Skip to main content

Advertisement

Log in

The study of genetic diversity patterns of Coffea commersoniana, an endangered coffee species from Madagascar: a model for conservation of other littoral forest species

  • Original Paper
  • Published:
Tree Genetics & Genomes Aims and scope Submit manuscript

Abstract

Madagascar has 59 described species of Coffea, of which 42 are listed as critically endangered, endangered, or vulnerable by the criteria of the Red List Category system of the World Conservation Union (IUCN). The littoral forest of Madagascar is a distinctive type of humid evergreen forest restricted to unconsolidated sand located within a few kilometers of the Indian Ocean, now persisting only as small fragments with ca. 10 % of its original range remaining. In an attempt to understand the genetic diversity of Madagascan coffee species, we studied ex situ and in situ populations of Coffea commersoniana, an endemic species of the littoral forests of southeastern Madagascar and soon to be impacted by mining activities in that region. The in situ populations studied showed higher genetic diversity than the ex situ population. The genetic partitioning among the two in situ populations of C. commersoniana was high enough to necessitate keeping the two populations separate for restoration purposes. Based on these findings, recommendations for conservation management (in situ and ex situ) are made.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Fig. 1

Similar content being viewed by others

References

  • Balloux F, Lugon-Moulin N (2002) The estimation of population differentiation with microsatellite markers. Mol Ecol 11:155–165

    Article  PubMed  Google Scholar 

  • Bollen A (2007) Fruit characteristics: Fruit selection, animal seed dispersal and conservation matters in the Sainte Luce forests. In: Ganzhorn JU, Goodman SM, Vincelette M (eds) Biodiversity, ecology and conservation of littoral ecosystems in southeastern Madagascar, Tolagnoro (Fort Dauphin). Series editor Alfonso Alonso. SI/MAB Series #11. Smithsonian Institution, Washington DC, pp 127–138

    Google Scholar 

  • Bollen A, Donati G (2006) Conservation status of the littoral forest of south-eastern Madagascar: a review. Oryx 40(1):57–66

    Article  Google Scholar 

  • Combes MC, Andrzejewski S, Anthony F, Bertrand B, Rovelli P, Graziosi G, Lashermes P (2000) Characterization of microsatellite loci in Coffea arabica and related coffee species. Mol Ecol 9:1178–1180

    Article  PubMed  CAS  Google Scholar 

  • Consiglio T, Schatz GE, McPherson G, Lowry PP II, Rabenantoandro J, Rogers ZS, Rabevohitra R, Rabehevitra D (2005) Deforestation and plant diversity of Madagascar's littoral forests. Conserv Biol 20(6):1799–1803

    Article  Google Scholar 

  • Coulibaly I, Revol B, Noirot M, Poncet V, Lorieux M, Carasco-Lacombe C, Minier J, Dufour M, Hamon P (2003) AFLP and SSR polymorphism in a Coffea interspecific backcross progeny [(C. heterocalyx × C. canephora) × C. canephora]. Theor Appl Genet 107:1148–1155

    Article  PubMed  CAS  Google Scholar 

  • Cubry P, Musoli P, Legnate H, Pot D, de Bellis F, Poncet V, Anthony F, Dufour M, Leroy T (2008) Diversity in coffee assessed with SSR markers: structure of the genus Coffea and perspectives for breeding. Genome 51:50–63

    Article  PubMed  CAS  Google Scholar 

  • Davis AP, Bridson DM (2003) Introduction to the Rubiaceae. In: Goodman SM, Benstead JP (eds) The natural history of Madagascar. The University of Chicago Press, Chicago, pp 431–434

    Google Scholar 

  • Davis AP, Rakotonasolo F (2008) A taxonomic revision of the baracoffea alliance: nine remarkable Coffea species from western Madagascar. Bot J Linn Soc 158:355–390

    Article  Google Scholar 

  • Davis AP, Govaerts R, Bridson DM, Stoffelen P (2006) An annotated taxonomic conspectus of the genus Coffea (Rubiaceae). Bot J Linn Soc 152:465–512

    Article  Google Scholar 

  • Davis AP, Govaerts R, Bridson DM, Ruhsam M, Moat J, Brummitt NA (2009) A global assessment of distribution, diversity, endemism, and taxonomic effort in the Rubiaceae. Ann Mobot 96(1):68–78

    Google Scholar 

  • de Gouvenain RC, Silander JA Jr (2003) Littoral forest. In: Goodman SM, Benstead JP (eds) The natural history of Madagascar. The University of Chicago Press, Chicago, pp 103–111

    Google Scholar 

  • Dulloo ME, Guarino L, Engelmann F, Maxted N, Newbury JH, Attere F, Ford-Lloyd BV (1998) Complementary conservation strategies for the genus Coffea: a case study of Mascarene Coffea species. Genet Resour Crop Evol 45:565–579

    Article  Google Scholar 

  • Engelmann F, Dulloo E (2007) Introduction. In: Englemann F, Dulloo ME, Astorga C, Dussert S, Anthony F (eds) Conserving coffee genetic resources: complementary conservation strategies for ex situ conservation of coffee (Coffea arabica L.) genetic resources. A case study in CATIE, Costa Rica. Bioversity International, Rome, pp 1–11

    Google Scholar 

  • Excoffier L, Smouse PE, Quattro JM (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genet 131:479–491

    CAS  Google Scholar 

  • Frankel OH (1984) Genetic perspectives of germplasm conservation. In: Arber W, Llimensee K, Peacock WJ, Starlinger P (eds) Genetic manipulation: impact on man and society. Cambridge University Press, Cambridge, pp 161–170

    Google Scholar 

  • IUCN (2001) IUCN red list categories, version 3.1. Gland/Cambridge: IUCN Species Survival Commission

  • Krishnan S (2011) Conservation genetics of wild coffee (Coffea spp.) in Madagascar. Dissertation. University of Colorado, Boulder, CO

  • Lowry PP II, Randriatafika F, Rabenantoandro J (2008) Conservation status of vascular plant species from the QMM/Rio Tinto mining area at Mandena, Tolagnaro (Fort Dauphin) region, southeast Madagascar. Madagascar Conserv Dev 3(1):55–63

    Google Scholar 

  • Maurin O, Davis AP, Chester M, Mvungi EF, Jaufeerally-Fakim Y, Fay MF (2007) Towards a phylogeny for Coffea (Rubiaceae): identifying well-supported lineages based on nuclear and plastid DNA sequences. Ann Bot 100:1565–1583

    Article  PubMed  CAS  Google Scholar 

  • Moat J, Smith P (2007) Atlas of the vegetation of Madagascar. Kew Publishing, Royal Botanic Gardens, Kew

    Google Scholar 

  • Musoli P, Cubry P, Aluka P, Billot C, Dufour M, De Bellis T, Pot D, Bieysse D, Charrier A, Leroy T (2009) Genetic differentiation of wild and cultivated populations: diversity of Coffea canephora Pierre in Uganda. Genome 52:634–646

    Article  PubMed  CAS  Google Scholar 

  • Rabenantoandro J, Randriatafika F, Lowry PP II (2007) Floristic and structural characteristics of remnant littoral forest sites in the Tolagnaro area. In: Ganzhorn JU, Goodman SM, Vincelette M (eds) Biodiversity, ecology and conservation of littoral ecosystems in southeastern Madagascar, Tolagnoro (Fort Dauphin). Series editor Alfonso Alonso. SI/MAB Series #11. Smithsonian Institution, Washington DC, pp 65–93

    Google Scholar 

  • Rakotosamimanana B (2003) Foreword. In: Goodman SM, Benstead JP (eds) The natural history of Madagascar. The University of Chicago Press, Chicago

    Google Scholar 

  • Randriatafika F, Rabenantoandro J, Birkinshaw C, Vincelette M (2007a) Biology, ecology, risk of extinction, and conservation strategy for Eligmocarpus cynometroides (Fabaceae): a priority species at Petriky. In: Ganzhorn JU, Goodman SM, Vincelette M (eds) Biodiversity, ecology and conservation of littoral ecosystems in southeastern Madagascar, Tolagnoro (Fort Dauphin). Series editor Alfonso Alonso. SI/MAB Series #11. Smithsonian Institution, Washington DC, pp 369–377

    Google Scholar 

  • Randriatafika F, Rabenantoandro J, Rajoharison RA (2007b) Analysis of seed germination of littoral forest native species in southeastern Madagascar. In: Ganzhorn JU, Goodman SM, Vincelette M (eds) Biodiversity, ecology and conservation of littoral ecosystems in southeastern Madagascar, Tolagnoro (Fort Dauphin). Series editor Alfonso Alonso. SI/MAB Series #11. Smithsonian Institution, Washington DC, pp 119–125

    Google Scholar 

  • Richards CM, Antolin MF, Reilley A, Poole J, Walters C (2007) Capturing genetic diversity of wild populations for ex situ conservation: texas wild rice (Zizania texana) as a model. Genet Resour Crop Evol 54:837–848

    Article  Google Scholar 

  • Rousset F (2008) GENEPOP’007: a complete reimplementation of the GENEPOP software for Windows and Linux. Mol Ecol Resour 8:103–106

    Article  PubMed  Google Scholar 

  • Rovelli P, Mettulio R, Anthony F, Anzueto F, Lashermes P, Graziosi G (2000) Microsatellites in Coffea arabica L. In: Sera T, Soccol CR, Pandey A, Roussos S (eds) Coffee biotechnology and quality. Kluwer, Netherlands, pp 123–133

    Google Scholar 

  • Schneider S, Roessli D, Excoffier L (2000) Arlequin: a software for population genetics data analysis. Ver 2.000. Genetics and Biometry Lab, Dept. of Anthropology, University of Geneva

  • Silvestrini M, Junqueira MG, Favarin AC, Guerreiro-Filho O, Malif MP, Silvarolla MB, Colombo CA (2007) Genetic diversity and structure of Ethiopian. Yamen and Brazilian Coffea arabica L. accessions using microsatellite markers. Genet Resour Crop Evol 54:1367–1379

    Article  CAS  Google Scholar 

  • Van Hintum TJL, Brown ADH, Spillane C, Hodgkin T (2000) Core collections of plant genetic resources. IPGRI Technical Bulletin 3:5–48

    Google Scholar 

  • Vincelette M, Dumouchel J, Giroux J, Heriarive R (2007a) The Tolagnaro (Fort Dauphin) region: A brief overview of the geology, hydrology, and climatology. In: Ganzhorn JU, Goodman SM, Vincelette M (eds) Biodiversity, ecology and conservation of littoral ecosystems in southeastern Madagascar, Tolagnoro (Fort Dauphin). Series editor Alfonso Alonso. SI/MAB Series #11. Smithsonian Institution, Washington DC, pp 9–17

    Google Scholar 

  • Vincelette M, Dean L, Ganzhorn JU (2007b) The QMM/Rio Tinto project history in Tolagnaro and its social and environmental concepts. In: Ganzhorn JU, Goodman SM, Vincelette M (eds) Biodiversity, ecology and conservation of littoral ecosystems in southeastern Madagascar, Tolagnoro (Fort Dauphin). Series editor Alfonso Alonso. SI/MAB Series #11. Smithsonian Institution, Washington DC, pp 1–8

    Google Scholar 

  • Volk GM, Richards CM, Reilley AA, Henk AD (2005) Ex situ conservation of vegetatively propagated species: development of a seed-based core collection for Malus sieversii. J Amer Soc Hort Sci 130(2):203–210

    Google Scholar 

  • Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution 38(6):1358–1370

    Article  Google Scholar 

  • Wright S (1978) Evolution and the genetics of population, volume 4: variability within and among natural populations. The University of Chicago Press, Chicago

    Google Scholar 

  • Yoder AD, Nowak MD (2006) Has vicariance or dispersal been the predominant biogeographic force in Madagascar? Only time will tell. Annu Rev Ecol Evol Syst 37:405–431

    Article  Google Scholar 

Download references

Acknowledgments

This work was supported by grants to S. Krishnan from the Association of Zoological Horticulture Conservation, the University of Colorado Museum of Natural History, Department of Ecology and Evolutionary Biology, and Beverly Sears program of the Graduate Division. We thank Dr. Franck Rakotonasolo, Ueshima Coffee Corporation, and the teams of National Center of Applied Research and Rural Development (FOFIFA), QIT Madagascar Minerals (QMM), and Royal Botanic Gardens, Kew, Madagascar (Kew Madagascar Conservation Center—KMCC) for their valuable collaboration and field support.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Sarada Krishnan.

Additional information

Communicated by D. Chagné

Rights and permissions

Reprints and permissions

About this article

Cite this article

Krishnan, S., Ranker, T.A., Davis, A.P. et al. The study of genetic diversity patterns of Coffea commersoniana, an endangered coffee species from Madagascar: a model for conservation of other littoral forest species. Tree Genetics & Genomes 9, 179–187 (2013). https://doi.org/10.1007/s11295-012-0545-0

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11295-012-0545-0

Keywords

Navigation