Genetic diversity analysis in a seed orchard of Eucalyptus tereticornis

New Forests

Volumn 40, Issue 1, 2010, Pages 85-99

  Chezhian, P ^a   Yasodha, R ^a   Ghosh, Modhumita ^a  

^a INSTITUTE OF FOREST GENETICS AND TREE BREEDING   (India)

Author keywords

AMOVA; Genetic diversity; ISSR PCR; PCA; Population structure

Indexed keywords

AMPLICONS; ANALYSIS OF MOLECULAR VARIANCES; AUSTRALIA; DISSIMILARITY MATRIX; E. TERETICORNIS; EUCALYPTUS TERETICORNIS; GENE DIVERSITY; GENETIC DIVERSITY; GENETIC GAIN; GENETIC VARIATION; OPTIMAL DIVERSITY; PHENOTYPIC TRAITS; POLYMORPHIC BANDS; POPULATION STRUCTURES; SEED ORCHARD; STRUCTURE ANALYSIS;

FORESTRY; GENES; ORCHARDS;

SEED;

CLUSTER ANALYSIS; CULLING; EVERGREEN FOREST; FORESTRY PRODUCTION; GENETIC ANALYSIS; GENETIC DIFFERENTIATION; GENETIC VARIATION; MOLECULAR ANALYSIS; ORCHARD; PHENOTYPE; PLANTATION FORESTRY; POLYMORPHISM; POPULATION STRUCTURE; PROVENANCE TRIAL; SEED; SEEDLING; SEEDLING ESTABLISHMENT; VARIANCE ANALYSIS;

ANALYSIS OF VARIANCE; BIODIVERSITY; BIOLOGICAL POPULATIONS; EUCALYPTUS TERETICORNIS; FORESTRY; GENETIC ENGINEERING; ORCHARDS; PRODUCTIVITY;

AUSTRALIA; INDIA;

EUCALYPTUS; EUCALYPTUS TERETICORNIS;

EID: 77953717814     PISSN: 01694286     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11056-009-9184-1     Document Type: Article

References (71)

1. Bahulikar RA, Lagu MD, Kulkarni BG, Pandit SS, Suresh HS, Rao MKV, Ranjekar PK, Gupta VS (2004) Genetic diversity among spatially isolated populations of Eurya nitida Korth. (Theaceae) based on inter-simple sequence repeats. Curr Sci 86: 824-831.
2. Balasaravanan T, Chezhian P, Kamalakannan R, Ghosh M, Yasodha R, Varghese M, Gurumurthi K (2005) Determination of inter and intra-species genetic relationships among six Eucalyptus species based on inter-simple sequence repeats (ISSR). Tree Physiol 25: 1295-1302.
3. Blair MW, Panaud O, McCouch SR (1999) Inter-simple sequence repeat (ISSR) amplification for analysis of microsatellite motif frequency and fingerprinting in rice (Oryza sativa L.). Theor Appl Genet 98: 780-792.
4. Bornet B, Branchard M (2001) Non-anchored inter-simple sequence repeat (ISSR) markers: reproducible and specific tools for genome fingerprinting. Plant Mol Bio Rep 19: 209-215.
5. Byrne M (1999) High genetic identities between three oil mallee taxa, Eucalyptuskochii ssp. kochii, ssp. plenissima and E. horistes, based on nuclear RFLP analysis. Heredity 82: 205-211.
6. Byrne M, Parrish TL, Moran GF (1998) Nuclear RFLP diversity in Eucalyptus nitens. Heredity 81: 225-233.
7. Carr SGM (1973) Problems of the geography of the tropical eucalypts. In: Walker D (ed) Bridge and barrier: the natural and cultural history of Torres Strait. Australian National University, Canberra, pp 153-182.
8. Chamshama SAO, Mugasha AG, Wate PA (1999) Variation in performance of Eucalyptus tereticornis provenances at Michafutene, Mozambique. Silvae Genetica 48: 261-266.
9. Chaturvedi AN, Sivaji P, Jayaramprasad DV (1989) Eucalyptus provenance trials in Andhra Pradesh. Ind For 115: 445-454.
10. Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull 19: 11-15.
11. Evans J (1992) Plantation forestry in the tropics, 2nd edn. Oxford Science Publications, New York.
12. Excoffier L, Smouse PE, Quattro JM (1992) Analysis of molecular variance inferred from matrix distances among DNA haplotypes: application to human mitochondria DNA restriction data. Genetics 131: 479-491.
13. Falush D, Stephens M, Pritchard JK (2007) Inference of population structure using multilocus genotype data: dominant markers and null alleles. Mol Ecol Notes 7: 574-578.
14. Fang DQ, Roose ML (1997) Identification of closely related citrus cultivars with inter-simple sequence repeat markers. Theor Appl Genet 95: 408-417.
15. Fernandez ME, Figueiras AM, Benito C (2002) The use of ISSR and RAPD markers for detecting DNA polymorphism, genotype identification and genetic diversity with known origin. Theor Appl Genet 104: 845-851.
16. Gaiotto FA, Bramucci M, Grattapaglia D (1997) Estimation of out-crossing rate in a breeding population of Eucalyptus urophylla with dominant RAPD and AFLP markers. Theor Appl Genet 95: 842-849.
17. Gemas VJV, Almadanim MC, Tenreiro R, Martins A, Fevereiro P (2004a) Genetic diversity in the Olive tree (Oleaeuropaea L. subsp. europaea) cultivated in Portugal revealed by RAPD and ISSR markers. Genetic Resour Crop Evol 51: 501-511.
18. Gemas VJV, Neves LO, Araujo C, Fevereiro P (2004b) How can ISSR markers be useful in the management of genetic resources in a Eucalyptus globulus ssp. globulus baseline collection. In: Borralho N (ed) Eucalyptus in a changing world. Aveiro, pp 1-7.
19. Ginwal HS, Kumar P, Sharma VK, Mandal AK, Harwood CE (2004) Genetic variability and early growth performance of Eucalyptus tereticornis Sm. in provenance cum progeny trials in India. Silvae Genetica 53: 148-161.
20. Gonzalez A, Coulson A, Brettell R (2002) Development of DNA markers (ISSRs) in mango. Acta Horti 5: 39-143.
21. Griffin AR, Cotterill PP (1988) Genetic variation in growth of outcrossed, selfed and open-pollinated progenies of Eucalyptus regnans and some implications for breeding strategy. Silvae Genet 37: 124-131.
22. Hantula J, Dusabenygasani M, Hamelin RC (1996) Random amplified microsatellites (RAMS) a novel method for characterizing genetic variation within fungi. Eur J For Pathol 26: 15-166.
23. Hardner C, Tibbits W (1998) Inbreeding depression for growth, wood and fecundity traits in Eucalyptus nitens. For Genet 5: 11-20.
24. Hou YC, Yan ZH, Wei YM, Zheng YL (2005) Genetic diversity in barley from west China based on RAPD and ISSR analysis. Barley Genet Newsl 35: 9-22.
25. House SM (1997) Reproductive biology of eucalypts. In: Williams J, Woniarski J (eds) Eucalypt ecology: individuals to ecosystems. Cambridge University Press, Cambridge.
26. Iglesias Trabado G, Wilstermann D (2008) Eucalyptus universalis. Global cultivated eucalypt forests map 2008. In: GIT Forestry Consulting's Eucalyptologics: Information resources on Eucalyptus cultivation worldwide. Retrieved from http://www. git-forestry. com/ (September 2009).
27. Jacobs MR (1981) Eucalypts for planting. FAO forestry series no. 11. FAO, Rome.
28. Jianming G, Shougong Z, Liwang Q, Yong Z, Chunguo W, Wenqin S (2006) ISSR and AFLP identification and genetic relationships of Chinese elite accessions from the genus Populus. Ann For Sci 63: 1-8.
29. Jones TH, Vaillancourt RE, Potts BM (2007) Detection and visualization of spatial genetic structure in continuous Eucalyptus globules forest. Mol Ecol 16: 697-707.
30. Kamalakannan R, Barthwal S, Chezhian P, Balasaravanan T, Yasodha R, Gurumurthi K, Ghosh M (2006) Morphological and Molecular diversity among Casuarina and Allocasuarina species. Biotechnology 5: 301-307.
31. Kamalakannan R, Varghese M, Lindgren D (2007) Fertility variation and its implications on relatedness in seed crops in seedling seed orchards of Eucalyptus camaldulensis and E. tereticornis. Silvae Genetica 56: 253-259.
32. Kang KS, Lindgren D, Mullin TJ (2001) Prediction of genetic gain and gene diversity in seed orchard crops under alternative management strategies. Theor Appl Genet 103: 1099-1107.
33. Kantety RV, Zeng XP, Bennetzen JL, Zehr BE (1995) Assessment of genetic diversity in dent and popcorn (Zea mays L.) inbred lines using inter-simple sequence repeat (ISSR) amplification. Mol Breed 1: 365-373.
34. Kumaravelu G, Jagdees S, Rai RSV, Sampson B (1995) Provenanc es of Eucalyptus camaldulensis Dehnh and E. tereticornis Sm suitable to South Indian conditions-results of an IUFRO trial. Ann For 3: 129-133.
35. Lewontin RC (1972) The apportionment of human diversity. Evol Biol 6: 381-398.
36. Li C (2000) RAPD analysis of genetic variation in Eucalyptusmicvotlzeca F. Muell. populations. Hereditas 132: 151-156.
37. Lynch M, Milligan BG (1994) Analysis of population genetic structure with RAPD markers. Mol Ecol 3: 91-99.
38. Mantel N (1967) The detection of disease clustering and a generalized regression approach. Cancer Res 27: 209-220.
39. Nei M (1987) Molecular evolutionary genetics. Columbia University press, New York.
40. Nesbitt KA, Potts BM, Vaillancourt RE, West AK, Reid JB (1995) Partitioning and distribution of RAPD variation in a forest tree species, Eucalyptus globulus (Myrtaceae). Heredity 74: 628-637.
41. Okun DO, Kenya EU, Oballa PO, Odee DW, Muluvi GM (2008) Analysis of genetic diversity in Eucalyptus grandis (Hill ex Maiden) seed sources using inter simple sequence repeats (ISSR) molecular markers. Afr J Biotechnol 7: 2119-2123.
42. Olsson T, Lindgren D, Li B (2001) Balancing genetic gain and relatedness in seed orchards. Silvae Genetica 50: 5-6.
43. Otegbeye GO (1990) Provenance variation in Eucalyptus tereticornis in a field trial within the Northern Guinea savanna zone of Nigeria. Silvae Genetica 39: 3-4.
44. Otegbeye GO (1991) Age trends in the genetic control of stem diameter of Eucalyptud tereticornis and the implication for selection. Silvae Genetica 40: 85-87.
45. Payn KG (2008) Molecular genetic diversity and population genetic structure of the commercially important tropical forest tree species Eucalyptus urophylla. Ph. D Thesis, submitted to North Carolina State University, Raleigh, North Carolina.
46. Payn KG, Dvorak WS, Myburg AA (2007) Chloroplast DNA phylogeography reveals the island colonisation route of Eucalyptus urophylla (Myrtaceae). Aust J Bot 55: 673-683.
47. Perrier X, Flori A, Bonnot F (2003) Methods of data analysis. In: Hamon P, Seguin M, Perrier X, Glaszmann JC (eds) Genetic diversity of cultivated tropical plants. CIRAD, Montpellier, pp 33-63.
48. Poltri SNM, Zelener N, Traverso JR, Gelid P, Hopp HE (2003) Selection of a seed orchard of Eucalyptusdunnii based on diversity criteria calculated using molecular markers. Tree Physiol 23: 625-632.
49. Potts BM, Pederick LA (2000) Morphology, phylogeny, origin, distribution and genetic diversity of eucalypts. In: Keane PJ, Kile GA, Podger FD, Brown BN (eds) Diseases and pathogens of eucalypts. CSIRO Publishing, Australia, pp 11-27.
50. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
51. Pritchard JK, Wen X, Falush D (2007) Documentation for structure software: Version 2. 2.
52. Pryor LD (1976) The biology of eucalypts. Edward Arnold, London.
53. Rohlf FJ (1998) NTSYS-PC numerical taxonomy and multivariate analysis system. Version 2. 0. Exeter Software, Setauket.
54. Ruas PM, Ruas CF, Rampim L, Carvalho VP, Ruas EA, Sera T (2003) Genetic relationship in Coffea species and parentage determination of inter-specific hybrids using ISSR (inter-simple sequence repeat) markers. Gen Mol Biol 26: 319-327.
55. Schwartz MK, McKelvey KS (2008) Why sampling scheme matters: the effect of sampling scheme on landscape genetic results. Cons Genet. doi: 10. 1007/s10592-008-9622-1.
56. Skabo S, Vaillancourt RE, Potts BM (1998) Fine-scale genetic structure of a Eucalyptus globulus ssp. globulus forest revealed by RAPDs. Aust J Bot 46: 583-594.
57. Steane DA, Conod N, Jones RC, Vaillancourt RE, Potts BM (2006) A comparative analysis of population structure of a forest tree, Eucalyptus globulus (Myrtaceae), using microsatellite markers and quantitative traits. Tree Gen & Genomes 2: 30-38.
58. Tsumara Y, Ohba K, Strauss SH (1996a) Diversity and inheritance of inter-simple sequence repeat polymorphisms in Douglas-fir (Pseudotsuga menziesii) and sugi (Cryptomeria japonica). Theor Appl Genet 92: 40-45.
59. Tsumara Y, Kawahara T, Wiekneswari R, Yoshimura K (1996b) Molecular phylogeny of Dipterocarpaceae in Southeast Asia using RFLP of PCR-amplified chloroplast genes. Theor Appl Genet 93: 22-29.
60. Varghese M, Kamalakannan R, Harwood CE, Lindgren D, McDonald MW (2009) Changes in growth performance and fecundity of Eucalyptus camaldulensis and E. tereticornis during domestication in southern India. Tree Genet Genomes. doi: 10. 1007/s11295-009-0215-z.
61. Vekemans X, Beauwens T, Lemaire M, Roldan-Ruiz I (2002) Data from amplified fragment length polymorphism (AFLP) markers show indication of size homoplasy and of a relationship between degree of homoplasy and fragment size. Mol Ecol 11: 39-151.
62. Wei X, Wai JQ, Cao HL, Li F, Ye WH (2005) Genetic diversity and differentiation of Camelliaeuphlebia (Theaceae) in guangxi, China. Ann Bot Fennici 42: 365-370.
63. Wheeler MA, Byrne M, Mccomb JA (2003) Little genetic differentiation within the dominant forest tree, Eucalyptusmarginata (Myrtaceae) of South-Western Australia. Silvae Genetica 52: 5-6.
64. Wolfe AD, Liston A (1998) Contributions of the polymerase chain reaction to plant systematics. In: Soltis DE, Soltis PS, Doyle JJ (eds) Molecular systematics of plants. Kluwer, New York, pp 43-86.
65. Yasodha R, Kathirvel M, Sumathi R, Gurumurthi K, Sunil A, Nagaraju J (2004) Genetic analyses of casuarinas using ISSR and FISSR markers. Genetica 122: 161-172.
66. Yeh FC, Yang RC, Boyle T (1999) POPGENE, Microsoft widows-based freeware for population genetic analysis, release 1. 31 version. Molecular Biology and Biotechnology Centre Univ. Alberta, Edmonton.
67. Zelener N, Poltri SN, Bartoloni N, Lopez CR, Hopp HE (2005) Selection strategy for a seedling seed orchard design based on trait selection index and genomic analysis by molecular markers: a case study for Eucalyptus dunnii. Tree Physiol 25: 1457-1467.
68. Zhivotovsky LA (1999) Estimating population structure in diploids with multilocus dominant DNA markers. Mol Ecol 8: 907-913.
69. Zietkiewicz E, Rafalski A, Labuda D (1994) Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification. Genomics 20: 176-183.
70. Zobel B, Talbert J (1984) Applied forest tree improvement. Wiley, Prospect Heights, Illinois.
71. Zobel BJ, van WG, Stahi P (1987) Growing exotic forests. Wiley, New York.