A rapid DNA extraction method for sugarcane and its relatives (original) (raw)
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Molecular investigation of the genetic base of sugarcane cultivars
TAG Theoretical and Applied Genetics, 1999
Molecular diversity was analysed among 162 clones of sugarcane using DNA restriction fragment length polymorphism (RFLP). One hundred and nine of them were modern cultivars of interspeci"c origin; most of them were bred in Barbados or in Mauritius. Fifty three were from Saccharum o.cinarum species, which is the major source of genes in modern cultivars, prevailing over the part of the genome incorporated from the wild species Saccharum spontaneum. Twelve low-copy nuclear DNA probes scattered over the genome were used in combination with one or two restriction enzymes. A total of 399 fragments was identi"ed, 386 of which were polymorphic. Each sugarcane clone displayed a high number of fragments per probe/enzyme combination, illustrating the polyploid constitution of the genome. Among the S. o.cinarum clones, those from New Guinea had the largest variability and encompassed that present among clones collected from the Indonesian Islands and those known to have been involved in the parentage of modern cultivars. This is in agreement with the hypothesis that New Guinea is the centre of origin of this species. The clones from New Caledonia formed a separate group and could correspond to S. o.cinarum clones modi"ed Communicated by H. F. Linskens
Agronomy
Sugarcane (Saccharum spp. hybrids) is one of the most important commercial crops for sugar, ethanol, and other byproducts production; therefore, it is of great significance to carry out genetic research. Assessing the genetic population structure and diversity plays a vital role in managing genetic resources and gene mapping. In this study, we assessed the genetic diversity and population structure among 196 Saccharum accessions, including 34 S. officinarum, 69 S. spontaneum, 17 S. robustum, 25 S. barberi, 13 S. sinense, 2 S. edule, and 36 Saccharum spp. hybrids. A total of 624 polymorphic SSR alleles were amplified by PCR with 22 pairs of fluorescence-labeled highly polymorphic SSR primers and identified on a capillary electrophoresis (CE) detection system including 109 new alleles. Three approaches (model-based clustering, principal component analysis, and phylogenetic analysis) were conducted for population structure and genetic diversity analyses. The results showed that the 196...
Acta agriculturae Slovenica
Genetic diversity information among a population is important in exploiting heterozygosity for the improvement of crop species through breeding programmes. This study was therefore, conducted to assess genetic diversity and establish molecular relationships among 20 selected exotic sugarcane accessions from the Unilorin Sugar Research Institute germplasm using Inter Simple Sequence Repeat (ISSR) molecular markers. Genomic DNA was extracted from the sugarcane leaf. Fragments amplification was then performed by polymerase chain reaction (PCR) with ISSR markers and the data obtained were analyzed using MEGA 4 software. Analysis of the electropherogram showed a total of 39 loci consisting of 369 bands, out of which 95.8% were polymorphic. The biplot analysis showed all the markers contributed to the observed diversity with the least achieved with ISSR6. The principal co-ordinate analysis grouped the accessions into four clusters, comprising mixtures of all the six collection sites. The ...
A search for markers of sugarcane evolution
Genetics and Molecular Biology, 2001
To determine the phylogenetic relationship between sugarcane cultivars and other members of the Saccharinae subtribe, we identified the fast evolving ITS1-5.8S-ITS2 (ITS = internal transcribed spacer; 5.8S = 5.8S ribosomal DNA) region of the sugarcane genome in the Sugarcane Expressed Sequence Tag (SUCEST) genome project database. Parsimony analysis utilizing this region and homologs belonging to the 23 closely related Andropogoneae currently deposited in the GenBank database has shown sugarcane as the sister group of Saccharum sinense. However, because there are few parsimony-informative characters and high homoplasy in the ITS1-5.8S-ITS2 region we were not able to determine with confidence the phylogenetic relationship between sugarcane and some of the remaining members of Saccharine subtribe. To find alternatives for the phylogenetic reconstruction of sugarcane evolutionary history, we selected 17 markers (nuclear, chloroplastic or mitochondrial) from the SUCEST database of which apha-tubulin, ribosomal protein L16 (rpl16) and DNA-directed RNA polymerase beta chain (rpoC2) were found to have a low incidence of polymorphism and comparable, or even faster, rates of evolution than the ITS1-5.8S-ITS2 region. We suggest that these markers should be considered as preferential choices for phylogenetic studies of Saccharinae subtribe.
Life Science Journal
Nine genotypes of sugarcane (Saccharum spp) namely G.T.54-9, G.84-47, POJ.28-78, Co.997, F.161, F.153, N.Co.310, G.74–96 and Phil.8013; which available at Sugar Crops Research Institute (SCRI) screened to detect the genetic polymorphism using RAPD and ISSR techniques. Based on RAPD data, the percentage of polymorphic amplified products ranged from 37.5-72.7%, the total number of the amplified RAPD produced by each primer varied from 8-11 amplified products. Unique DNA bands with different sizes were detected in particular genotypes, primer OP-A01produced two DNA bands displayed in the genotype G.T. 54-9 (258 bp and 700 bp). While primer OP-O10 produced two DNA bands, one band displayed in the genotype G.84-47 (924 bp) and one in G.T. 54-9 (1104 bp). Some of the primers produced polymorphic bands specific to a set of genotypes. These bands could be considered as genotype-specific bands. Based on ISSR data, the percentage of polymorphic amplified products ranged from 9.09 to 80%. The ...
Genetic diversity in sugarcane cultivars assessed by DNA markers and morphological traits
Revista Industrial y Agrícola de Tucumán, 2013
Fil: Perera, Maria Francisca. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Centro Cientifico Tecnologico Tucuman. Instituto de Tecnologia Agroindustrial del Noroeste Argentino; Argentina. Gobierno de Tucuman. Ministerio de Desarrollo Productivo. Estacion Experimental Agroindustrial Obispo Colombres; Argentina