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Papers by Rajkumar Rathinavelu

Cultivated rice is a high-volume, low-value cereal crop providing staple food to more than 50% of... more Cultivated rice is a high-volume, low-value cereal crop providing staple food to more than 50% of the world populace. A small group of rice cultivars, traditionally produced on the Indo-Gangetic plains and popularly known as Basmati, have exquisite quality grain characteristics and are a prized commercial commodity. Efforts to improve the yield potential of Basmati have led to the development of several crossbred Basmati-like cultivars. In this study we have analysed the genetic diversity and interrelationships among 33 rice genotypes consisting of the traditional Basmati, improved Basmati-like genotypes developed in India and elsewhere, American long-grain rice and a few non-aromatic rice using a DNA marker-based approach -fluorescent-amplified fragment length polymorphism (f-AFLP). Using a set of nine primer-pairs we scored a total of 10,672 data points over all of the genotypes in the size range of 75-500 bp. The scored data points corresponded to a total of 501 AFLP markers (putative loci/genome landmarks) of which 327 markers (65%) were polymorphic. The f-AFLP marker data, which were analysed using different clustering algorithms and principal component analysis, indicate that: (1) considerable genetic variability exists in the analysed genotypes; (2) traditional Basmati cultivars could be distinctly separated from the crossbred Basmati-like genotypes as well as from the non-aromatic rice; (3) the crossbred Basmati-like cultivars from the subcontinent and elsewhere are genetically very distinct; (4) f-AFLP-based clustering, in general, conforms to the putative pedigree of the improved genotypes. Moreover, analysis to ascertain the scope of AFLP as a technique suggests that the polymorphism revealed by three selective primer-pair combinations is sufficient to obtain reliable estimates of genetic diversity for the type of material used in this study. However, its utility to identify group-specific DNA markers was discounted due to a low frequency of observed group-specific discrete markers.

… Internacional do Café. Trieste (Italia): ICS-Unido …, Jan 1, 2005

O Diretor-Executivo cumprimenta os Membros e, a título informativo, encaminha-lhes cópia de um do... more O Diretor-Executivo cumprimenta os Membros e, a título informativo, encaminha-lhes cópia de um documento que a equipe encarregada da reformulação do projeto "Uso de subprodutos do café e usos alternativos para o café de qualidade inferior" preparou sobre usos alternativos potenciais dos detritos e subprodutos do café. O esboço do projeto em questão foi apresentado pela Costa Rica (documento de trabalho WP-Board No. 942/03) e aprovado pelo Conselho, em princípio, em setembro de 2003. A formulação de um projeto completo está agora sendo coordenada com o Centro Internacional para a Ciência e a Alta Tecnologia -Organização das Nações Unidas para o Desenvolvimento Industrial

Journal of Crop Science …, Jan 1, 2011

Organización Internacional del Café. ED, Jan 1, 1967

El Director Ejecutivo saluda atentamente a los Miembros y, para su información, adjunta el texto ... more El Director Ejecutivo saluda atentamente a los Miembros y, para su información, adjunta el texto de un documento acerca de posibles usos alternativos de los residuos y subproductos del café que fue preparado por el equipo que está volviendo a formular el proyecto titulado "Utilización de los subproductos del café y usos alternativos del café de calidad inferior". La reseña del proyecto fue presentada por Costa Rica (documento WP-Board No. 942/03) y aprobada en principio por el Consejo en septiembre de 2003. Está siendo coordinada ahora la elaboración de un proyecto amplio con el Centro Internacional para la Ciencia y la Alta Tecnología -Organización de las Naciones Unidas para el Desarrollo Industrial (ICS-UNIDO). ED 1967/05 17 agosto 2005 Original: inglés C Uso de los residuos y subproductos del café (Resumen) Página 1

Coffee Organization, Jan 1, 2005

BMC genomics, Jan 1, 2011

Background: Flax (Linum usitatissimum L.) is an important source of oil rich in omega-3 fatty aci... more Background: Flax (Linum usitatissimum L.) is an important source of oil rich in omega-3 fatty acids, which have proven health benefits and utility as an industrial raw material. Flax seeds also contain lignans which are associated with reducing the risk of certain types of cancer. Its bast fibres have broad industrial applications. However, genomic tools needed for molecular breeding were non existent. Hence a project, Total Utilization Flax GENomics (TUFGEN) was initiated. We report here the first genome-wide physical map of flax and the generation and analysis of BAC-end sequences (BES) from 43,776 clones, providing initial insights into the genome. Results: The physical map consists of 416 contigs spanning~368 Mb, assembled from 32,025 fingerprints, representing roughly 54.5% to 99.4% of the estimated haploid genome (370-675 Mb). The N50 size of the contigs was estimated to be~1,494 kb. The longest contig was~5,562 kb comprising 437 clones. There were 96 contigs containing more than 100 clones. Approximately 54.6 Mb representing 8-14.8% of the genome was obtained from 80,337 BES. Annotation revealed that a large part of the genome consists of ribosomal DNA (~13.8%), followed by known transposable elements at 6.1%. Furthermore,~7.4% of sequence was identified to harbour novel repeat elements. Homology searches against flax-ESTs and NCBI-ESTs suggested that~5.6% of the transcriptome is unique to flax. A total of 4064 putative genomic SSRs were identified and are being developed as novel markers for their use in molecular breeding.

Cultivated rice is a high-volume, low-value cereal crop providing staple food to more than 50% of... more Cultivated rice is a high-volume, low-value cereal crop providing staple food to more than 50% of the world populace. A small group of rice cultivars, traditionally produced on the Indo-Gangetic plains and popularly known as Basmati, have exquisite quality grain characteristics and are a prized commercial commodity. Efforts to improve the yield potential of Basmati have led to the development of several crossbred Basmati-like cultivars. In this study we have analysed the genetic diversity and interrelationships among 33 rice genotypes consisting of the traditional Basmati, improved Basmati-like genotypes developed in India and elsewhere, American long-grain rice and a few non-aromatic rice using a DNA marker-based approach -fluorescent-amplified fragment length polymorphism (f-AFLP). Using a set of nine primer-pairs we scored a total of 10,672 data points over all of the genotypes in the size range of 75-500 bp. The scored data points corresponded to a total of 501 AFLP markers (putative loci/genome landmarks) of which 327 markers (65%) were polymorphic. The f-AFLP marker data, which were analysed using different clustering algorithms and principal component analysis, indicate that: (1) considerable genetic variability exists in the analysed genotypes; (2) traditional Basmati cultivars could be distinctly separated from the crossbred Basmati-like genotypes as well as from the non-aromatic rice; (3) the crossbred Basmati-like cultivars from the subcontinent and elsewhere are genetically very distinct; (4) f-AFLP-based clustering, in general, conforms to the putative pedigree of the improved genotypes. Moreover, analysis to ascertain the scope of AFLP as a technique suggests that the polymorphism revealed by three selective primer-pair combinations is sufficient to obtain reliable estimates of genetic diversity for the type of material used in this study. However, its utility to identify group-specific DNA markers was discounted due to a low frequency of observed group-specific discrete markers.

… Internacional do Café. Trieste (Italia): ICS-Unido …, Jan 1, 2005

O Diretor-Executivo cumprimenta os Membros e, a título informativo, encaminha-lhes cópia de um do... more O Diretor-Executivo cumprimenta os Membros e, a título informativo, encaminha-lhes cópia de um documento que a equipe encarregada da reformulação do projeto "Uso de subprodutos do café e usos alternativos para o café de qualidade inferior" preparou sobre usos alternativos potenciais dos detritos e subprodutos do café. O esboço do projeto em questão foi apresentado pela Costa Rica (documento de trabalho WP-Board No. 942/03) e aprovado pelo Conselho, em princípio, em setembro de 2003. A formulação de um projeto completo está agora sendo coordenada com o Centro Internacional para a Ciência e a Alta Tecnologia -Organização das Nações Unidas para o Desenvolvimento Industrial

Journal of Crop Science …, Jan 1, 2011

Organización Internacional del Café. ED, Jan 1, 1967

El Director Ejecutivo saluda atentamente a los Miembros y, para su información, adjunta el texto ... more El Director Ejecutivo saluda atentamente a los Miembros y, para su información, adjunta el texto de un documento acerca de posibles usos alternativos de los residuos y subproductos del café que fue preparado por el equipo que está volviendo a formular el proyecto titulado "Utilización de los subproductos del café y usos alternativos del café de calidad inferior". La reseña del proyecto fue presentada por Costa Rica (documento WP-Board No. 942/03) y aprobada en principio por el Consejo en septiembre de 2003. Está siendo coordinada ahora la elaboración de un proyecto amplio con el Centro Internacional para la Ciencia y la Alta Tecnología -Organización de las Naciones Unidas para el Desarrollo Industrial (ICS-UNIDO). ED 1967/05 17 agosto 2005 Original: inglés C Uso de los residuos y subproductos del café (Resumen) Página 1

Coffee Organization, Jan 1, 2005

BMC genomics, Jan 1, 2011

Background: Flax (Linum usitatissimum L.) is an important source of oil rich in omega-3 fatty aci... more Background: Flax (Linum usitatissimum L.) is an important source of oil rich in omega-3 fatty acids, which have proven health benefits and utility as an industrial raw material. Flax seeds also contain lignans which are associated with reducing the risk of certain types of cancer. Its bast fibres have broad industrial applications. However, genomic tools needed for molecular breeding were non existent. Hence a project, Total Utilization Flax GENomics (TUFGEN) was initiated. We report here the first genome-wide physical map of flax and the generation and analysis of BAC-end sequences (BES) from 43,776 clones, providing initial insights into the genome. Results: The physical map consists of 416 contigs spanning~368 Mb, assembled from 32,025 fingerprints, representing roughly 54.5% to 99.4% of the estimated haploid genome (370-675 Mb). The N50 size of the contigs was estimated to be~1,494 kb. The longest contig was~5,562 kb comprising 437 clones. There were 96 contigs containing more than 100 clones. Approximately 54.6 Mb representing 8-14.8% of the genome was obtained from 80,337 BES. Annotation revealed that a large part of the genome consists of ribosomal DNA (~13.8%), followed by known transposable elements at 6.1%. Furthermore,~7.4% of sequence was identified to harbour novel repeat elements. Homology searches against flax-ESTs and NCBI-ESTs suggested that~5.6% of the transcriptome is unique to flax. A total of 4064 putative genomic SSRs were identified and are being developed as novel markers for their use in molecular breeding.