biologia plantarum

International journal on Plant Life established by Bohumil Němec in 1959

Biologia plantarum 54:54-60, 2010 | DOI: 10.1007/s10535-010-0008-0

Comparison of three genetic similarity coefficients based on dominant markers from predominantly self-pollinating species

A. Beharav1,*, M. Maras2, M. Kitner3, J. Šuštar-Vozlič2, G. L. Sun4, I. Doležalová3, A. Lebeda3, V. Meglič2
1 Institute of Evolution, University of Haifa, Mount Carmel, Haifa, Israel
2 Agricultural Institute of Slovenia, Ljubljana, Slovenia
3 Faculty of Science, Palacký University in Olomouc, Olomouc-Holice, Czech Republic
4 Biology Department, Saint Mary's University, Halifax, Canada

Three genetic similarity coefficients were estimated and compared for their usefulness: simple matching (S SM), Jaccard's (S J) and Dice's (S D), all based on dominant markers data from individuals representing predominantly self-pollinating species. AFLP markers were used to analyze 139 Phaseolus vulgaris L. (common bean) and 67 Lactuca saligna L. (least lettuce) accessions, and RAPD markers were used to analyze 110 Triticum dicoccoides Koern. (wild emmer wheat) accessions. Similar discriminating structure and power based on the three genetic similarity coefficients was found for each of the three species. This discriminating power was high for both P. vulgaris and L. saligna but moderate for T. dicoccoides. With closely related individuals, as in our study, the absence of a band in two individuals should be due to an identical cause inherited from the same ancestor. Accordingly we propose the use of S SM, which alone out of the three examined coefficients involved shared absence of DNA bands, as contributing to genetic similarity. When RAPDs are employed, inferences about population structure and nucleotide divergence should be made with prudence as the nature of genetic variation uncovered by RAPDs is often unclear.

Keywords: closely related individuals; Lactuca saligna; negative matches; Phaseolus vulgaris; Triticum dicoccoides
Subjects: amplified fragment length polymorphism (AFLP); common bean; genetic diversity; Lactuca saligna; Phaseolus vulgaris; random amplified polymorphic DNA (RAPD); Triticum dicoccoides; UPGMA dengrogram; wheat

Received: November 14, 2008; Accepted: April 25, 2009; Published: March 1, 2010  Show citation

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Beharav, A., Maras, M., Kitner, M., Šuštar-Vozlič, J., Sun, G.L., Doležalová, I., Lebeda, A., & Meglič, V. (2010). Comparison of three genetic similarity coefficients based on dominant markers from predominantly self-pollinating species. Biologia plantarum, 54(1), 54-60. doi: 10.1007/s10535-010-0008-0
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