Sequence polymorphism from EST data in sugarcane: a fine analysis of 6-phosphogluconate dehydrogenase genes

This paper presents preliminary results demonstrating the use of the sugarcane expressed sequence tag (EST) database (SUCEST) to detect single nucleotide polymorphisms (SNPs) inside 6-phosphogluconate dehydrogenase genes (Pgds). Sixty-four Pgd-related EST sequences were identified and partitioned into two clear-cut sets of 14 and 50 ESTs, probably corresponding to two genes, A and B, respectively. Alignment of A sequences allowed the detection of a single SNP while alignment of B sequences permitted the detection of 39 reliable SNPs, 27 of which in the coding sequence of the gene. Thirty-eight SNPs were binucleotidic and a single one was trinucleotidic. Nine insertions/deletions from one to 72 base pairs long were also detected in the noncoding 3? and 5? sequences. The soundness and the consequences of those preliminary observations on sequence polymorphism in sugarcane are discussed.O presente estudo apresenta resultados preliminares demonstrando a utilização da base de dados de ESTs de cana-de-açúcar para detectar polimorfismo de base única (SNP para Single Nucleotide Polymorphism). Sessenta e quatro ESTs relacionados aos genes da 6-phosphogluconate deshydrogenases (Pgds) foram identificados e divididos em dois conjuntos bem delimitados, de 14 e 50 ESTs, correspondendo a dois genes, A e B. O alinhamento das seqüências do grupo A permitiu a detecção de um único SNP e o alinhamento das seqüências do grupo B permitiu a detecção de 39 SNP, incluindo 27 na região codificante do gene. Trinta e oito SNP foram bi-nucleotídicos e um único tri-nucleotídico. Nove inserções/supressões de um até 72 pares de base foram detectados nas regiões não-codificantes 3? ou 5?. A robustez e as conseqüências dessas observações preliminares são discutidas.16116

A Review of Recent Molecular Genetics Evidence for Sugarcane Evolution and Domestication

In 1987, J. Daniels and B. T. Roach published an exhaustive multidisciplinary review of evidence permitting the domestication and the early evolution of sugarcane to be traced. We try here to synthesize the new data that have been produced since, and their contribution to the understanding of the global picture. It is now highly probable that sugarcane evolved from a specific lineage restricted to current genus Saccharum and independent from lineages that conducted to genera Miscanthus and Erianthus. The scenario established by E. W. Brandes in 1958 is very likely the right one: Noble cultivars (ie. Saccharum officinarum) arose from S. robustum in New Guinea. Humans then spread these cultigens over large distances. In mainland Asia, natural hybridization with S. spontaneum occurred, and gave rise to the North Indian (S. barberi) and Chinese (S. sinense) cultivars. Relationships between S. spontaneum and S. robustum in situations of sympatry are still not well understood

Isozymes, possible markers for blue-green algae (BGA) identification

L'utilisation des méthodes électrophorétiques permet une identification des Cyanophycées au moyen des isoenzymes des superoxydes dismutases, phosphogluco-isomérases, isocitrate-deshydrogénases et phosphogluconates déhydrogénases. (Résumé d'auteur

Sequence polymorphism from EST data in sugarcane: a fine analysis of 6-phosphogluconate dehydrogenase genes

This paper presents preliminary results demonstrating the use of the sugarcane expressed sequence tag (EST) database (SUCEST) to detect single nucleotide polymorphisms (SNPs) inside 6-phosphogluconate dehydrogenase genes (Pgds). Sixty-four Pgd-related EST sequences were identified and partitioned into two clear-cut sets of 14 and 50 ESTs, probably corresponding to two genes, A and B, respectively. Alignment of A sequences allowed the detection of a single SNP while alignment of B sequences permitted the detection of 39 reliable SNPs, 27 of which in the coding sequence of the gene. Thirty-eight SNPs were binucleotidic and a single one was trinucleotidic. Nine insertions/deletions from one to 72 base pairs long were also detected in the noncoding 3’ and 5’ sequences. The soundness and the consequences of those preliminary observations on sequence polymorphism in sugarcane are discussed.O presente estudo apresenta resultados preliminares demonstrando a utilização da base de dados de ESTs de cana-de-açúcar para detectar polimorfismo de base única (SNP para Single Nucleotide Polymorphism). Sessenta e quatro ESTs relacionados aos genes da 6-phosphogluconate deshydrogenases (Pgds) foram identificados e divididos em dois conjuntos bem delimitados, de 14 e 50 ESTs, correspondendo a dois genes, A e B. O alinhamento das seqüências do grupo A permitiu a detecção de um único SNP e o alinhamento das seqüências do grupo B permitiu a detecção de 39 SNP, incluindo 27 na região codificante do gene. Trinta e oito SNP foram bi-nucleotídicos e um único tri-nucleotídico. Nove inserções/supressões de um até 72 pares de base foram detectados nas regiões não-codificantes 3’ ou 5’. A robustez e as conseqüências dessas observações preliminares são discutidas