Conceptual analysis of methods applied to assessment of diversity within and distance between populations with asexual or mixed mode of reproduction

New Phytologist

Volumn 174, Issue 3, 2007, Pages 683-696

  Kosman, Evsey ^a   Leonard, Kurt J ^b  

^a TEL AVIV UNIVERSITY   (Israel)

^b UNIVERSITY OF MINNESOTA   (United States)

Author keywords

Assignment problem; Clustering; Genetic diversity; Kosman indices; Plant pathogens; Population genetics

Indexed keywords

FUNGAL DNA;

ALLELE; ASSESSMENT METHOD; DIVERSITY INDEX; DNA; FUNGUS; GENETIC ANALYSIS; GENETIC VARIATION; GENOTYPE; MEASUREMENT METHOD; POPULATION GENETICS; REPRODUCTION; REPRODUCTIVE STRATEGY; VIRULENCE;

ARTICLE; BIOLOGICAL MODEL; EVALUATION; FUNGUS; GENE FREQUENCY; GENETICS; MICROBIOLOGY; PHYSIOLOGY; PLANT;

DNA, FUNGAL; FUNGI; GENE FREQUENCY; MODELS, GENETIC; PLANTS;

FUNGI;

EID: 33947365886     PISSN: 0028646X     EISSN: 14698137     Source Type: Journal    
DOI: 10.1111/j.1469-8137.2007.02031.x     Document Type: Article

References (29)

1. Adhikari TB, Mew TW, Leach JE. 1999. Genotypic and pathotypic diversity in Xanthomonas oryzae pv. Oryzae in Nepal. Phytopathology 89: 687-694.
2. Andrivon D, de Vallavieille-Pope C. 1995. Race diversity and complexity in selected populations of fungal biotrophic pathogens of cereals. Phytopathology 85: 897-905.
3. Gale LR, Chen LF, Hernick CA, Takamura K, Kistler HC. 2002. Population analysis of Fusarium graminearum from wheat fields in eastern China. Phytopathology 92: 1315-1322.
4. Goodwin SB, Spielman LJ, Matuszak JM, Bergeron SN, Fry WE. 1992. Clonal diversity and genetic differentiation of Phytophthora infestans populations in northern and central Mexico. Phytopathology 82: 955-961.
5. Groth JV, Roelfs AP. 1987. The concept and measurement of phenotypic diversity in Puccinia graminis on wheat. Phytopathology 77: 1395-1399.
6. Grünwald NJ, Goodwin SB, Milgroom MG, Fry WE. 2003. Analysis of genotypic diversity data for populations of microorganisms. Phytopathology 93: 738-746.
7. Kolmer JA, Liu JQ. 2000. Virulence and molecular polymorphism in international collections of the wheat leaf rust fungus Puccinia triticina. Phytopathology 90: 427-436.
8. Kosman E. 1996. Difference and diversity of plant pathogen populations: a new approach for measuring. Phytopathology 86: 1152-1155.
9. Kosman E. 2003. Nei's gene diversity and the index of average differences are identical measures of diversity within populations. Plant Pathology 52: 533-535.
10. Kosman E, Leonard KJ. 2005. Similarity coefficients for molecular markers in studies of genetic relationships between individuals for haploid, diploid, and polyploid species. Molecular Ecology 14: 415-424.
11. Long DL, Leonard KJ, Roberts JJ. 1998. Virulence and diversity of wheat leaf rust in the United States in 1993-95. Plant Disease 82: 1391-1400.
12. Lynch M. 1990. The similarity index and DNA fingerprinting. Molecular Biology and Evolution 7: 478-484.
13. Lynch M, Milligan BG. 1994. Analysis of population genetic structure with RAPD markers. Molecular Ecology 3: 91-99.
14. Manisterski J, Eyal Z, Ben-Yehuda P, Kosman E. 2000. Comparative analysis of indices in the study of virulence diversity between and within populations of Puccinia recondita f. sp. tritici in Israel. Phytopathology 90: 601-607.
15. McCain JW, Groth JV, Roelfs AP. 1992. Inter- and intrapopulation isozyme variation in collections from sexually reproducing populations of the bean rust fungus, Uromyces appendiculatus. Mycologia 84: 329-340.
16. Müller K, McDermott JM, Wolfe MS, Limpert E. 1996. Analysis of diversity in populations of plant pathogens: the barley powdery mildew pathogen across Europe. European Journal of Plant Pathology 102: 385-395.
17. Nei M. 1972. Genetic distance between populations. American Naturalist 106: 283-292.
18. Nei M. 1973. Analysis of gene diversity in subdivided populations. Proceedings of the National Academy of Sciences, USA 70: 3321-3323.
19. Nei M. 1978. Estimation of average heterozygosities and genetic distance from a small number of individuals. Genetics 89: 583-590.
20. Rogers JS. 1972. Measures of genetic similarity and genetic distance, pp. 145-143. In: Studies in genetics. Austin, TX, USA: University of Texas.
21. Schachtel GA, Kosman E. 2002. KOIND package - Short manual. In: Online publication biometrie and populationsgenetic, JLU Giessen. Accessed at http://www.va-tipp.de.
22. Shannon CE, Weaver W. 1949. The mathematical theory of communication. Urbana, IL, USA: University of Illinois Press.
23. Sheldon AL. 1969. Equitability indices: Dependence on the species count. Ecology 50: 466-467.
24. Simpson EH. 1949. Measurement of diversity. Nature 163: 688.
25. Sneath PA, Sokal RR. 1973. Numerical taxonomy. San Francisco, CA, USA: W.H. Freeman.
26. Stoddart JA. 1983. A genotypic diversity measure. Journal of Heredity 74: 489-490.
27. Stoddart JA, Taylor JF. 1988. Genotypic diversity: estimation and prediction in samples. Genetics 118: 705-711.
28. Wright S. 1978. Evolution and the genetics of populations, Vol. 4. Variability within and among natural populations. Chicago, IL, USA: University of Chicago Press.
29. Zhang JX, Fernando WGD, Remphrey WR. 2005. Genetic diversity and structure of the Apiosporina morbosa populations on Prunus spp. Phytopathology 95: 859-866.