Connecting systematic and ecological studies using DNA barcoding in a population survey of Drosophilidae (Diptera) from Mt Oku (Cameroon)
Abstract
References
Adams C.F. 1905. Diptera Africana, I. Kansas University Science Bulletin 3 (6): 149–188.
Ashburner M., Golic K.G. & Hawley R.S. 2004. Drosophila. A Laboratory Handbook. Second Edition. Cold Spring Harbor Laboratory Press, New York.
Austerlitz F., David O., Schaeffer B., Bleakley K., Olteanu M., Leblois R., Veuille M. & Laredo C. 2009. DNA barcode analysis: a comparison of phylogenetic and statistical classification methods. BMC Bioinformatics 10 (Suppl. 14): eS10. http://dx.doi.org/10.1186/1471-2105-10-S14-S10
Avondet J.L., Blair R.B., Berg D.J. & Ebbert M.A. 2003. Drosophila (Diptera: Drosophilidae) response to changes in ecological parameters across an urban gradient. Environmental Entomology 32: 347–358. http://dx.doi.org/10.1603/0046-225X-32.2.347
Bachtrog D., Thornton K., Clark A. & Andolfatto P. 2006. Extensive introgression of mitochondrial DNA relative to nuclear genes in the Drosophila yakuba species group. Evolution 60 (2): 292–302. http://dx.doi.org/10.1111/j.0014-3820.2006.tb01107.x
Bauernfeind E. & Moog O. 2000. Mayflies (Insecta: Ephemeroptera) and the assessment of ecological integrity: a methodological approach. Hydrobiologia 422/423: 71–83. http://dx.doi.org/10.1023/A:1017090504518
Blaxter M., Mann J., Chapman T., Thomas F., Whitton C., Floyd R. & Abebe E. 2005. Defining opera-tional taxonomic units using DNA barcode data. Philosophical Transactions of the Royal Society B
: 1935–1943. http://dx.doi.org/10.1098/rstb.2005.1725
Bouiges A., Yassin A., Ikogou M., Lelarge C., Sikoa A.R., Mona S. & Veuille M. 2013. Detecting recent changes in the demographic parameters of drosophilid populations from western and central Africa. Comptes Rendus de l’Académie des Sciences – Geosciences 345: 297–305. http://dx.doi.org/10.1016/j.crte.2013.08.002
Burla H. 1954a. Distinction between four species of the melanogaster group, Drosophila seguyi, D. montium, D. kikkawai sp. n. and D. auraria (Drosophilidae, Diptera). Revista Brasileira de Biologia 14: 41–54.
Burla H. 1954b. Zur Kenntnis der Drosophiliden der Elfenbeinkuste (Französisch West-Afrika). Revue Suisse de Zoologie 61 (Suppl.): 1–218. http://dx.doi.org/10.5962/bhl.part.75413
Carew M.E., Pettigrove V.J., Metzeling L. & Hoffmann A.A. 2013. Environmental monitoring using next generation sequencing: rapid identification of macroinvertebrate bioindicator species. Frontiers in Zoology 10: e45. http://dx.doi.org/10.1186/1742-9994-10-45
Chassagnard M.-T., Tsacas L. & Lachaise D. 1997. Drosophilidae (Diptera) of Malawi. Annals of the Natal Museum 38: 61–131.
Coquillett D.W. 1902. New Diptera from Southern Africa. Proceedings of the United States National Museum 1243: 27–32.
Da Lage J.-L., Kergoat G.J., Maczkowiak F., Silvain J.-F., Cariou M.-L. & Lachaise D. 2007. A phylogeny of Drosophilidae using the Amyrel gene: questioning the Drosophila melanogaster species group boundaries. Journal of Zoological Systematics and Evolutionary Research 45 (1): 47–63. http://dx.doi.org/10.1111/j.1439-0469.2006.00389.x
Davis A.J. & Jones K.E. 1994. Drosophila as indicators of habitat type and habitat disturbance in tropical forest, central Borneo. Drosophila Information Service 75: 150–151.
Davison A., Blackie R.L.E. & Scothern G.P. 2009. DNA barcoding of stylommatophoran land snails: a test of existing sequences. Molecular Ecology Resources 9: 1092–1101. http://dx.doi.org/10.1111/j.1755-0998.2009.02559.x
Drosophila 12 Genomes Consortium. 2007. Evolution of genes and genomes on the Drosophila phylogeny. Nature 450: 203–218. http://dx.doi.org/10.1038/nature06341
Frézal L. & Leblois R. 2008. Four years of DNA barcoding: current advances and prospects. Infection, Genetics and Evolution 8 (5): 727–736. http://dx.doi.org/10.1016/j.meegid.2008.05.005
Hajibabaei M., Singer G.A.C, Hebert P.D.N. & Hickey D.A. 2007. DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trends in Genetics 23 (4): 167–172. http://dx.doi.org/10.1016/j.tig.2007.02.001
Harry M., Solignac M. & Lachaise D. 1996. Adaptive radiation in the Afrotropical region of the Paleotropical genus Lissocephala (Drosophilidae) on the pantropical genus Ficus (Moraceae). Journal of Biogeography 23: 543–552. http://dx.doi.org/10.1111/j.1365-2699.1996.tb00016.x
Harry M., Solignac M. & Lachaise D. 1998. Molecular evidence for parallel evolution of adaptive syndromes in fig-breeding Lissocephala (Drosophilidae). Molecular Phylogenetics and Evolution 9 (3): 542–551. http://dx.doi.org/10.1006/mpev.1998.0508
Hebert P.D.N., Cywinska A., Ball S.L. & de Waard J.R. 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society B 270: 313–321. http://dx.doi.org/10.1098/rspb.2002.2218
Hebert P.D.N., Penton E.H., Burns J.M., Janzen D.H. & Hallwachs W. 2004. Ten species in one: DNA barcoding reveals cryptic species in the Neotropical skipper butterfly Astraptes fulgerator. Proceedings of the National Academy of Sciences 101: 14812–14817. http://dx.doi.org/10.1073/pnas.0406166101
Janzen D., Hallwachs W., Blandin P., Burns J., Cadiou J., Chacon I., Dapkey T., Deans A., Epstein M., Espinoza B., Franclemont J., Haber W., Hajibabaei M., Hall J.W., Hebert P.N., Gauld I., Harvey D., Hausmann A., Kitching I., Lafontaine D., Landry J., Lemaire C., Miller J.Y., Miller J.S., Miller L., Miller S.E., Montero J., Munroe E., Green S.R., Ratnasingham S., Rawlins J., Robbins R., Rodriguez J., Rougerie R., Sharkey M., Smith M.A., Solis M.A., Sullivan J.B., Thiaucourt P., Wahl D., Weller S., Whitfield J., Willmott K., Wood D.M., Woodley N. & Wilson J. 2009. Integration of DNA barcoding into an ongoing inventory of complex tropical biodiversity. Molecular Ecology Resources 9: 1–26. http://dx.doi.org/10.1111/j.1755-0998.2009.02628.x
Krijger C.L. & Sevenster J.G. 2001. Higher species diversity explained by stronger spatial aggregation across six neotropical Drosophila communities. Ecology Letters 4 (2): 106–115. http://dx.doi.org/10.1046/j.1461-0248.2001.00200.x
van der Linde K., Houle D., Spicer G.S. & Steppan S.J. 2010. A supermatrix-based molecular phylogeny of the family Drosophilidae. Genetics Research 92: 25–38. http://dx.doi.org/10.1017/S001667231000008X
Llopart A., Lachaise D. & Coyne J.A. 2005. Multilocus analysis of introgression between two sympatric sister species of Drosophila: Drosophila yakuba and D. santomea. Genetics 171: 197–210. http://dx.doi.org/10.1534/genetics.104.033597
Lukhtanov V.A., Sourakov A., Zakharov E.V. & Hebert P.D.N. 2009. DNA barcoding central Asian butterflies: increasing geographical dimension does not significantly reduce the success of species identification. Molecular Ecology Resources 9: 1302–1310. http://dx.doi.org/10.1111/j.1755-0998.2009.02577.x
Maley J. 1996. The Africa rain forest – main characteristics of changes in vegetation and climate from the Upper Cretaceous to the Quaternary. Proceedings of the Royal Society of Edinburgh B 104: 31–73. http://dx.doi.org/10.1017/S0269727000006114
Markow T.A. & O’Grady P.M. 2005. Drosophila: A Guide to Species Identification and Use. Academic Press.
Mata R., McGeoch M. & Tidon R. 2008. Drosophilid assemblages as a bioindicator system of human disturbance in the Brazilian savanna. Biodiversity and Conservation 17 (12): 2899–2916. http://dx.doi.org/10.1007/s10531-008-9403-7
Monaghan M.T., Balke M., Gregory T.R. & Vogler A.P. 2005. DNA-based species delineation in tropical beetles using mitochondrial and nuclear markers. Philosophical Transactions of the Royal Society B 360: 1925–1933. http://dx.doi.org/10.1098/rstb.2005.1724
Myers N., Mittermeier C.G., Da Fonesca G.A.B. & Kent J. 2000. Biodiversity hotspots for conservation priorities. Nature 403: 853–858. http://dx.doi.org/10.1038/35002501
Oliver I. & Beattie A.J. 1996. Invertebrate morphospecies as surrogates for species: a case study. Conservation Biology 10 (1): 99–109. http://dx.doi.org/10.1046/j.1523-1739.1996.10010099.x
Parsons P.A. 1991. Biodiversity conservation under global climatic change: the insect Drosophila as a biological indicator? Global Ecology and Biogeography Letters 1 (3): 77–83. http://dx.doi.org/10.2307/2997493
Passmore A.J., Jarman S.N., Swadling K.M., Kawaguchi S., McMinn A. & Nicol S. 2006. DNA as a dietary biomarker in Antarctic krill, Euphausia superba. Marine Biotechnology 8: 686–696. http://dx.doi.org/ 10.1007/s10126-005-6088-8
Pélandakis M. & Solignac M. 1993. Molecular phylogeny of Drosophila based on ribosomal RNA sequences. Journal of Molecular Evolution 37: 525–543. http://dx.doi.org/10.1007/BF00160433
Plana V. 2004. Mechanisms and tempo of evolution in the African Guineo-Congolian rainforest. Philosophical Transactions of The Royal Society of London B 359: 1585–1594. http://dx.doi.org/10.1098/rstb.2004.1535
Powell J.R. 1997. Progress and Prospects in Evolutionary Biology. The Drosophila Model. Oxford University Press, New York.
Prigent S.R., Le Gall P., Mbunda S.W. & Veuille M. 2013. Seasonal and altitudinal structure of drosophilid communities on Mt Oku (Cameroon volcanic line). Comptes Rendus de l’Académie des Sciences – Geosciences 345: 316–326. http://dx.doi.org/10.1016/j.crte.2013.08.001
Remsen J. & O’Grady P. 2002. Phylogeny of Drosophilinae (Diptera: Drosophilidae), with comments on combined analysis and character support. Molecular Phylogenetics and Evolution 24: 249–264. http://dx.doi.org/10.1016/S1055-7903(02)00226-9
Séguy E. 1933. Contributions à l’étude de la faune du Mozambique. Voyage de M.P. Lesne (1928–1929). Memorias e Estudos do Museu Zoologico da Universidade de Coimbra 67: 5–80.
Telfer A.C., Young M.R., Quinn J., Perez K., Sobel C.N., Sones J.E., Levesque-Beaudin V., Derbyshire R., Fernandez-Triana J., Rougerie R., Thevanayagam A., Boskovic A., Borisenko A.V., Cadel A., Brown A., Pages A., Castillo A.H., Nicolai A., Mockford B., Mockford G., Bukowski B., Wilson B., Trojahn B., Lacroix C.A., Brimblecombe C., Hay C., Ho C., Steinke C., Warne C.P., Garrido Cortes C., Engelking D., Wright D., Lijtmaer D.A., Gascoigne D., Martich D.H., Morningstar D., Neumann D., Steinke D., DeBruin D., DeBruin M., Dobias D., Sears E., Richard E., Damstra E., Zakharov E.V., Laberge F., Collins G.E., Blagoev G.A., Grainge G., Ansell G., Meredith G., Hogg I., McKeown J., Topan J., Bracey J., Guenther J., Sills-Gilligan J., Addesi J., Persi J., Layton K.K.S., D’Souza K., Dorji K., Grundy K., Nghidinwa K., Ronnenberg K., Lee K.M., Xie L., Lu L., Penev L., Gonzalez M., Rosati M.E., Kekkonen M., Kuzmina M., Iskandar M., Mutanen M., Fatahi M., Pentinsaari M., Bauman M., Nikolova N., Ivanova N.V., Jones N., Weerasuriya N., Monkhouse N., Lavinia P.D., Jannetta P., Hanisch P.E., McMullin R.T., Flores R.O., Mouttet R., Vender R., Labbee R.N., Forsyth R., Lauder R., Dickson R., Kroft R., Miller S.E., MacDonald S., Panthi S., Pedersen S., Sobek-Swant S., Naik S., Lipinskaya T., Eagalle T., Decaëns T., Kosuth T., Braukmann T., Woodcock T., Roslin T., Zammit T., Campbell V., Dinca V., Peneva V., Hebert P.D.N. & deWaard J.R. 2015. Biodiversity inventories in high gear: DNA barcoding facilitates a rapid biotic survey of a temperate nature reserve. Biodiversity Data Journal 3: e6313. http://dx.doi.org/10.3897/BDJ.3.e6313
Throckmorton L.H. 1975. The phylogeny, ecology and geography of Drosophila. In: King R.C. (ed.) Handbook of Genetics. Vol. 3: 421–469. Plenum Press, New York.
Tidon R. 2006. Relationships between drosophilids (Diptera, Drosophilidae) and the environment in two contrasting tropical vegetations. Biological Journal of the Linnean Society 87 (2): 233–247. http://dx.doi.org/10.1111/j.1095-8312.2006.00570.x
Tsacas L. 1972. Revision of the African Drosophilidae described by Adams, Kahl and Curran. Studies in Genetics VII, University of Texas Publications 7213: 327–343.
Tsacas L. 1980a. L’identité de Zaprionus vittiger Coquillett et révision des espèces afrotropicales affines (Dipt. Drosophilidae). Bulletin de la Société entomologique de France 85: 141–154.
Tsacas L. 1980b. Les espèces montagnardes afrotropicales de Drosophilidae (Diptera) I. – Le groupe Drosophila dentissima. Annales de la Société entomologique de France (N.S.) 16: 517–540.
Tsacas L. 1990. Drosophilidae de l’Afrique australe (Diptera). Annals of the Natal Museum 31: 103–161.
Tsacas L. 2002. Le nouveau complexe africain Drosophila loiciana et l’espèce apparentée D. matilineana n. sp. (Diptera: Drosophilidae). Annales de la Société entomologique de France (N.S.) 38 (1–2): 57–70.
Tsacas L. & Chassagnard M.-T. 1994. Le genre Drosophila s. str. en Afrique et description de deux nouvelles espèces (Diptera, Drosophilidae). Revue française d’Entomologie (N.S.) 16 (2): 71–80.
Tsacas L. & Lachaise D. 1981. Les espèces au second article tarsal modifié du groupe afrotropical Drosophila fima (Diptera, Drosophilidae). Annales de la Société entomologique de France (N.S.) 17 (3): 395–415.
Tsacas L., David J.R., Allemand R., Pasteur G., Chassagnard M.T. & Derridj S. 1977. Biologie évolutive du genre Zaprionus. Recherches sur le complexe spécifique de Z. tuberculatus (Dipt. Drosophilidae). Annales de la Société entomologique de France (N.S.) 13: 391–415.
Yassin A. 2013. Phylogenetic classification of the Drosophilidae Rondani (Diptera): the role of morphology in the postgenomic era. Systematic Entomology 38: 349–364. http://dx.doi.org/10.1111/j.1365-3113.2012.00665.x
Yassin A. & David J.R. 2010. Revision of the Afrotropical species of Zaprionus (Diptera, Drosophilidae), with descriptions of two new species and notes on internal reproductive structures and immature stages. Zookeys 51: 33–72. http://dx.doi.org/10.3897/zookeys.51.380
Yassin A. & Orgogozo V. 2013. Coevolution between male and female genitalia in the Drosophila melanogaster species subgroup. PLoS ONE 8 (2): e57158. http://dx.doi.org/10.1371/journal.pone.0057158
Yassin A., Capy P., Madi-Ravazzi L., Ogereau D. & David J.R. 2008. DNA barcode discovers two cryptic species and two geographical radiations in the invasive drosophilid Zaprionus indianus. Molecular Ecology Resources 8: 491–501. http://dx.doi.org/10.1111/j.1471-8286.2007.02020.x
Yassin A., Amabis J.M., Da Lage J.-L., Debiais-Thibaud M. & David J.R. 2010. On the relationship between Zaprionus spinipilus Chassagnard & McEvey and Z. vittiger Coquillett, the type species of the genus Zaprionus (Diptera: Drosophilidae). Annales de la Société entomologique de France (N.S.) 46 (3–4): 471–476.
Yassin A., Bastide H., Chung H., Veuille M., David J.R. & Pool J.E. 2016. Ancient balancing selection at tan underlies female colour dimorphism in Drosophila erecta. Nature Communications 7: e10400. http://dx.doi.org/10.1038/ncomms10400
Creative Commons Copyright Notices
Authors who publish with this journal agree to the following terms:
- Authors retain copyright and grant the journal right of first publication with the work simultaneously licensed under a Creative Commons Attribution License (CC BY 4.0) that allows others to share the work with an acknowledgement of the work's authorship and initial publication in this journal.
- Authors are able to enter into separate, additional contractual arrangements for the non-exclusive distribution of the journal's published version of the work (e.g., post it to an institutional repository or publish it in a book), with an acknowledgement of its initial publication in this journal.
- Authors are NOT ALLOWED TO post their work online (e.g., in institutional repositories or on their website) prior to and during the submission process, as it can lead to taxonomic issues.
