Genetic Diversity of the Cameroon Indigenous Chicken Ecotypes
DOI:
https://doi.org/10.3923/ijps.2014.279.291Keywords:
Cameroon, diversity, Gallus gallus, indigenous chickenAbstract
Cameroon has a wide range of agro-ecological zones, having indigenous chicken populations which are thought to be adapted and diversified. Genetic diversity of the Cameroon chicken populations from agro-ecological zones I, II, III and IV was assessed using 25 microsatellite markers. A total of 314 chickens were genotyped, revealing 226 distinct alleles and 24 private alleles (10.62%). The mean polymorphic information content was 0.57. The average observed, expected and unbiased frequencies of heterozygote were 0.60, 0.62 and 0.65 respectively, with the mean Shannon index of 1.21. The global inbreeding coefficient among population was 0.13. Inbreeding coefficient varied significantly with 4.27% variation observed among ecotypes. Within ecotypes the highest diversity was observed in the Bafang-Bakou population having 7.92±4.22 alleles per locus, 168.80±4.73 gene copies, 9 private alleles and 0.68±0.02 expected heterozigosity. However the same region displayed the highest inbreeding coefficient (0.13). In all the populations, 67% of the loci did not deviate significantly from the Hardy-Weinberg. The neighbor-joining tree, UPGMA cladogram as well as the Evannos population structure parameters revealed existence of 3 clusters in Cameroon chicken populations. The current study confirmed usefulness of microsatellites for studying genetic variation of the Cameroonian indigenous chicken. They demonstrate information on genetic variability of Cameroon local chicken populations, offer steps towards rational decision making prior to genetic improvement and conservation programs, without compromising the existence of each unique genotype.
References
Babar, M.E., A. Nadeem, T. Hussain, A. Wajid and S.A. Shah et al., 2012. Microsatellite marker based genetic diversity among four varieties of Pakistani Aseel chicken. Pak. Vet. J., 32: 237-241.
Bai, W.L., R.H. Yin, S.J. Zhao, G.B. Luo, W.Q. Jiang and Y.Q. Gong, 2004. Study on genetic diversity of Bian chicken breed using microsatellite DNA markers. China Poult., 33: 453-454.
Berthouly, C., B. Bed'Hom, M. Tixierâ€Boichard, C.F. Chen and Y.P. Lee et al., 2008. Using molecular markers and multivariate methods to study the genetic diversity of local European and Asian chicken breeds. Anim. Genet., 39: 121-129.
Berthouly, C., X. Rognon, N. van Thu, H.H. Thanh, T. van Binh, E. Verrier and J.C. Maillard, 2007. Preliminary characterization of poultry in Ha Giang province. Proceedings of the International Workshop on Domesticated Animal Biodiversity of Vietnam in the Context of Globalization, December 13-14, 2007, HaNoi, Vietnam.
Bordas, A., M. Tixier-Boichard, X. Rognon and K. Benabdeljelil, 2004. Characterization and use of the local poultry genetic resources in hot climates. Proceedings of the 22th Worlds Poultry Congress, June 8-13, 2004, Istanbul, Turkey.
Botstein, D., R.L. With, M. Skolnick and R.W. Davis, 1980. Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am. J. Hum. Genet., 32: 314-331.
Chen, G.H., X.S. Wu, D.Q. Wang, J. Qin and S.L. Wu et al., 2004. Cluster analysis of 12 Chinese native chicken populations using microsatellite markers. Asian-Aust. J. Anim. Sci., 17: 1047-1052.
Clementino, C.S., F.J.V. Barbosa, A.M.F. Carvalho, R.A.R. Costa-Filho and G.R. Silva et al., 2010. Microsatellite DNA Loci for population studies in Brazilian chicken ecotypes. Int. J. Poult. Sci., 9: 1100-1106.
Cuc, N.T.K., H. Simianer, H. Eding, H.V. Tieu and V.C. Cuong et al., 2010. Assessing genetic diversity of Vietnamese local chicken breeds using microsatellites. Anim. Genet., 41: 545-547.
Earl, D.A. and B.M. vonHoldt, 2012. Structure harvester: A website and program for visualizing structure output and implementing the Evanno method. Conservation Genet. Resour., 4: 359-361.
Eltanany, M., U. Philipp, S. Weigend and O. 2010. Genetic diversity of ten Egyptian chicken strains using 29 microsatellite markers. Anim. Genet., 42: 666-669.
Evanno, G., S. Regnaut and J. Goudet, 2005. Detecting the number of clusters of individuals using the software structure: A simulation study. Mol. Ecol., 14: 2611-2620.
FAO, 2011. Draft guidelines on molecular genetic characterization of animal genetic resources. Commission on Genetic Resources for Food and Agriculture, Thirteenth Regular Session, Rome, Italy. http://www.fao.org/docrep/meeting/022/am652e.pdf.
Felsenstein, J., 1995. PHYLIP: Phylogeny Inference Package, Version 3.57c. University of Washington, Seattle, WA., USA.
Fotsa, J.C., A. Bordas, X. Rognon, M. Tixier-Boichard, D.P. Kamdem and Y. Manjeli, 2007. [Characterization and local farming and hens comparison of their performance in station to those of stock commercial type label in Cameroon]. Journee de la Recherche Avicole, 7: 414-417 (In French).
Fotsa, J.C., D.P. Kamdem, A. Bordas, M. Tixier-Boichard and X. Rognon, 2011. Assessment of the genetic diversity of Cameroon indigenous chickens by the use of microsatellites. Livest. Res. Rural Dev., Vol. 23.
Ding, F.X., G.X. Zhang, J.Y. Wang, Y. Li and L.J. Zhang et al., 2010. Genetic diversity of a Chinese native chicken breed, Bian chicken, based on twenty-nine microsatellite markers. Asian-Aust. J. Anim. Sci., 23: 154-161.
Graur, D. and W.H. Li, 2000. Fundamentals of Molecular Evolution. 2nd Edn., Sinauer Associates, Sunderland, MA.
Hako Touko, B.A., Y. Manjeli, J. Awah-Ndukum and T.C. Keambou, 2009. [Effect of genetic group and sex on haematological parameters and the viability of the local fowl (Gallus domesticus) in Cameroon]. Livestock Res. Rural Dev., Vol. 21 (In French).
Hako Touko, B.A., Y. Manjeli, A. Teguia and J. Tchoumboue, 2009. [Evaluation and prediction of the effect of genetic type of local fowl (Gallus domesticus) on live body weight in Cameroon]. Livestock Res. Rural Dev., Vol. 21 (In French).
Hillel, J., M.A.M. Groenen, M. Tixier-Boichard, A.B. Korol and L. David et al., 2003. Biodiversity of 52 chicken populations assessed by microsatellite typing of DNA pools. Genet. Sel. Evol., 35: 533-557.
Hosny, F.A., 2006. The Structure and Importance of the Commercial and Village Based Poultry System in Egypt. In: Poultry Sector Country Review, FAO (Ed.). FAO, Rome, Italy, pp: 1-39.
Kaya, M. and M.A. Yildiz, 2008. Genetic diversity among Turkish native chickens, denizli and gerze, estimated by microsatellite markers. Biochem. Genet., 46: 480-491.
Keambou, T.C., Y. Manjeli, B. Boukila, S. Mboumba, T. Mezui Mezui and B.A. Hako Touko, 2010. Heterosis and reciprocal effects of growth performances in F1 crosses generations of Local x Hubbard chicken in the Western Highlands of Cameroon. Livest. Res. Rural Dev., Vol. 22.
Keambou, T.C., Y. Manjeli, J. Tchoumboue, A. Teguia and R.N. Iroume, 2007. [Morphobiometrical characteristics of local chicken genetic resources from the Western Highlands of Cameroon]. Livestock Res. Rural Dev., Vol. 19 (In French).
Keambou, T.C., B. Boukila, G. Moussounda and Y. Manjeli, 2009. [Comparison of egg quality and growth performance of local chickens in urban and rural areas of the West Cameroon]. Int. J. Biol. Chem. Sci., 3: 457-465 (In French).
Keambou, T.C. and Y. Manjeli, 2009. [Genes NA, CR, PTI and R in chicken from western Cameroon]. Arch. Zootec., 58: 625-628 (In French).
Laval, G., M. SanCristobal and C. Chevalet, 2002. Measuring genetic distances between breeds: Use of some distances in various short term evolution models. Genet. Sel. Evol., 34: 481-507.
Liu, G.Q., X.P. Jiang, J.Y. Wang, Z.Y. Wang, G.Y. Liu and Y.J. Mao, 2008. Analysis of genetic diversity of yangzhou chicken by microsatellite markers. Int. J. Poult. Sci., 7: 1237-1241.
Mohammadabadi, M.R., M. Nikbakhti, H.R. Mirzaee, A. Shandi, D.A. Saghi, M.N. Romanov and I.G. Moiseyeva, 2010. Genetic variability in three native Iranian chicken populations of the Khorasan province based on microsatellite markers. Russ. J. Genet., 46: 505-509.
Muchadeyi, F.C., H. Eding, C.B.A. Wollny, E. Groeneveld and S.M. Makuza et al., 2007. Absence of population substructuring in Zimbabwe chicken ecotypes inferred using microsatellite analysis. Anim. Genet., 38: 332-339.
Mwacharo, J.M., K. Nomura, H. Hanada, H. Jianlin, O. Hanotte and T. Amano, 2007. Genetic relationships among Kenyan and other East African indigenous chickens. Anim. Genet., 38: 485-490.
Nei, M., 1972. Genetic distance between populations. Am. Naturalist, 106: 283-292.
Dana, N., E.H. vander Waaij and J.A.M. van Arendonk, 2011. Genetic and phenotypic parameter estimates for body weights and egg production in Horro chicken of Ethiopia. Trop. Anim. Health Prod., 43: 21-28.
Dana, N., 2011. Breeding programs for indigenous chicken in Ethiopia: Analysis of diversity in production systems and chicken populations. Ph.D. Thesis, Wageningen University, The Netherlands.
Osei-Amponsah, R., B.B. Kayang, A. Naazie, Y.D. Osei and I.A.K. Youssao et al., 2010. Genetic diversity of forest and savannah chicken populations of Ghana as estimated by microsatellite markers. Anim. Sci. J., 81: 297-303.
Pamo, E.T., 2008. Country pasture/forage resources profile. FAO, Rome, Italy, pp: 52. http://www.fao.org/ag/AGP/AGPC/doc/counprof/PDF%20files/Cameroon.pdf.
Pandey, A.K., B. Mishra, P. Chaudhary, M.S. Tania and R.K. Vijh, 2003. Microsatellite analysis in three breeds of Indian poultry. Indian J. Anim. Sci., 73: 788-792.
Pritchard, J.K., M. Stephens and P. Donnelly, 2000. Inference of population structure using multilocus genotype data. Genetics, 155: 945-959.
Shahbazi, S., S.Z. Mirhosseini and M.N. Romanov, 2007. Genetic diversity in five iranian native chicken populations estimated by microsatellite markers. Biochem. Genet., 45: 63-75.
Smith, L.M. and L.A. Burgoyne, 2004. Collecting, archiving and processing DNA from wildlife samples using FTA® databasing paper. BMC Ecol., Vol. 4.
Tadano, R., M. Nishibori, N. Nagasaka and M. Tsudzuki, 2007. Assessing genetic diversity and population structure for commercial chicken lines based on forty microsatellite analyses. Poult. Sci., 86: 2301-2308.
Tang, Q.P., W. Chen, H.F. Li, S.J. Zhang and D.W. Zhao, 2005. Analysis of the genetic diversity of 12 Chinese indigenous black-bone chicken breeds using microsatellite marker. Acta Vet. Zootec. Sin., 36: 755-760.
Tixier-Boichard, M., A. Bordas and X. Rognon, 2009. Characterisation and monitoring of poultry genetic resources. World Poult. Sci. J., 65: 272-285.
Vanhala, T., M. Tuiskula-Haavisto, K. Elo, J. Vilkki and A. Maki-Tanila, 1998. Evaluation of genetic variability and genetic distances between eight chicken lines using microsatellite markers. Poult. Sci., 77: 783-790.
Wu, S.X., G.H. Chen, D.Q. Wand, X.Y. Zhang and K.H. Wang et al., 2004. Analysis of genetic relationship among Chinese native chicken breeds using microsatellites markers. Acta Genet. Sin., 31: 43-50.
Ya-Bo, Y., W. Jin-Yu, D.M. Mekki, T. Qing-Ping and L. Hui-Fang et al., 2006. Evaluation of genetic diversity and genetic distance between twelve Chinese indigenous chicken breeds based on microsatellite markers. Int. J. Poult. Sci., 5: 550-556.
Peakall, R. and P.E. Smouse, 2006. genalex 6: Genetic analysis in Excel. Population genetic software for teaching and research. Mol. Ecol. Notes, 6: 288-295.
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