Genetic relationships and evolution in Cucurbita as viewed with simple sequence repeat polymorphisms: the centrality of C. okeechobeensis (original) (raw)
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Your article is protected by copyright and all rights are held exclusively by Springer Science +Business Media Dordrecht. This e-offprint is for personal use only and shall not be selfarchived in electronic repositories. If you wish to self-archive your article, please use the accepted manuscript version for posting on your own website. You may further deposit the accepted manuscript version in any repository, provided it is only made publicly available 12 months after official publication or later and provided acknowledgement is given to the original source of publication and a link is inserted to the published article on Springer's website. The link must be accompanied by the following text: "The final publication is available at link.springer.com".
Your article is protected by copyright and all rights are held exclusively by Springer Science +Business Media Dordrecht. This e-offprint is for personal use only and shall not be selfarchived in electronic repositories. If you wish to self-archive your article, please use the accepted manuscript version for posting on your own website. You may further deposit the accepted manuscript version in any repository, provided it is only made publicly available 12 months after official publication or later and provided acknowledgement is given to the original source of publication and a link is inserted to the published article on Springer's website. The link must be accompanied by the following text: "The final publication is available at link.springer.com".
Your article is protected by copyright and all rights are held exclusively by Springer Science +Business Media Dordrecht. This e-offprint is for personal use only and shall not be selfarchived in electronic repositories. If you wish to self-archive your article, please use the accepted manuscript version for posting on your own website. You may further deposit the accepted manuscript version in any repository, provided it is only made publicly available 12 months after official publication or later and provided acknowledgement is given to the original source of publication and a link is inserted to the published article on Springer's website. The link must be accompanied by the following text: "The final publication is available at link.springer.com".
Assessment of Genetic Relationships among and Within cucurbita Species Using RAPD and ISSR markers
2008
Two PCR molecular marker techniques; random amplified polymorphic DNA (RAPD) and inter-simple sequence repeats (ISSR) were employed to identify the polymorphisms and the relationships between 14 genotypes, which belong to three different Cucurbita species (C. pepo, C. moschata and C. maxima). In RAPD analysis, six random primers revealed a total of 463 fragments, in which 405 (87.5%) were polymorphic. Thirty-one out of 463 RAPD-PCR fragments were found to be useful as genotype-specific markers. The highest number of RAPD markers was scored for Cm5 genotype (5 markers), while there was no specific markers scored for the genotypes, Cp5 and Cp9, which belong to C. pepo. In ISSR analysis, seven ISSR primers gave a total of 263 ISSR amplified fragments, in which 243 (92.4%) were polylmorphic. As a comparison between the three species, 155(92.3%), 18 (100%) and 70 (90.9) out of 168, 18 and 77 reproducible fragments were polymorphic with C. pepo, C. moshata and C. maxima, respectively. Ten genotypes out of 14 were identified by a total of 21 unique markers with the seven ISSR primers, which identified individual genotype from each other. Genotype Cm5 was distinguished from other genotypes by the presence of one unique fragment of 750 bp for primer S1, while two ISSR primers (S3 and S6) identified the genotypes belonging to C. pepo from genotypes belonging to the other two species. The RAPD, ISSR data and their combination revealed that the highest similarity indices (83.3%, 82.2% and 79.5%) were observed between the Cp5 and Cp6, Cp7 and Cp9 and Cp8, Cp7 and Cp9 genotypes, respectively. The lowest similarity indices (52%, 52.1% and 54%) were observed between the Cp1 and Cp9, Cp5 and Cm5 and Cp1 and Cp9 genotypes, respectively. The consensus tree indicated that the nine genotypes of C. pepo were not clustered together, even though the origin was the same for all genotypes. This implied that the genomic sequences of the nine summer squash genotypes varied at the genetic level. The genotypes Cp5, Cp7, Cp9, Cm1 and Cm2 were the most genetically related and therefore, it could be used in the breeding programs. In conclusion, the information on polymorphism using RAPD and ISSR in a set of genotypes is useful in the assessment of genetic diversity and genetic relationships and could be useful in the breeding programs.
International Journal of Plant Research, 2012
RAPD markers were used to determine the genetic relat ionships and evaluating similarity among some cucurbits species. Thirteen RAPD p rimers were used to amplify DNA ext racted fro m the leaves of 10 cucurbit species using CTA B method. A total of 227 bands were amp lified of which 225 showed polymorphism among the 10 species. PCR-RAPD analysis showed a number of d ifferences in the size and nu mber of bands among the species, which means that there are genetical differences among the studied cucurbit species. Based on these markers, genetic similarity coefficients were calculated and a dendrogram was constructed. The dendrogram analysis delineated three major clusters. The first cluster consisted of one group which comprised Cucurbita moschata and C. pepo at a level of 38.6 % genetic similarity. The second cluster consisted of four groups : Group I co mprised Luffa aegyptiaca at a level of 20.6 % genetic similarity. Group II comprised the closely related species Cucumis melo var. reticullatus and C. melo var. flexuosus at a level of 62 % genetic similarity. Group III consisted of Cucumis sativus with about 37.8 % genetic similarity to group II. Group IV consisted of Ctenolepis cerasiformis at a level of 26.6 % genetic similarity. The third cluster consisted of two groups. Group I co mprised Citrullus lanatus and Colocynythis vulgaris at a level of 36.2 % genetic similarity. Group II consisted of Coccinia grandis at the level of 19.4 % genetic similarity. The three clusters were similar to each other at a level of 15% genetic similarity. Genetic similarity ranged between 15% and 62 %. This study demonstrates that RAPD markers are useful in assessing genetic diversity among cucurbits.
XXVI International Horticultural Congress: IV International Symposium on Taxonomy of Cultivated Plants, 2004
Cucurbita pepo (pumpkin, squash, gourd) is extremely variable in fruit characteristics. According to recent botanical and cultivated-plant taxonomical treatments that were based on variations in allozymes and fruit shape, C. pepo consists of three subspecies containing wild and cultivated, inedible, small-fruited sorts (gourds) and eight groups of edible, large-fruited cultivars (pumpkins and squash). Our objective was to determine if these treatments reflect genetic relationships as viewed at the DNA level, through the use AFLP, ISSR, and SSR markers. Forty-five accessions were compared for presence or absence of 448 AFLP, 147 ISSR, and 20 SSR bands, their genetic distances (GDs) were estimated, and UPGMA cluster analysis was conducted. Correlation coefficients were 0.95 between AFLPs and ISSRs, 0.78 between AFLPs and SSRs, and 0.77 between ISSRs and SSRs, all three comparisons with P << 0.001. Overall, clustering and sub-clustering were much in accordance with two highly polygenic characteristics, fruit shape and size. Clustering occurred in accordance with subspecies and sub-clustering in accordance with cultivar-groups. Within-group GDs were less than corresponding between-group GDs in nearly all comparisons. The smallest-fruited accession, 'Miniature Ball', occupied a central position within C. pepo.
Pesquisa Agropecuária Brasileira
The objective of this work was to evaluate the evolutionary dynamics of the wild-weedy-domestic gene pool of Cucurbita argyrosperma squash by estimating the levels of genetic diversity and gene flow in the putative area of its domestication. Nine populations were collected, and DNA was extracted from young leaves harvested separately from approximately 20 individuals in each population. The DNA fragments were amplified with eight pairs of SSR primers and separated by electrophoresis in 5% denaturing polyacrylamide gels. Genetic diversity and the amount of gene flow were estimated in the populations, and Bayesian grouping was used to determine the levels of gene infiltration and probability of ancestry. The ethnobotanical exploration indicated that the evolutionary dynamics in the area occurred under five different ecological scenarios. Eighty-seven alleles with 75% to 100% polymorphic loci were identified. The greater genetic diversity in the weedy-domestic populations may have been the product of recombination due to the high gene flow between these populations promoted by pollinators and human selection. There is high gene flow between the wild and cultivated populations of C. argyrosperma in its domestication centre, highlighting the importance of conserving and maintaining these genetic resources.
2020
Figure S1: A summary of the individual heterozygosity across 2071 loci for each accession. The X-axis indicates the heterozygosity, and the Y-axis indicates the number of accessions; Figure S2: <em>ΔK</em> from population structure analysis; Figure S3: The core collection distribution within the entire <em>C. moschata</em> germplasm collection in the PCA plot; Table S1: The number of SNPs, and the SNP density among 20 <em>C. moschata</em> chromosomes; Table S2: Information of 610 <em>C. moschata</em> germplasm collection used in this study; Table S3: The list of 67 core collections