought. Frontiers in Plant Physiology 3:179. (DOI: 10.3389/fphys.2012.00179).
The chickpea and pigeonpea are protein-rich grain legumes used for human consumption in many countries. Grain yield of these crops is low to moderate in the semi-arid tropics with large variation due to high GxE interaction. In the Indian subcontinent chickpea is grown in the post-rainy winter season on receding soil moisture, and in other countries during the cool and dry post winter or spring seasons. The pigeonpea is sown during rainy season which flowers and matures in post-rainy season. The rainy months are hot and humid with diurnal temperature varying between 25 and 35˚C (maximum) and 20 and 25˚C (minimum) with an erratic rainfall. The available soil water during post-rainy season is about 200–250 mm which is bare minimum to meet the normal evapotranspiration. Thus occur- rence of drought is frequent and at varying degrees. To enhance productivity of these crops cultivars tolerant to drought need to be developed.
Phenotyping cowpeas for adaptation to drought
Hall A (2012). Phenotyping cowpeas for adaptation to drought. Frontiers in Plant Physiology 3:155. (DOI: 10.3389/fphys.2012.00155).
Methods for phenotyping cowpeas for adaptation to drought are reviewed. Key factors involve achieving optimal time of flowering and cycle length, and appropriate morphology for different types of cultivars as they relate to their utilization for dry grain, hay, and fresh pea production. Strong resistance to vegetative-stage drought is available and should be incorporated.The extreme ability of extra-early erect cowpea cultivars to escape terminal drought should be exploited in zones with very short rainfall seasons. In zones with the possibility of limited rainfall in the middle of the growing season,resistance to mid-season drought, and the delayed-leaf-senescence trait can be valuable. Breeding for water-us e efficiency, deeper rooting, and heat tolerance are discussed. Diseases and pests that influence adaptation to drought are considered. Resistance to the organism causing ashy stem blight disease should be incorporated because this disease can destroy cowpea seedlings under hot, dry soil conditions. The value of varietal intercrops with contrasting types of cowpea cultivars in enhancing adaptation to drought is described. Implications of cowpea/cereal rotations for cowpea breeding are discussed. Breeding strategies for enhancing cowpea adaptation to drought are described.
Hall A (2012). Phenotyping cowpeas for adaptation to drought. Frontiers in Plant Physiology 3:155. (DOI: 10.3389/fphys.2012.00155).
Methods for phenotyping cowpeas for adaptation to drought are reviewed. Key factors involve achieving optimal time of flowering and cycle length, and appropriate morphology for different types of cultivars as they relate to their utilization for dry grain, hay, and fresh pea production. Strong resistance to vegetative-stage drought is available and should be incorporated.The extreme ability of extra-early erect cowpea cultivars to escape terminal drought should be exploited in zones with very short rainfall seasons. In zones with the possibility of limited rainfall in the middle of the growing season,resistance to mid-season drought, and the delayed-leaf-senescence trait can be valuable. Breeding for water-us e efficiency, deeper rooting, and heat tolerance are discussed. Diseases and pests that influence adaptation to drought are considered. Resistance to the organism causing ashy stem blight disease should be incorporated because this disease can destroy cowpea seedlings under hot, dry soil conditions. The value of varietal intercrops with contrasting types of cowpea cultivars in enhancing adaptation to drought is described. Implications of cowpea/cereal rotations for cowpea breeding are discussed. Breeding strategies for enhancing cowpea adaptation to drought are described.
