Ancient mitochondrial genome reveals unsuspected taxonomic affinity of the extinct Chatham duck (Pachyanas chathamica) and resolves divergence times for New Zealand and sub-Antarctic brown teals

Molecular Phylogenetics and Evolution

Volumn 70, Issue 1, 2014, Pages 420-428

  Mitchell, Kieren J ^a   Wood, Jamie R ^b   Scofield, R Paul ^c   Llamas, Bastien ^a   Cooper, Alan ^a  

^a UNIVERSITY OF ADELAIDE   (Australia)

^b LANDCARE RESEARCH   (New Zealand)

^c CANTERBURY MUSEUM   (New Zealand)

Author keywords

Anas; Ancient DNA; Chatham Islands; Ducks; Extinct; Fossil

Indexed keywords

ANAS; ANAS AUCKLANDICA; ANAS CHLOROTIS; ANAS NESIOTIS; AVES;

ANCIENT DNA; MITOCHONDRIAL DNA;

ANAS; ANIMAL; ANTARCTICA; ARTICLE; CHATHAM ISLANDS; CLASSIFICATION; DNA SEQUENCE; DUCK; EXTINCT; FEMALE; FOSSIL; GENETICS; HUMAN; ISLAND (GEOLOGICAL); MITOCHONDRIAL GENOME; NEW ZEALAND; PHYLOGENY; PHYLOGEOGRAPHY;

ANAS; ANCIENT DNA; CHATHAM ISLANDS; DUCKS; EXTINCT; FOSSIL;

ANIMALS; ANTARCTIC REGIONS; DNA, MITOCHONDRIAL; DUCKS; FEMALE; FOSSILS; GENOME, MITOCHONDRIAL; HUMANS; ISLANDS; NEW ZEALAND; PHYLOGENY; PHYLOGEOGRAPHY; SEQUENCE ANALYSIS, DNA;

EID: 84888198112     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2013.08.017     Document Type: Article

References (44)

1. Bock W.J. Secondary articulation of the avian mandible. The Auk 1960, 77:19-55.
2. Campbell H.J. Geology, Chatham Islands: Heritage and Conservation 2008, Canterbury University Press, Christchurch.
3. Campbell H.J., Hutching G.D. In search of ancient New Zealand 2007, Penguin Books and GNS Science, Auckland.
4. Campbell K.E.J., Marcus L. The relationship of hindlimb bone dimensions to body weight in birds. Papers in Avian Paleontology Honoring Pierce Brodkorb 1992, 395-412. Natural History Museum of Los Angeles County, Los Angeles. K.E. Campbell (Ed.).
5. Campbell H.J., Andrews P.B., Beu A.G., Edwards A.R., Hornibrook N.d., Laird M.G., Maxwell P.A., Watters W.A. Cretaceous-Cenozoic lithostratigraphy of the Chatham Islands. Journal of the Royal Society of New Zealand 1988, 18:285-308.
6. Campbell H.J., Begg J., Beu A., Carter B., Curtis N., Davies G., Emberson R., Given D., Goldberg J., Holt K., Hoernli K., Malahoff A., Mildenhall D., Landis C., Paterson A., Trewick S. Geological considerations relating to the Chatham Islands, mainland New Zealand, and the history of New Zealand terrestrial life 2008, 126. Geological Society of New Zealand Miscellaneous Publication.
7. Clegg, S.M., Owens, I.P.F., 2002. The 'Island Rule' in Birds: Medium Body Size and Its Ecological Explanation. In: Proceedings: Biological Sciences, vol. 269, pp. 1359-1365.
8. Daugherty C.H., Williams M., Hay J.M. Genetic differentiation, taxonomy and conservation of Australasian teals Anas spp. Bird Conservation International 1999, 9:29-42.
9. Dickinson E.C., Remsen J.V. The Howard and Moore Complete Checklist of Birds of the World 2013, Aves Press. fourth ed.
10. Drummond A.J., Rambaut A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology 2007, 7.
11. Drummond A.J., Ho S.Y.W., Phillips M.J., Rambaut A. Relaxed phylogenetics and dating with confidence. PLoS Biology 2006, 4:699-710.
12. Fleming C.A., Mildenhall D.C., Moar N.T. Quaternary sediments and plant microfossils from Enderby Island, Auckland Islands. Journal of the Royal Society of New Zealand 1976, 6:433-458.
13. Forbes H.O. A list of birds inhabiting the Chatham Islands. Ibis 1983, 6:521-546.
14. Gill F., Wright M. Birds of the World: Recommended English Names 2006, Princeton University Press, Princeton, New Jersey.
15. Gonzalez J., Duttmann H., Wink M. Phylogenetic relationships based on two mitochondrial genes and hybridization patterns in Anatidae. Journal of Zoology 2009, 279:310-318.
16. Grindley G.W., Adams C.J.D., Lumb J.T., Watters W.A. Paleomagnetism, K-Ar dating and tectonic interpretation of Upper Cretaceous and Cenozoic volcanic rocks of the Chatham Islands, New Zealand. New Zealand Journal of Geology and Geophysics 1977, 20:425-467.
17. Hall K. Quaternary glaciation of the sub-Antarctic Islands. Developments in Quaternary Sciences 2004, 339-345. Elsevier. J. Ehlers, P.L. Gibbard (Eds.).
18. Hay R.F., Mutch A.R., Watters W.A. Geology of the Chatham Islands. New Zealand Geological Survey Bulletin, New Series 1970, 83:1-86.
19. Heenan P.B., Mitchell A.D., de Lange P.J., Keeling J., Paterson A.M. Late-Cenozoic origin and diversification of Chatham Islands endemic plant species revealed by analyses of DNA sequence data. New Zealand Journal of Botany 2010, 48:83-136.
20. Ho S.Y.W. Calibrating molecular estimates of substitution rates and divergence times in birds. Journal of Avian Biology 2007, 38:409-414.
21. Hume J.P., Steel L. Fight club: a unique weapon in the wing of the solitaire, Pezophaps solitaria (Aves: Columbidae), an extinct flightless bird from Rodrigues, Mascarene Islands. Biological Journal of the Linnean Society 2013.
22. Kear J. Ducks Geese and Swans: General Chapters. Special accounts (Anhima to Salvadorina) 2005, vol. 1. Oxford University Press, Oxford.
23. Kennedy M., Spencer H.G. Phylogeny, Biogeography, and Taxonomy of Australasian Teals. The Auk 2000, 117:154-163.
24. Lanfear R., Calcott B., Ho S.Y., Guindon S. PartitionFinder: combined selection of partitioning schemes and substitution. Molecular Biology and Evolution 2012, 29:1537-1719.
25. Livezey B.C. A phylogenetic analysis of modern sheldgeese and shelducks (Anatidae, Tadornini). Ibis 1997, 139:51-66.
26. Livezey B.C., Humphrey P.S. Territoriality and interspecific aggression in Steamer-Ducks. The Condor 1985, 87:154-157.
27. Livezey B.C., Humphrey P.S. Flightlessness in Steamer-Ducks (Anatidae: tachyeres): its morphological bases and probable evolution. Evolution 1986, 40:540-558.
28. Lomolino M.V. Body size evolution in insular vertebrates: generality of the island rule. Journal of Biogeography 2005, 32:1683-1699.
29. McGlone M.S., Moar N.T., Wardle P., Meurk C.D. Late-glacial and Holocene vegetation and environment of Campbell Island, far southern New Zealand. The Holocene 1997, 7:1-12.
30. McGlone M.S., Wilmshurst J.M., Wiser S.K. Lateglacial and Holocene vegetation and climatic change on Auckland Island, Subantarctic New Zealand. Holocene 2000, 10:719-728.
31. Meyer M., Kircher M. Illumina Sequencing Library Preparation for Highly Multiplexed Target Capture and Sequencing 2010, Cold Spring Harbor Protocols.
32. Millener, P.R., 1999. The history of the Chatham Islands' bird fauna of the last 7000years - a chronicle of change and extinction. Avian paleontology at the close of the 20th century. In: Proceedings of the 4th International meeting of the Society of Avian Paleontology and Evolution. Smithsonian Institution Press, Washington DC, pp. 85-109.
33. Nuechterlein G.L., Storer R.W. Aggressive behavior and interspecific killing by flying Steamer-Ducks in Argentina. The Condor 1985, 87:87-91.
34. Oliver, W.R.B., 1955. New Zealand birds. second ed., Wellington.
35. Robertson B.C., Goldstein S.J. Phylogenetic affinities of the New Zealand blue duck (Hymenolaimus malacorhynchos). Notornis 2012, 59:49-59.
36. Rohland N., Hofreiter M. Ancient DNA extraction from bones and teeth. Nature Protocols 2007, 2:1756-1762.
37. Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 2006, 22:2688-2690.
38. Tennyson A.J.D., Martinson P. Extinct Birds of New Zealand 2006, Te Papa Press, Wellington.
39. Tennyson A.J.D., Millener P.R. Bird extinctions and fossil bones from Mangere Island, Chatham Islands. Notornis 1994, 41:165-178.
40. Travers W.T.L. On the Chatham Islands. Transactions and Proceedings of the New Zealand Institute 1868, 1:173-180.
41. Travers H.H., Travers W.T.L. On the birds of the Chatham Islands, with introductory remarks on the avi-fauna and flora of the islands in their relation to those of New Zealand. Transactions and Proceedings of the New Zealand Institute 1872, 5:212-222.
42. Worthy, T.H., 2010. Anseriformes. Checklist Committee (OSNZ)., 2010. Checklist of the Birds of New Zealand, Norfolk and Macquarie Islands and the Ross Dependency, Antarctica, fourth ed., Ornithological Society of New Zealand & Te Papa Press, Wellington.
43. Worthy T.H., Holdaway R.N. The Lost World of the Moa: Prehistoric Life of New Zealand 2002, Indiana University Press/Canterbury University Press, Bloomington/Christchurch.
44. Zelenkov N.V., Kurochkin E.N. Dabbling ducks (Aves: Anatidae) from the Middle Miocene of Mongolia. Paleontological Journal 2012, 46:421-429.