Journal ArticleDOI
A comparative study of molecular and morphological methods of describing relationships between perennial ryegrass (Lolium perenne L.) varieties.
Isabel Roldán-Ruiz,F.A. van Eeuwijk,T.J. Gilliland,P Dubreuil,Christine Dillmann,J Lallemand,M. De Loose,C. P. Baril +7 more
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TLDR
A sample set of registered perennial ryegrass varieties was used to compare how morphological characterisation and AFLP and STS molecular markers described variety relationships, suggesting these molecular-marker techniques could be suitable methods for investigating disputable distinctness situations or possible EDV relationships.Abstract:
A sample set of registered perennial ryegrass varieties was used to compare how morphological characterisation and AFLP® (AFLP® is a registered trademark of Keygene N.V.) and STS molecular markers described variety relationships. All the varieties were confirmed as morphologically distinct, and both the STS and AFLP markers exposed sufficient genetic diversity to differentiate these registered ryegrass varieties. Distances obtained by each of the approaches were compared, with special attention given to the coincidences and divergences between the methods. When correlations between morphological, AFLP and STS distances were calculated and the corresponding scatter-plots constructed, the variety relationships appeared to be rather inconsistent across the methods, especially between morphology and the molecular markers. However, some consistencies were found for closely related material. An implication could be that these molecular-marker techniques, while not yet suited to certain operations in the traditional registration of new varieties, could be suitable methods for investigating disputable distinctness situations or possible EDV (EDV= essentially derived variety. An EDV is a variety being clearly distinct from, but conforming in the expression of the essential characteristics of, an ’initial variety’ (IV) from which it is found to have been predominantly derived) relationships, subject to establishing standardised protocols and statistical techniques. Some suggestions for such a protocol, including a statistical test for distinctness, are given.read more
Citations
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Data from amplified fragment length polymorphism (AFLP) markers show indication of size homoplasy and of a relationship between degree of homoplasy and fragment size.
TL;DR: Results from population samples of the two plant species show that there is a negative relationship between AFLP fragment size and fragment population frequency, and Monte Carlo simulations reveal that size homoplasy, arising from pulling together nonhomologous fragments of the same size, generates patterns similar to those observed in P. lunatus and L. perenne.
Journal ArticleDOI
Comparison of phenotypic and molecular marker-based classifications of hard red winter wheat cultivars
H. Fufa,H. Fufa,P. S. Baenziger,Brian S. Beecher,Brian S. Beecher,Ismail Dweikat,Robert A. Graybosch,Kent M. Eskridge +7 more
TL;DR: Diversity estimates from each of the methods were positively correlated at a low level with the exceptions of SRAP diversity estimates being independent of morphologic traits, SDS-PAGE, and SSR diversity estimates (rank correlation).
Journal ArticleDOI
Genetic variation in the endangered wild apple (Malus sylvestris (L.) Mill.) in Belgium as revealed by amplified fragment length polymorphism and microsatellite markers.
Els Coart,Xavier Vekemans,Marinus J. M. Smulders,Iris Wagner,Johan Van Huylenbroeck,Erik Van Bockstaele,Isabel Roldán-Ruiz +6 more
TL;DR: Gene flow between wild and cultivated gene pools is shown to be almost absent, with only three genotypes that showed evidence of admixture between the wild and edible cultivar gene pools.
Journal ArticleDOI
Comparative assessment of DNA fingerprinting techniques (RAPD, ISSR and AFLP) for genetic analysis of cashew (Anacardium occidentale L.) accessions of India.
TL;DR: AFLP, with its superior marker utility, was concluded to be the marker of choice for cashew genetic analysis.
Journal ArticleDOI
Genetic diversity of hexaploid wheat cultivars estimated by RAPD markers, morphological traits and coefficients of parentage
TL;DR: RAPD markers showed a high level of polymorphism among the cultivars examined and the breeding lines, and no significant correlations were observed among the methods tested.
References
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Journal ArticleDOI
AFLP: a new technique for DNA fingerprinting.
Pieter Vos,René Cornelis Josephus Hogers,Marjo Bleeker,Martin Reijans,Theo van de Lee,Miranda Hornes,Adrie Friters,Jerina Pot,Johan Paleman,Martin Kuiper,Marc Zabeau +10 more
TL;DR: The AFLP technique provides a novel and very powerful DNA fingerprinting technique for DNAs of any origin or complexity that allows the specific co-amplification of high numbers of restriction fragments.
Book
Randomization, Bootstrap and Monte Carlo Methods in Biology
TL;DR: The idea of a randomization test has been explored in the context of data analysis for a long time as mentioned in this paper, and it has been applied in a variety of applications in biology, such as single species ecology and community ecology.
Journal ArticleDOI
An evaluation of the utility of SSR loci as molecular markers in maize (Zea mays L.): comparisons with data from RFLPS and pedigree
J. S. C. Smith,E. C. L. Chin,H. Shu,O. S. Smith,S. J. Wall,M. L. Senior,S. E. Mitchell,Stephen Kresovich,J. Ziegle +8 more
TL;DR: SSR technology presents the potential advantages of reliability, reproducibility, discrimination, standardization and cost effectiveness over RFLPs, and represents the optimum approach for the identification and pedigree validation of maize genotypes compared to other currently available methods.
Journal ArticleDOI
Comparative analysis of genetic similarity among maize inbred lines detected by RFLPs, RAPDs, SSRs, and AFLPs
Ivan Pejić,Paolo Ajmone-Marsan,Michele Morgante,V. Kozumplick,P. Castiglioni,G. Taramino,M. Motto +6 more
TL;DR: In this article, a comparison of DNA-based fingerprinting techniques, including RAPD, SSR, AFLP and AFLP, was performed for maize inbred lines and the results showed that AFLPs were the most efficient marker system because of their capacity to reveal several bands in a single amplification.
Journal ArticleDOI
Multivariate Analysis of Ecological Communities.
TL;DR: A comparison of ordination methods by multiple Procrustes analysis and classification and a proof of the triangle-area theorem are presented.