Journal articles 2012
Documents
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
TaWIR1 contributes to post-penetration resistance to Magnaporthe oryzae, but not Blumeria graminis f. sp. tritici in wheat
Tufan HA, McGrann GRD, MacCormack R and Boyd LA (2012). TaWIR1 contributes to post-penetration resistance to Magnaporthe oryzae, but not Blumeria graminis f. sp. tritici in wheat. Molecular Plant Pathology 13(7):653–665 (DOI: 10.1111/j.1364-3703.2011.00775.x). Not open access; view abstract. (G3005.11)
Tufan HA, McGrann GRD, MacCormack R and Boyd LA (2012). TaWIR1 contributes to post-penetration resistance to Magnaporthe oryzae, but not Blumeria graminis f. sp. tritici in wheat. Molecular Plant Pathology 13(7):653–665 (DOI: 10.1111/j.1364-3703.2011.00775.x). Not open access; view abstract. (G3005.11)
Global transcriptome analysis of two wild relatives of peanut under drought and fungi infection
Guimarães PM, Brasileiro ACM, Morgante CV, Martins ACQ, Pappas G, Silva OB, Togawa R, Leal-Bertioli SCM, Araujo ACG, Moretzsohn MC and Bertioli DJ (2012). Global transcriptome analysis of two wild relatives of peanut under drought and fungi infection. BMC Genomics 13:387 (DOI: 10.1186/1471-2164-13-387). (G6010.01)
Abstract: Background Cultivated peanut (Arachis hypogaea) is one of the most widely grown grain legumes in the world, being valued for its high protein and unsaturated oil contents. Worldwide, the major constraints to peanut production are drought and fungal diseases. Wild Arachis species, which are exclusively South American in origin, have high genetic diversity and have been selected during evolution in a range of environments and biotic stresses, constituting a rich source of allele diversity. Arachis stenosperma harbors resistances to a number of pests, including fungal diseases, whilst A. duranensis has shown improved tolerance to water limited stress. In this study, these species were used for the creation of an extensive databank of wild Arachis transcripts under stress which will constitute a rich source for gene discovery and molecular markers development.
Results Transcriptome analysis of cDNA collections from A. stenosperma challenged with Cercosporidium personatum (Berk. and M.A. Curtis) Deighton, and A. duranensis submitted to gradual water limited stress was conducted using 454 GS FLX Titanium generating a total of 7.4 x 105 raw sequence reads covering 211 Mbp of both genomes. High quality reads were assembled to 7,723 contigs for A. stenosperma and 12,792 for A. duranensis and functional annotation indicated that 95% of the contigs in both species could be appointed to GO annotation categories. A number of transcription factors families and defense related genes were identified in both species. Additionally, the expression of five A. stenosperma Resistance Gene Analogs (RGAs) and four retrotransposon (FIDEL-related) sequences were analyzed by qRT-PCR. This data set was used to design a total of 2,325 EST-SSRs, of which a subset of 584 amplified in both species and 214 were shown to be polymorphic using ePCR.
Conclusions This study comprises one of the largest unigene dataset for wild Arachis species and will help to elucidate genes involved in responses to biological processes such as fungal diseases and water limited stress. Moreover, it will also facilitate basic and applied research on the genetics of peanut through the development of new molecular markers and the study of adaptive variation across the genus.
Guimarães PM, Brasileiro ACM, Morgante CV, Martins ACQ, Pappas G, Silva OB, Togawa R, Leal-Bertioli SCM, Araujo ACG, Moretzsohn MC and Bertioli DJ (2012). Global transcriptome analysis of two wild relatives of peanut under drought and fungi infection. BMC Genomics 13:387 (DOI: 10.1186/1471-2164-13-387). (G6010.01)
Abstract: Background Cultivated peanut (Arachis hypogaea) is one of the most widely grown grain legumes in the world, being valued for its high protein and unsaturated oil contents. Worldwide, the major constraints to peanut production are drought and fungal diseases. Wild Arachis species, which are exclusively South American in origin, have high genetic diversity and have been selected during evolution in a range of environments and biotic stresses, constituting a rich source of allele diversity. Arachis stenosperma harbors resistances to a number of pests, including fungal diseases, whilst A. duranensis has shown improved tolerance to water limited stress. In this study, these species were used for the creation of an extensive databank of wild Arachis transcripts under stress which will constitute a rich source for gene discovery and molecular markers development.
Results Transcriptome analysis of cDNA collections from A. stenosperma challenged with Cercosporidium personatum (Berk. and M.A. Curtis) Deighton, and A. duranensis submitted to gradual water limited stress was conducted using 454 GS FLX Titanium generating a total of 7.4 x 105 raw sequence reads covering 211 Mbp of both genomes. High quality reads were assembled to 7,723 contigs for A. stenosperma and 12,792 for A. duranensis and functional annotation indicated that 95% of the contigs in both species could be appointed to GO annotation categories. A number of transcription factors families and defense related genes were identified in both species. Additionally, the expression of five A. stenosperma Resistance Gene Analogs (RGAs) and four retrotransposon (FIDEL-related) sequences were analyzed by qRT-PCR. This data set was used to design a total of 2,325 EST-SSRs, of which a subset of 584 amplified in both species and 214 were shown to be polymorphic using ePCR.
Conclusions This study comprises one of the largest unigene dataset for wild Arachis species and will help to elucidate genes involved in responses to biological processes such as fungal diseases and water limited stress. Moreover, it will also facilitate basic and applied research on the genetics of peanut through the development of new molecular markers and the study of adaptive variation across the genus.
Full article
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)
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)
