Maximizing genetic, morphological, and geographic diversity in a core collection of Australian bermudagrass

Crop Science

Volumn 52, Issue 2, 2012, Pages 879-889

  Jewell, Margaret C ^a   Zhou, Yi ^a   Loch, Don S ^a   Godwin, Ian D ^a   Lambrides, Christopher J ^a  

^a UNIVERSITY OF QUEENSLAND   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

CYNODON (ANGIOSPERM);

EID: 84863139334     PISSN: 0011183X     EISSN: 14350653     Source Type: Journal    
DOI: 10.2135/cropsci2011.09.0497     Document Type: Article

References (60)

1. Amsellem, L., J.L. Noyer, T. Le Bourgeois, and M. Hossaert-McKey. 2000. Comparison of genetic diversity of the invasive weed Rubus alceifolius Poir. (Rosaceae) in its native range and in areas of introduction, using amplified fragment length polymorphism (AFLP) markers. Mol. Ecol. 9:443-455.
2. Anderson, M.P., and Y. Wu. 2007. Fingerprinting of bermudagrass DNA. USGA Turfgrass Environ. Res. Online 6(14):1-8. http://usgatero.msu.edu/v06/n14.pdf (accessed 19 Jan. 2012).
3. Anderson, W.F. 2005. Development of a forage bermudagrass (Cynodon sp.) core collection. Grassl. Sci. 51:305-308.
4. Anderson W.F., A. Maas, and P. Ozias-Akins. 2009. Genetic variability of a forage bermudagrass core collection. Crop Sci. 49:1347-1358.
5. Applied Biosystems. 2004. GeneMapper software. Version 3.7. Applied Biosystems, Foster City, CA.
6. Balfourier, F., V. Roussel, P. Strelchenko, F. Exbrayat-Vinson, P. Sourdille, G. Boutet, J. Koenig, C. Ravel, O. Mitrofanova, M. Beckert, and G. Charmet. 2007. A worldwide bread wheat core collection arrayed in a 384-well plate. Theor. Appl. Genet. 114:1265-1275.
7. Barrett, S.C.H. 1989. Waterweed invasions. Sci. Am. 261(4):90-97.
8. BD Biosciences. 2006. BD FACSDiva software. Version 6.1.1. Becton, Dickinson and Company, Franklin Lakes, NJ.
9. Besag, J., J. York, and A. Mollié. 1991. Bayesian image-restoration, with two applications in spatial statistics. Ann. Inst. Stat. Math. 43:1-20.
10. Brown, A.H.D. 1989. The case for core collections. p. 136-156. In A.H.D. Brown, O.H. Frankel, D.R. Marshall, and J.T. Williams (ed.) The use of plant genetic resources. Cambridge Univ. Press, Cambridge, UK.
11. Brown, R. 1814. Appendix III: General remarks, geographical and systematical, on the botany of Terra Australis. p. 533-612. In M. Flinders. A voyage to Terra Australis, Vol. 2. G. and W. Nichol, London, UK.
12. Charmet, G., and F. Balfourier. 1995. The use of geostatistics for sampling a core collection of perennial ryegrass populations. Genet. Resour. Crop Evol. 42:303-309.
13. Dauby, G., J. Duminil, M. Heuertz, and O.J. Hardy. 2010. Chloroplast DNA polymorphism and phylogeography of a central African tree species widespread in mature rainforests: Greenwayodendron suaveolens (Annonaceae). Trop. Plant Biol. 3:4-13.
14. de Silva, P.H.A.U., and R.W. Snaydon. 1995. Chromosome number in Cynodon dactylon in relation to ecological conditions. Ann. Bot. (London) 76:535-537.
15. de Tomasi, J.A. 1936. Improving the technic of the Feulgen stain. Stain Technol. 11:137-144.
16. Diwan, N., G.R. Bauchan, and M.S. McIntosh. 1994. A core collection for the United States annual Medicago germplasm collection. Crop Sci. 34:279-285.
17. Diwan, N., M.S. McIntosh, and G.R. Bauchan. 1995. Methods of developing a core collection of annual Medicago species. Theor. Appl. Genet. 90:755-761.
18. Durand, E., F. Jay, O.E. Gaggiotti, and O. François. 2009. Spatial inference of admixture proportions and secondary contact zones. Mol. Biol. Evol. 26:1963-1973.
19. Ehrich, D. 2006. AFLPDAT: A collection of R functions for convenient handling of AFLP data. Mol. Ecol. Notes 6:603-604.
20. Falush, D., M. Stephens, and J.K. Pritchard. 2007. Inference of population structure using multilocus genotype data: Dominant markers and null alleles. Mol. Ecol. Notes 7:574-578.
21. François, O., and E. Durand. 2010. Spatially explicit Bayesian clustering models in population genetics. Mol. Ecol. Resour. 10:773-784.
22. Frankel, O.H. 1984. Genetic perspectives of germplasm conservation. p. 161-170. In W. Arber, K. Illimensee, W.J. Peacock, and P. Starlinger (ed.) Genetic manipulation: Impact on man and society. Cambridge Univ. Press, Cambridge, UK.
23. Harlan, J.R., J.M.J. de Wet, K.M. Rawal, M.R. Felder, and W.L. Richardson. 1970. Cytogenetic studies in Cynodon L. C. Rich. (Gramineae). Crop Sci. 10:288-291.
24. Horowitz, M. 1996. Bermudagrass (Cynodon dactylon): A history of the weed and its control in Israel. Phytoparasitica 24:305-320.
25. Hu, J., J. Zhu, and H.M. Xu. 2000. Methods of constructing core collections by stepwise clustering with three sampling strategies based on the genotypic values of crops. Theor. Appl. Genet. 101:264-268.
26. Jakobsson, M., and N.A. Rosenberg. 2007. CLUMPP: A cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure. Bioinformatics 23:1801-1806.
27. Jansen, J., and T. van Hintum. 2007. Genetic distance sampling: A novel sampling method for obtaining core collections using genetic distances with an application to cultivated lettuce. Theor. Appl. Genet. 114:421-428.
28. Jewell, M.C., C.H. Frere, P.J. Prentis, C.J. Lambrides, and I.D. Godwin. 2010. Characterization and multiplexing of ESTSSR primers in Cynodon (Poaceae) species. Am. J. Bot. 97:e99-e101.
29. Kang, S.-Y., G.-J. Lee, K.B. Lim, H.J. Lee, I.S. Park, S.J. Chung, J.-B. Kim, D.S. Kim, and H.K. Rhee. 2008. Genetic diversity among Korean bermudagrass (Cynodon spp.) ecotypes characterized by morphological, cytological and molecular approaches. Mol. Cells 25:163-171.
30. Kearns, R., Y. Zhou, S. Fukai, C. Ye, D. Loch, I. Godwin, T. Holton, D. Innes, H. Stirling, N. Cao, M. Jewell, A. Duff, and C. Lambrides. 2009. Eco-Turf: Water use efficient turfgrasses from Australian biodiversity. Acta Hortic. 829:113-118.
31. Langdon, R.F.N. 1954. The origin and distribution of Cynodon dactylon (L.) Pers. Univ. Queensland Pap. Dep. Bot. 3:42-44.
32. Leto, C., M. Sarno, S. La Bella, T. Tuttolomondo, and M. Licata. 2004. An initial study into the suitability of Sicilian ecotypes of Cynodon dactylon (L) Pers. for turfgrass use. Acta Hortic. 661:393-397.
33. Mace, E.S., P.N. Mathur, L. Izquierdo, D. Hunter, M.B. Taylor, D. Singh, I.H. DeLacy, G.V.H. Jackson, and I.D. Godwin. 2006. Rationalization of taro germplasm collections in the Pacific Island region using simple sequence repeat (SSR) markers. Plant Genet. Resour. 4:210-220.
34. Maechler, M., P. Rousseeuw, A. Struyf, M. Hubert, and K. Hornik. 2011. Cluster: Cluster analysis basics and extensions. R package version 1.14.1. Available at http://cran.r-project.org/web/packages/cluster/ (verified 9 Jan. 2012). R Foundation for Statistical Computing, Vienna, Austria.
35. Malosetti, M., and T. Abadie. 2001. Sampling strategy to develop a core collection of Uruguayan maize landraces based on morphological traits. Genet. Resour. Crop Evol. 49:381-391.
36. Nei, M. 1973. Analysis of gene diversity in subdivided populations. Proc. Natl. Acad. Sci. USA 70:3321-3323.
37. Nightingale, M.E., M. Lazarides, and C.M. Weiller. 2005.Cynodon. p. 301-309. In K. Mallett (ed.) Flora of Australia, vol. 44B. Aust. Biol. Resour. Study, Canberra/CSIRO Publishing, Collingwood, Australia.
38. Nowak, G., and R. Tibshirani. 2008. Complementary hierarchical clustering. Biostatistics 9:467-483.
39. Okpul, T., D. Singh, T. Gunua, and M.E. Wagih. 2004. Assessment of diversity using agro-morphological traits for selecting a core sample of Papua New Guinea taro (Colocasia esculenta (L.) Schott) collection. Genet. Resour. Crop Evol. 51:671-678.
40. Okpul, T., E. Mace, I.D. Godwin, D. Singh, and M.E. Wagih. 2005. Evaluation of variability among breeding lines and cultivars of taro (Colocasia esculenta) in Papua New Guinea using ISSR fingerprinting and agro-morphological characterization. Plant Genet. Resour. Newsl. 143:8-16.
41. Perrier, X., and J.-P. Jacquemoud-Collet. 2006. DARwin software. Available at http://darwin.cirad.fr/darwin/Home.php (verified 11 Dec. 2011). CIRAD (Centre de Coopération Internationale en Recherche Agronomique pour le Développement) Genetic Improvement of Vegetatively Propagated Crops (BioMathematics), Montpelier, France.
42. Pompanon, F., A. Bonin, E. Bellemain, and P. Taberlet. 2005. Genotyping errors: Causes, consequences and solutions. Nat. Rev. Genet. 6:847-859.
43. R Development Core Team. 2008. R: A language and environment for statistical computing. Available at http://www.R-project.org (verified 9 Jan. 2012). R Foundation for Statistical Computing, Vienna, Austria.
44. Ronfort, J., T. Bataillon, S. Santoni, M. Delalande, J.L. David, and J.-M. Prosperi. 2006. Microsatellite diversity and broad scale geographic structure in a model legume: Building a set of nested core collection for studying naturally occurring variation in Medicago truncatula. BMC Plant Biol. 6:28. doi:10.1186/1471-2229-6-28
45. Rosenberg, N.A. 2004. DISTRUCT: A program for the graphical display of population structure. Mol. Ecol. Notes 4:137-138.
46. Schoen, D.J., and A.H.D. Brown. 1993. Conservation of allelic richness in wild crop relatives is aided by assessment of genetic markers. Proc. Natl. Acad. Sci. USA 90:10623-10627.
47. Schoen, D.J., and A.H.D. Brown. 1995. Maximising genetic diversity in core collections of wild relatives of crop species. p. 55-76. In T. Hodgkin, A.H.D. Brown, T.J.L. van Hintum, and E.A.V. Morales (ed.) Core collections of plant genetic resources. John Wiley & Sons, Chichester, UK.
48. Singh, D., E.S. Mace, I.D. Godwin, P.N. Mathur, T. Okpul, M. Taylor, D. Hunter, R. Kambuou, V.R. Rao, and G. Jackson. 2008. Assessment and rationalization of genetic diversity of Papua New Guinea taro (Colocasia esculenta) using SSR DNA fingerprinting. Genet. Resour. Crop Evol. 55:811-822.
49. Taliaferro, C.M., A.A. Hopkins, J.C. Henthorn, C.D. Murphy, and R.M. Edwards. 1997. Use of flow cytometry to estimate ploidy level in Cynodon species. Int. Turfgrass Soc. Res. J. 8:385-392.
50. Taliaferro, C.M., F.M. Rouquette Jr., and P. Mislevy. 2004. Bermudagrass and stargrass. p. 417-475. In L.E. Moser, B.L. Burson, and L.E. Sollenberger (ed.) Warm-season (C4) grasses. Agronomy Monograph no. 45. ASA, CSSA, and SSSA Madison, WI.
51. Therneau, T.M., B. Atkinson, and B. Ripley. 2011. Rpart: Recursive partitioning and regression trees. Available at http://cran.r-project.org/web/packages/rpart/index.html (verified 11 Dec. 2011). R Foundation for Statistical Computing, Vienna, Austria.
52. Upadhyaya, H.D., R.P.S. Pundir, S.L. Dwivedi, C.L.L. Gowda, V.G. Reddy, and S. Singh. 2009. Developing a mini core collection of sorghum for diversified utilization of germplasm. Crop Sci. 49:1769-1780.
53. Upadhyaya, H.D., S. Sharma, C.L.L. Gowda, V.G. Reddy, and S. Singh. 2011. Developing proso millet (Panicum miliaceum L.) core collection using geographic and morpho-agronomic data. Crop Pasture Sci. 62:383-389.
54. Verity Software House. 2008. MODFit LT software. Version 3.2. Verity Software House, Topsham, ME.
55. White, D. 2010. Maptree: Mapping, pruning and graphing tree models. Available at http://cran.r-project.org/web/packages/maptree/index.html (verified 11 Dec. 2011). R Foundation for Statistical Computing, Vienna, Austria.
56. Wright, S. 1965. The interpretation of population structure by F-statistics with special regard to systems of mating. Evolution 19:395-420.
57. Wu, Y. 2011. Cynodon. p. 53-71. In C. Kole (ed.) Wild crop relatives: Genomic and breeding resources, millets and grasses. Springer-Verlag, Berlin, Germany.
58. Wu, Y.Q., C.M. Taliaferro, G.H. Bai, and M.P. Anderson. 2004. AFLP analysis of Cynodon dactylon (L.) Pers. var. dactylon genetic variation. Genome 47:689-696.
59. Wu, Y.Q., C.M. Taliaferro, G.H. Bai, D.L. Martin, J.A. Anderson, M.P. Anderson, and R.M. Edwards. 2006. Genetic analyses of Chinese Cynodon accessions by flow cytometry and AFLP markers. Crop Sci. 46:917-926.
60. Zhou, Y., C. Lambrides, R. Kearns, C. Ye, N. Cao, and S. Fukai. 2009. Selecting for drought tolerance among Australian green couch grasses (Cynodon spp.). Crop Pasture Sci. 60:1175-1183.