Phylogeography of three endemic birds of Maratua Island, a potential archive of Bornean biogeography

Autor:	Chua, Vivien L., Phillipps, Quentin, Lim, Haw Chuan, Taylor, Sabrina S., Gawin, Dency F., Rahman, Mustafa Abdul, Moyle, Robert G., Sheldon, Frederick H.
Rok vydání:	2015
Předmět:	Biodiversity Taxonomy
DOI:	10.5281/zenodo.5384835
Popis:	Chua, Vivien L., Phillipps, Quentin, Lim, Haw Chuan, Taylor, Sabrina S., Gawin, Dency F., Rahman, Mustafa Abdul, Moyle, Robert G., Sheldon, Frederick H. (2015): Phylogeography of three endemic birds of Maratua Island, a potential archive of Bornean biogeography. Raffles Bulletin of Zoology 63: 259-269, DOI: http://doi.org/10.5281/zenodo.5384835 {"references":["Abegg C & Thierry B (2002) Macaque evolution and dispersal in insular south- east Asia. Biological Journal of the Linnean Society, 75: 555-76.","Bandelt H-J, Forster P & Rohl A (1999) Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution, 16: 37-48.","Bangs O & Peters JL (1927) Birds from Maratua Island, off the east coast of Borneo. Occasional Papers of the Boston Society of Natural History, 5: 235-42.","Becking LE, Renema W, Santodomingo NK, Hoeksema BW, Tuti Y & de Voogd NJ (2011) Recently discovered landlocked basins in Indonesia reveal high habitat diversity in anchialine systems. Hydrobiologia, 677: 89-105.","Bintanja R, van de Wal SW & Oelemans J (2005) Modelled atmospheric temperatures and global sea levels of the past million years. Nature, 437: 125-128.","Bird MI, Taylor D & Hunt C (2005) Palaeoenvironments of insular Southeast Asia during the last glacial period: a savanna corridor in Sundaland? Quaternary Science Reviews, 24: 2228-2242.","Brandon-Jones D (1998) Pre-glacial Bornean primate impoverishment and Wallace's line. In: Hall R & Holloway JD (eds.) Biogeography and Geological Evolution of SE Asia. Backhuys Publishers, Leiden. Pp. 393-403.","Brush AH & Johnson NK (1976) The evolution of color differences between Nashville and Virginia's warblers. Condor, 78: 412-414.","Cannon CH, Morley RJ & Bush ABG (2009) The current refugial rainforests of Sundaland are unrepresentative of their biogeographic past and highly vulnerable to disturbance. Proceedings of the National Academy of Sciences of the United States of America, 106: 11188-11193.","Chasen FN (1935) A handlist of Malaysian birds. Bulletin of the Raffles Museum, 11: 1-389.","Coates BJ, Dutson GCL & Filardi CE (2006) Family Monarchidae (monarch-flycatchers). In: Del Hoyo J, Elliott A & Christie D (eds.) Handbook of the Birds of the World Volume 11. Lynx Edicions, Barcelona. Pp. 244-329.","Collar NJ (2004) Species limits in some Indonesian thrushes. Forktail, 20: 71-87.","Collar NJ (2005) Family Turdidae (thrushes). In: del Hoyo J, Elliott A & Christie D (eds.) Handbook of the birds of the world, Vol. 10. Lynx Edicions, Barcelona. Pp. 514-807.","Darriba D, Taboada GL, Doallo R & Posada D (2012) jModelTest 2: more models, new heuristics and parallel computing. Nature Methods, 9: 772.","de Voogd NJ, Becking LE & Cleary DF (2009) Sponge community composition in the Derawan islands, NE Kalimantan, Indonesia. Marine Ecology Progress Series, 396: 169-180.","Deignan HG (1959) Harry Cusheir Raven's travels in eastern Borneo. Sarawak Museum Journal, 9: 267-269.","Dickinson E & Dekker R (2002) Systematic notes on Asian birds. A preliminary review of the Pycnonotidae. Zoologische Verhandelingen, 25: 93-114.","Dickinson EC (2003) The Howard & Moore Complete Checklist of the Birds of the World, 3rd Edition. Christopher Helm, London, 1056 pp.","Excoffier L & Lischer HEL (2010) Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources, 10: 564-567.","Fabre PH, Irestedt M, Fjeldsa J, Bristol R, Groombridge JJ, Irham M & Jonsson KA (2012) Dynamic colonization exchanges between continents and islands drive diversification in paradise-flycatchers (Terpsiphone, Monarchidae). Journal of Biogeography, 39: 1900-1918.","Fishpool LDC & Tobias JA (2005) Family Pycnonotidae In: Del Hoyo J, Elliott A & Christie D (eds.) Handbook of the Birds of the World Volume 10. Lynx Edicions, Barcelona. Pp. 124-250.","Fooden J (1995) Systematic review of Southeast Asian longtail macaques, Macaca fascicularis (Raffles, 1821). Fieldiana Zoology, 81: 1-206.","Fregin S, Haase M, Olsson U & Alstrom P (2012) Pitfalls in comparisons of genetic distances: A case study of the avian family Acrocephalidae. Molecular Phylogenetics and Evolution, 62: 319-328.","Fuchs J, Cruaud C, Couloux A & Pasquet E (2007) Complex biogeographic history of the cuckoo-shrikes and allies (Passeriformes : Campephagidae) revealed by mitochondrial and nuclear sequence data. Molecular Phylogenetics and Evolution, 44: 138-153.","Gawin DF (2014) Population genetic and hybridization studies of three Bornean birds species: Mountain Black-eye (Chlorocharis emiliae), White-rumped Shama (Copsychus malabaricus), and Oriental Magpie-Robin (Copsychus saularis) In: Biological Sciences. Louisiana State University, Baton Rouge, Louisiana.","Gawin DF, Rahman MA, Ramji MFS, Smith BT, Lim HC, Moyle RG & Sheldon FH (2014) Patterns of avian diversification in Borneo: the case of the endemic Mountain Black-eye (Chlorocharis emiliae). The Auk: Advances in Ornithology, 131: 86-99.","Gill F & Donsker D (2014) IOC World Bird List (v 4.1). URL http://www.worldbirdnames.org/.","Gorog AJ, Sinaga MH & Engstrom MD (2004) Vicariance or dispersal? Historical biogeography of three Sunda shelf murine rodents (Maxomys surifer, Leopoldamys sabanus and Maxomys whiteheadi). Biological Journal of the Linnean Society, 81: 91-109.","Guindon S & Gascuel O (2003) A simple, fast and accurate method to estimate large phylogenies by maximum-likelihood\". Systematic Biology, 52: 696-704.","Hackett SJ (1996) Molecular phylogenetics and biogeography of tanagers in the genus Ramphocelus (Aves). Molecular Phylogenetics and Evolution, 5: 368-382.","Hoogerwerf A (1966) Notes on the islands of Bawean (Java Sea) with special reference to the birds. The Natural History Bulletin of the Siam Society, 21: 313-340.","Kellogg R (1944) A new macaque from an island off the east coast of Borneo. Proceedings of the Biological Society of Washington, 57: 75-76.","Kuenen PH (1947) Two problems of marine geology: atolls and canyons. Verhandelingen der Koninklijke Nederlandsche Akademie van Wetenschappen, afdeeling Natuurkunde.","Lim HC, Chua VL, Benham PM, Oliveros CH, Rahman MA, Moyle RG & Sheldon FH (2014) Divergence history of the Rufous-tailed Tailorbird (Orthotomus sericeus) of Sundaland: Implications for the biogeography of Palawan and the taxonomy of island species in general. Auk, 131: 629-642.","Lim HC, Rahman MA, Lim SLH, Moyle RG & Sheldon FH (2011) Revisiting Wallace's haunt: Coalescent simulations and comparative niche modeling reveal historical mechanisms that promoted avian population divergence in the Malay Archipelago. Evolution, 65: 321-34.","Lim HC, Zou F, Taylor SS, Marks BD, Moyle RG, Voelker G & Sheldon FH (2010) Phylogeny of magpie-Robins and shamas (Aves: Turdidae: Copsychus and Trichixos): implications for island biogeography in Southeast Asia. Journal of Biogeography, 37: 1894-906.","Meijaard E & Groves C (2004) The biogeographical evolution and phylogeny of the genus Presbytis. Primate Report, 68: 71-90.","Miller GS (1913) Fifty-one new Malayan mammals. Smithsonian Miscellaneous Collections, 61: 1-30.","Morley RJ (2012) A review of the Cenozoic palaeoclimate history of Southeast Asia. In: Gower DJ, Johnson KG, Richardson JE, Rosen BR, Ruber L & Williams ST (eds.) Biotic Evolution and Environmental Change in Southeast Asia. Cambridge University Press, Cambridge, UK. Pp. 79-114.","Morley RJ & Morley HP (2013) Mid Cenozoic freshwater wetlands of the Sunda region. Journal of Limnology, 72(s2): 18-35.","Moyle RG & Marks BD (2006) Phylogenetic relationships of the bulbuls (Aves: Pycnonotidae) based on mitochondrial and nuclear DNA sequence data. Molecular Phylogenetics and Evolution, 40: 687-695.","Moyle RG, Taylor SS, Oliveros CH, Lim HC, Haines CL, Rahman MA & Sheldon FH (2011) Diversification of an insular Southeast Asian genus: Phylogenetic relationships of the spiderhunters (Aves: Nectariniidae). Auk, 128: 777-788.","Musser G & Califia D (1982) Results of the Archbold Expeditions. No. 106. Identities of rats from Pulau Maratua and other islands off East Borneo. American Museum Novitates, 2726: 1-30.","Ng PK & Tomascik T (1994) Orcovita saltatrix, a new genus and species of anchialine varunine crab (Crustacea: Decapoda: Brachyura: Grapsidae) from Kakaban Island, Indonesia. Raffles Bulletin of Zoology, 42: 937-48.","Oliveros CH & Moyle RG (2010) Origin and diversification of Philippine bulbuls. Molecular Phylogenetics and Evolution, 54: 822-32.","Phillipps Q & Phillipps K (2011) Phillipps' Filed Guide to the Birds of Borneo, Second Edition. John Beaufoy Publishing, Oxford.","Rand AL (1970) Species formation in the blue monarch flycatchers genus Hypothymis. Natural History Bulletin of the Siam Society, 23: 353-65.","Remsen JV & Graves WS (1995) Distribution patterns and zoogeography of Atlapetes brush-finches (Emberizinae) of the Andes. Auk, 112: 210-24.","Riley JH (1930) Birds from the small islands off the northeast coast of Dutch Borneo. Proceedings of the United States National Museum, 77: 1-23.","Sheldon FH, Lim HC, Nais J, Lakim M, Tuuga A, Malim P, Majuakim J, Lo A, Schilthuizen M, Hosner PA & Moyle RG (2009) Observations on the ecology, distribution, and biogeography of forest birds in Sabah, Malaysia. Raffles Bulletin of Zoology, 57: 577-586.","Sheldon FH, Moyle RG & Kennard J (2001) Ornithology of Sabah: history, gazetteer, annotated checklist, and bibliography. Ornithological Monographs, 52: 1-285.","Smythies BE (1999) The Birds of Borneo, 4th Edition. Natural History Publications (Borneo), Kota Kinabalu, 710 pp.","Sukumaran J & Holder MT (2010) DendroPy: a Python library for phylogenetic computing. Bioinformatics, 26: 1569-1571.","Tamura K, Peterson D, Peterson N, Stecher G, Nei M & Kumar S (2011) MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. Molecular Biology and Evolution, 28: 2731-2739.","Theron E, Hawkins K, Bermingham E, Ricklefs RE & Mundy NI (2001) The molecular basis of an avian plumage polymorphism in the wild: A melanocortin-1-receptor point mutation is perfectly associated with the melanic plumage morph of the bananaquit, Coereba flaveola. Current Biology, 11: 550-557.","Tomascik T, Mah AJ, Nontji A & Moosa MK (1997) The ecology of the Indonesian seas. Part two. Chapters 13-23. Periplus, Singapore.","van Balen S (1986) Short note on the occurrence of grey phase Black-headed Bulbuls Pycnonotus atriceps especially on Java. Kukila, 2: 86-7.","Voris HK (2000) Maps of Pleistocene sea levels in Southeast Asia: shorelines, river systems and time durations. Journal of Biogeography, 27: 1153-1167.","Wells DR (2007) The Birds of the Thai-Malay Peninsula, Volume 2, Passerines. Christopher Helm, London, 800 pp.","Wilting A, Sollmann R, Meijaard E, Helgen KM & Fickel J (2012) Mentawai's endemic, relictual fauna: is it evidence for Pleistocene extinctions on Sumatra? Journal of Biogeography, 39: 1608-1620.","Zwickl DJ (2006) Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion. University of Texas, Austin, Texas. 115 pp."]}
Databáze:	OpenAIRE
Externí odkaz:	https://explore.openaire.eu/search/publication?articleId=doi_dedup___::0ff76e0132db27f516db88ed2718ab80 Zobrazit plný text záznamu