10.5061/DRYAD.GN1V3
Deiner, Kristy
California Academy of Sciences
University of California, Davis
Lemmon, Alan R.
Florida State University
Mack, Andrew L.
Carnegie Museum of Natural History
Fleischer, Robert C.
Smithsonian Institution
Dumbacher, John P.
California Academy of Sciences
Smithsonian Institution
Data from: A passerine bird's evolution corroborates the geologic
history of the island of New Guinea
Dryad
dataset
2011
6 million years ago to present
Colluricincla megarhyncha
6 million year ago to present
2011-05-05T18:52:11Z
2011-05-05T18:52:11Z
en
https://doi.org/10.1371/journal.pone.0019479
795369 bytes
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CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
New Guinea is a biologically diverse island, with a unique geologic
history and topography that has likely played a role in the evolution of
species. Few island-wide studies, however, have examined the
phylogeographic history of lowland species. The objective of this study
was to examine patterns of phylogeographic variation of a common and
widespread New Guinean bird species (Colluricincla megarhyncha).
Specifically, we test the mechanisms hypothesized to cause geographic and
genetic variation (e.g., vicariance, isolation by distance and
founder-effect with dispersal). To accomplish this, we surveyed three
regions of the mitochondrial genome and a nuclear intron and assessed
differences among 23 of the 30 described subspecies from throughout their
range. We found support for eight highly divergent lineages within C.
megarhyncha. Genetic lineages were found within continuous lowland habitat
or on smaller islands, but all individuals within clades were not
necessarily structured by predicted biogeographic barriers. There was some
evidence of isolation by distance and potential founder-effects.
Mitochondrial DNA sequence divergence among lineages was at a level often
observed among different species or even genera of birds (5-11%),
suggesting lineages within regions have been isolated for long periods of
time. When topographical barriers were associated with divergence
patterns, the estimated divergence date for the clade coincided with the
estimated time of barrier formation. We also found that dispersal distance
and range size are positively correlated across lineages. Evidence from
this research suggests that different phylogeographic mechanisms
concurrently structure lineages of C. megarhyncha and are not mutually
exclusive. These lineages are a result of evolutionary forces acting at
different temporal and spatial scales concordant with New Guinea’s
geological history.
C_megar_mtDNAlignmentThis is a sequence alignment of concatenated mtDNA
genes used for estimating the maximum likelihood
tree.C_megar_nDNAphasedalignmentThis is a sequence alignment of phase data
from the AR35 nuclear gene.C_megar_mtDNA_ArlequinInput file used for
analysis in Arlequin with population structure
section.C_megar_nDNA_ArlequinInput file used for analysis in
Arlequin.C_megar_mtDNA_networkInput file used for estimating haplotype
network.C_megar_nDNA_networkInput file used for estimating the nuclear
allele network.C_megar_mtDNABestTreePhylomapperTree used for estimation of
evolution in dispersal distance.C_megar_Locations_phylomapperLatitude and
longitude positions of each sample used for estimation of evolution in
dispersal distances.BB_SPBRaw sequence data that was used to phase nuclear
alleles. These are for the basins Bintuni and South Papua.CapeVRaw
sequence data that was used to phase nuclear alleles. These are for the
basin Cape Vogel.EIRaw sequence data that was used to phase nuclear
alleles. These are for the eastern islands.MBRaw sequence data that was
used to phase nuclear alleles. These are for the basin Meervlakte.SPPRaw
sequence data for nuclear alleles that were phased. The are sequences from
the basin South Papuan Peninsula.SRBRaw sequence data for nuclear alleles
that were phased. The are sequences from the basin Sepik Ramu.TFRaw
sequence data for nuclear alleles that were phased. The are sequences from
the basin Trans-fly.READMEFILEThis readme file describes all the data
files in this package. It is also available for download alongside each
file.
New Guinea