Conservation Genetics

, Volume 13, Issue 4, pp 891–898 | Cite as

Traditional home-garden conserving genetic diversity: a case study of Acacia pennata in southwest China

Research Article

Abstract

Conserving biodiversity in human-dominated systems requires research into mechanisms that can maintain biodiversity in fragmented landscapes. Home-garden as traditional agroforestry system in many regions has shown great value in maintaining a wide range of species. Here we show that home-garden populations are also capable of maintaining high level of genetic variation. Using six polymorphic microsatellite DNA markers, we have genotyped 260 individuals of Acacia pennata, a popular wild vegetable in the tropical region of southeast Asia. Samples were collected from home-gardens and wild populations in Xishuangbanna, southwest China. Microsatellite DNA diversity in planted populations were compared with that in geographically nearby wild populations with similar population size. Over 90 % of microsatellite genetic variation in wild populations was also present in planted populations. Pairwise comparison of planted and adjacent wild population showed no significant difference in allelic diversity and heterozygosity. Analysis revealed no significant genetic differences between wild and planted populations, while four home-garden populations showed sign of bottleneck. We conclude that home-gardens show great promise in maintaining genetic diversity, and that these managed patches could be of significant conservation value in tropical regions.

Keywords

Acacia pennata Agroforestry Ex situ conservation Genetic variation Microsatellite DNA Xishuangbanna 

References

  1. Bhagwat SA, Willis KJ, Birks HJB, Whittaker RJ (2008) Agroforestry: a refuge or tropical biodiversity? Trends Ecol Evol 23:261–267PubMedCrossRefGoogle Scholar
  2. Buchmann C (2009) Cuban home gardens and their role in social–ecological resilience. Human Ecol 37:705–721CrossRefGoogle Scholar
  3. Butcher PA, Decrooco S, Gray Y, Moran GF (2000) Development, inheritance and cross-species amplification of microsatellite markers from Acacia mangium. Theor Appl Genet 101:1282–1290CrossRefGoogle Scholar
  4. David LH, Song QJ, Zhu YL, Choi IY, Randall LN, Jose MC, James ES, Randy CS, Perry BC (2006) Impacts of genetic bottlenecks on soybean genome diversity. Proc Natl Acad Sci USA 103:16666–16671CrossRefGoogle Scholar
  5. Ellstrand NC, Elam DR (1993) Population genetic consequences of small population size: implications for plant conservation. Annu Rev Ecol Syst 24:217–242CrossRefGoogle Scholar
  6. Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol 14:2611–2620PubMedCrossRefGoogle Scholar
  7. Excoffer L, Smouse PE, Quattro JM (1992) Analysis of molecular variation inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction sites. Genetics 131:479–491Google Scholar
  8. Excoffier L, Laval G, Schneider S (2005) Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evol Bioinform Online 1:47–50Google Scholar
  9. Eyre-Walker A, Gaut RL, Hilton H, Feldman DL, Gaut BS (1998) Investigation of the bottleneck leading to the domestication of maize. Proc Natl Acad Sci USA 95:4441–4446PubMedCrossRefGoogle Scholar
  10. Frankham R, Ballou JD, Briscoe DA (2002) Introduction to Conservation Genetics. Cambridge University Press, CambridgeCrossRefGoogle Scholar
  11. Fu YN, Guo HJ, Chen AG, Cui JY (2006) Household differentiation and on-farm conservation of biodiversity by indigenous households in Xishuangbanna. China Biodiver Conserv 15:2687–2703CrossRefGoogle Scholar
  12. Gao J, Li QM (2008a) The DNA Extracting and SSR Primer Screening of Acacia pennata. Acta Bot Yunnanica 30:64–68Google Scholar
  13. Gao J, Li QM (2008b) Genetic diversity of natural populations of Acacia pennata in Yunnan Xishuangbanna. Biodiver Sci 16:271–278Google Scholar
  14. Goudet J (2001) FSTAT, a program to estimate and test gene diversities and fixation indices Version 2.9.3. Available from http://www.unil.ch/izea/softwares/fstat.html
  15. Graham NS, Nigel ER, Matthew P, Pat GW (2003) Pollination ecology of Acacias (Fabaceae, Mimosoideae). Aus J Bot 16:103–118CrossRefGoogle Scholar
  16. Hamrick JL, Godt MJW (1996) Effect of life history traits on genetic diversity in plant species. Phil Trans R Soc Lond B 351:1291–1298CrossRefGoogle Scholar
  17. He JS, Chen L, Si Y, Huang B, Ban XQ, Wang YW (2009) Population structure and genetic diversity distribution in wild and cultivated populations of the traditional Chinese medicinal plant Magnolia officinalis subsp.biloba (Magnoliaceae). Genetica 135:233–243PubMedCrossRefGoogle Scholar
  18. Hollingsworth PM, Dawson IK, Goodall-Copestake WP, Richardson JE, Weber JC, Sotelo C, Pennington RT (2005) Do farmers reduce genetic diversity when they domesticate tropical trees? A case study from Amazonia. Mol Ecol 14:497–501PubMedCrossRefGoogle Scholar
  19. Hylander K, Nemomissa S (2008) Home garden coffee as a repository of epiphyte biodiversity in Ethiopia. Front Ecol Environ 6:524–528CrossRefGoogle Scholar
  20. Johnson N (2002) Environmental changes in northern Thailand: impact on wild edible pant availability. Ecol Food Nutr 41:373–399CrossRefGoogle Scholar
  21. Kabir MDE, Webb EL (2008) Can homegardens conserve biodiversity in Bangladesh? Biotropica 40:95–103Google Scholar
  22. Kareive P, Watts S, Mcdonald R, Boucher T (2007) Domesticated nature: shaping landscapes and ecosystems for human welfare. Science 316:1866–1869CrossRefGoogle Scholar
  23. Khare CP (2007) Indian Medicinal Plants: an Illustrated Dictionary. Springer, HeidelbergGoogle Scholar
  24. Leberg PL (2002) Estimating allelic diversity: Effects of sample size and bottlenecks. Mol Ecol 11:2445–2449PubMedCrossRefGoogle Scholar
  25. Lengkeek AG, Mwangi AM, Agufa CAC, Ahenda JO, Dawson IK (2006) Comparing genetic diversity in agroforestry systems with natural forest: a case study of the important timber tree Vitex fischeri in central Kenya. Agrofor Syst 67:293–300CrossRefGoogle Scholar
  26. Long CL (1993) Collected Research Papers of Tropical Botany. Vol 2, pp. 66–67. Yunnan University Press, XTBG, KunmingGoogle Scholar
  27. Long CL, Li ML (2006) Status and conservation strategies of community plant genetic resources––a case study in Manlun, a Dai village in Xishuangbnana. Chin Bull Bot 23:177–185Google Scholar
  28. Luikart G, Cornuet JM (1998) Empirical evaluation of a test for identifying recently bottlenecked populations from allele frequency data. Conserv Biol 12:228–237CrossRefGoogle Scholar
  29. Luikart G, Sherwin WB, Steele BM, Allendorf FW (1998) Usefulness of molecular markers for detecting population bottlenecks via monitoring genetic change. Mol Ecol 7:963–974PubMedCrossRefGoogle Scholar
  30. Maunder M, Robyn SC, Penelope S, Michael FF (2001) The genetic status and conservation management of two cultivated bulb species extinct in the wild: Tecophilaea cyanocrocus (Chile) and Tulipasprengeri (Turkey). Conserv Genet 2:193–201CrossRefGoogle Scholar
  31. Meng FJ, Xu XY, Huang FL, Li JF (2010) Analysis of genetic diversity in cultivated and wild tomato varieties in Chinese market by RAPD and SSR. Agr Sci China 9:1430–1437CrossRefGoogle Scholar
  32. Miller AJ, Schaal BA (2006) Domestication and the distribution of genetic variation in wild and cultivated populations of the Mesoamerican fruit tree, Spondias purpurea L. (Anacardiaceae). Mol Ecol 15:1467–1480PubMedCrossRefGoogle Scholar
  33. Nei M (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89:583–590PubMedGoogle Scholar
  34. Nei M, Maruyama T, Chakraborty R (1975) The bottleneck effect and genetic variability in populations. Evolution 29:1–10CrossRefGoogle Scholar
  35. Ng CH, Kon SC, Lee SL, Ng KKS, Mark A, Norwati M, Wickneswari R (2005) Isolation of 15 polymorphic microsatellite loci in Acacia hybris (Acacia mangium × Acacia auriculiformis). Mol Ecol Notes 5:572–575CrossRefGoogle Scholar
  36. Otero-arnaiz A, Schnabel A, Glenn TC, Schable NA, Hagen C, Ndong L (2005) Isolation and characterization of microsatellite markers in the East African tree Acacia brevispica (Fabaceae: Mimosoideae). Mol Ecol Notes 5:366–368CrossRefGoogle Scholar
  37. Peakall R, Smouse PE (2001) GenALEx v5: Genetic Analysis in Excel. http://www.anu.edu.au/BoZo/GenAlEx.Accessed October 25, 2005
  38. Piry S, Luikart G, Cornuet JM (1999) BOTTLENECK: A computer program for detecting recent reductions in the effective population size using allele frequency data. J Hered 4:502–503CrossRefGoogle Scholar
  39. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945–959PubMedGoogle Scholar
  40. Raheem DC, Naggs F, Preece RC, Mapatuna Y, Kariyawasam L, Eggleton P (2008) Structure and conservation of Sri Lankan land-snail assemblages in fragmented lowland rainforest and village home gardens. J Appl Ecol 45:1019–1028CrossRefGoogle Scholar
  41. Rowe CW (2009) “Kitchen gardens” in Tajikistan: the economic and cultural importance of small-scale private property in a post-soviet society. Human Ecol 37:691–703CrossRefGoogle Scholar
  42. Shahal A, Jens B, Neil CT (2003) Evolution of cultivated chickpea: four bottlenecks limit diversity and constrain adaption. Funct Pl Biol 30:1081–1087CrossRefGoogle Scholar
  43. Templeton AR, 1991. Genetics and conservation biology. In: Seitz A, Loeschche V (eds) Species Conservation: A Population Biological Approach. Birkhauser Verlag, Basel. pp 15–29Google Scholar
  44. Wang JR, Long CL (1995) Ethnobotanical study of traditional edible plants of JINUO Nationality. Acta Bot Yunnanica 17:161–168Google Scholar
  45. Webb EL, Kabir MDE (2009) Home gardening for tropical biodiversity conservation. Conserv Biol 23:1641–1644PubMedCrossRefGoogle Scholar
  46. Yuan QJ, Zhang ZY, Hu J, Guo LP, Shao AJ, Huang LQ (2010) Impacts of recent cultivation on genetic diversity pattern of a medicinal plant, Scutelaria baicalensis (Lamiaceae). BMC Genet 11:29–42PubMedCrossRefGoogle Scholar
  47. Zhu QH, Zheng XM, Luo JC, Gaut BS, Ge S (2007) Multilocus analysis of Nucleotide variation of Oryza sativa and its wild relatives: severe bottleneck during domestication of rice. Mol Biol Evol 24:875–888PubMedCrossRefGoogle Scholar
  48. Zou S (1988) The Vulnerable and Endangered Plants of Xishuangbanna Prefecture, Yunnan Province, China. Arnoldia 48:2–7Google Scholar

Copyright information

© Springer Science+Business Media B.V. 2012

Authors and Affiliations

  1. 1.Laboratory of Plant Phylogenetics and Conservation, Xishuangbanna Tropical Botanical GardenThe Chinese Academy of SciencesKunmingPeople’s Republic of China
  2. 2.Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical GardenThe Chinese Academy of SciencesMenglunPeople’s Republic of China
  3. 3.The Graduate School of the Chinese Academy of SciencesBeijingPeople’s Republic of China
  4. 4.Curtin Institute for Biodiversity and Climate Department of Environment and AgricultureCurtin UniversityPerthAustralia
  5. 5.School of Plant BiologyThe University of Western AustraliaCrawleyAustralia

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