Journal articles 2012
Documents
Coverage-based consensus calling (CbCC) of short sequence reads and comparison of CbCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome
Azam S, Thakur V, Ruperao P, Shah T, Balaji J, Amindala B, Farmer AD, Studholme DJ, May GD, Edwards D, Jones JD, Varshney RK (2012). Coverage-based consensus calling (CbCC) of short sequence reads and comparison of CbCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome. American Journal of Botany 99(2):186–192. (DOI: 10.3732/ajb.1100419). Not open access: view abstract
Azam S, Thakur V, Ruperao P, Shah T, Balaji J, Amindala B, Farmer AD, Studholme DJ, May GD, Edwards D, Jones JD, Varshney RK (2012). Coverage-based consensus calling (CbCC) of short sequence reads and comparison of CbCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome. American Journal of Botany 99(2):186–192. (DOI: 10.3732/ajb.1100419). Not open access: view abstract
Current state-of-art of sequencing technologies for plant genomics research
Thudi M, Li Y, Jackson SA, May GD, Varshney RK (2012). Current state-of-art of sequencing technologies for plant genomics research. Briefings in Functional Genomics (2012) 11 (1): 3-11. (DOI: 10.1093/bfgp/elr045). Not open access: view abstract
Thudi M, Li Y, Jackson SA, May GD, Varshney RK (2012). Current state-of-art of sequencing technologies for plant genomics research. Briefings in Functional Genomics (2012) 11 (1): 3-11. (DOI: 10.1093/bfgp/elr045). Not open access: view abstract
Detection and integration of gene mapping of downy mildew resistance in maize inbred lines though linkage and association
Phumichai C, Chunwongse J, Jampatong S, Grudloyma P, Pulam T, Doungchan W, Wongkaew A and Kongsiri N (2012). Detection and integration of gene mapping of downy mildew resistance in maize inbred lines though linkage and association. Euphytica 187(3):369–379 (DOI: 10.1007/s10681-012-0699-8). Not open access; view abstract. (G4007.04)
Phumichai C, Chunwongse J, Jampatong S, Grudloyma P, Pulam T, Doungchan W, Wongkaew A and Kongsiri N (2012). Detection and integration of gene mapping of downy mildew resistance in maize inbred lines though linkage and association. Euphytica 187(3):369–379 (DOI: 10.1007/s10681-012-0699-8). Not open access; view abstract. (G4007.04)
Development and characterization of highly polymorphic long TC repeat microsatellite markers for genetic analysis of peanut
Macedo SE, Moretzsohn MC, Leal-Bertioli SC, Alves DM, Gouvea EG, Azevedo VC, Bertioli DJ (2012). Development and characterization of highly polymorphic long TC repeat microsatellite markers for genetic analysis of peanut. BMC Research Notes 5:86 10pp. (DOI:10.1186/1756-0500-5-86). (G6010.01)
Macedo SE, Moretzsohn MC, Leal-Bertioli SC, Alves DM, Gouvea EG, Azevedo VC, Bertioli DJ (2012). Development and characterization of highly polymorphic long TC repeat microsatellite markers for genetic analysis of peanut. BMC Research Notes 5:86 10pp. (DOI:10.1186/1756-0500-5-86). (G6010.01)
Development of a Mesoamerican intra-genepool genetic map for quantitative trait loci detection in a drought tolerant × susceptible common bean (Phaseolus vulgaris L.) cross.
Blair MW, Galeano CH, Tovar E, Muñoz Torres MC, Velasco Castrillón A, Beebe SE, Rao IM (2012). Development of a Mesoamerican intra-genepool genetic map for quantitative trait loci detection in a drought tolerant × susceptible common bean (Phaseolus vulgaris L.) cross. Molecular Breeding 29(1):71–88 (DOI 10.1007/s11032-010-9527-9). Also published online in 2010.
Blair MW, Galeano CH, Tovar E, Muñoz Torres MC, Velasco Castrillón A, Beebe SE, Rao IM (2012). Development of a Mesoamerican intra-genepool genetic map for quantitative trait loci detection in a drought tolerant × susceptible common bean (Phaseolus vulgaris L.) cross. Molecular Breeding 29(1):71–88 (DOI 10.1007/s11032-010-9527-9). Also published online in 2010.
Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers
Varshney RK, Chen W, Li Y, Bharti AK, Saxena RK, Schlueter JA, Donoghue MTA, Azam S, Fan G, Whaley AM, Farmer AD, Sheridan J, Iwata A, Tuteja R, Penmetsa RV, Wu W, Upadhyaya HD, Yang S-P, Shah T, Saxena KB, Michael T, McCombie WR, Yang B, Zhang G, Yang H, Wang J, Spillane C, Cook DR, May GD, Xu X & Jackson SA (2012). Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers. Nature Biotechnology 30: 83–89. Also published online November 2011. (DOI:10.1038/nbt.2022).
Varshney RK, Chen W, Li Y, Bharti AK, Saxena RK, Schlueter JA, Donoghue MTA, Azam S, Fan G, Whaley AM, Farmer AD, Sheridan J, Iwata A, Tuteja R, Penmetsa RV, Wu W, Upadhyaya HD, Yang S-P, Shah T, Saxena KB, Michael T, McCombie WR, Yang B, Zhang G, Yang H, Wang J, Spillane C, Cook DR, May GD, Xu X & Jackson SA (2012). Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers. Nature Biotechnology 30: 83–89. Also published online November 2011. (DOI:10.1038/nbt.2022).
Exploring elite alleles for chlorophyll content of flag leaf in natural population of wheat association analysis
Li W, Zhang B, Zhang J, Chang X, Li R, Jing R (2012). Exploring elite alleles for chlorophyll content of flag leaf in natural population of wheat association analysis. Acta Agronomica Sinica 38(6):962–970. (DOI: 10.3724/SP.J.1006.2012.00962). (G7010.02.01). Article in Chinese with abstract in English. Not open access: view online
Elite alleles associated with chlorophyll content of flag leaf in a natural population of winter wheat (Triticum aestivum L.) consisting of 262 accessions were measured at flowering and grain-filling stages under both rainfed and well-watered conditions in two experimental locations in Beijing, China. A total of 169 SSR markers distributed on the 21 chromosomes of wheat were employed to detect the genetic diversity and genetic structure of the population. Association analysis between SSR loci and chlorophyll content trait was performed using TASSEL MLM (mixed linear model) program.
Li W, Zhang B, Zhang J, Chang X, Li R, Jing R (2012). Exploring elite alleles for chlorophyll content of flag leaf in natural population of wheat association analysis. Acta Agronomica Sinica 38(6):962–970. (DOI: 10.3724/SP.J.1006.2012.00962). (G7010.02.01). Article in Chinese with abstract in English. Not open access: view online
Elite alleles associated with chlorophyll content of flag leaf in a natural population of winter wheat (Triticum aestivum L.) consisting of 262 accessions were measured at flowering and grain-filling stages under both rainfed and well-watered conditions in two experimental locations in Beijing, China. A total of 169 SSR markers distributed on the 21 chromosomes of wheat were employed to detect the genetic diversity and genetic structure of the population. Association analysis between SSR loci and chlorophyll content trait was performed using TASSEL MLM (mixed linear model) program.
Field evaluation of rice genotypes from the two cultivated species (Oryza sativa L. and Oryza glaberrima Steud.) and their interspecifics for tolerance to drought
Ndjiondjop MN, Futakuchi K, Cisse F, Baimey H, Bocco R (2012). Field evaluation of rice genotypes from the two cultivated species (Oryza sativa L. and Oryza glaberrima Steud.) and their interspecifics for tolerance to drought. Crop Science 52(2):524–538. (DOI: 10.2135/cropsci2011.05.0287). Not open access: view abstract
Ndjiondjop MN, Futakuchi K, Cisse F, Baimey H, Bocco R (2012). Field evaluation of rice genotypes from the two cultivated species (Oryza sativa L. and Oryza glaberrima Steud.) and their interspecifics for tolerance to drought. Crop Science 52(2):524–538. (DOI: 10.2135/cropsci2011.05.0287). Not open access: view abstract
Field evaluation on functional roles of root plastic responses on dry matter production and grain yield of rice under cycles of transient soil moisture stresses using chromosome segment substitution lines
Niones JM, Suralta RR, Inukai Y and Yamauchi A (2012). Field evaluation on functional roles of root plastic responses on dry matter production and grain yield of rice under cycles of transient soil moisture stresses using chromosome segment substitution lines. Plant and Soil 359(1-2):107–120. (DOI: 10.1007/s11104-012-1178-7). (G3008.06). Not open access: view abstract
Niones JM, Suralta RR, Inukai Y and Yamauchi A (2012). Field evaluation on functional roles of root plastic responses on dry matter production and grain yield of rice under cycles of transient soil moisture stresses using chromosome segment substitution lines. Plant and Soil 359(1-2):107–120. (DOI: 10.1007/s11104-012-1178-7). (G3008.06). Not open access: view abstract
Field phenotyping strategies and breeding for adaptation of rice to drought
Fischer KS, Fukai S, Kumar A, Leung H and Jongdee B (2012). Field phenotyping strategies and breeding for adaptation of rice to drought. Frontiers in Plant Physiology 3:282. (DOI: 10.3389/fphys.2012.00282).
This paper is a section of the book “Drought phenotyping in crops: from theory to practice” (Monneveux Philippe and Ribaut Jean-Marcel eds, published by CGIAR Generation Chal-lenge Programme. Texcoco, Mexico). The section describes recent experience in drought phenotyping in rice which is one of the most drought-susceptible crops. The section contains genetic and genomic resources for drought adaptation and methods for selection of drought-resistant varieties in rice. In appendix, there is experience from Thailand on integration of direct selection for grain yield and physiological traits to confer drought resistance.
Fischer KS, Fukai S, Kumar A, Leung H and Jongdee B (2012). Field phenotyping strategies and breeding for adaptation of rice to drought. Frontiers in Plant Physiology 3:282. (DOI: 10.3389/fphys.2012.00282).
This paper is a section of the book “Drought phenotyping in crops: from theory to practice” (Monneveux Philippe and Ribaut Jean-Marcel eds, published by CGIAR Generation Chal-lenge Programme. Texcoco, Mexico). The section describes recent experience in drought phenotyping in rice which is one of the most drought-susceptible crops. The section contains genetic and genomic resources for drought adaptation and methods for selection of drought-resistant varieties in rice. In appendix, there is experience from Thailand on integration of direct selection for grain yield and physiological traits to confer drought resistance.
