Data from: Defining spatial and temporal patterns of phylogeographic structure in Madagascar's iguanid lizards (Genus Oplurus)

 

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Title BEAST infile for Iguania ND1 data
Downloaded 21 times
Description XML formatted infile for fossil calibrated analysis of Iguania ND1 data in BEAST
Download ND1yule01.xml (52.61 Kb)
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Title *BEAST infile for Species Tree Estimation of Subset A
Downloaded 23 times
Description XML formated infile for species tree estimation of subset A dataset in *BEAST. Includes ND1, ND1 flanking regions, PRLR, and UBN1 sequences.
Download subA01.xml (237.7 Kb)
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Title *BEAST infile for Species Tree Estimation of Subset B
Downloaded 16 times
Description XML formated infile for species tree estimation of subset B dataset in *BEAST. Includes ND1, ND1 flanking regions, PRLR, and UBN1 sequences.
Download subB01.xml (192.3 Kb)
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Title BEAST infile for Oplurus cuvieri, constant pop size
Downloaded 11 times
Description XML formated infile for estimation of Oplurus cuvieri gene tree and divergence times in BEAST 1.6.2. Includes sequence data for ND1 and ND1 flanking regions and assumes constant population size model.
Download ocuvND1con02b.xml (72.70 Kb)
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Title BEAST infile for Oplurus cuvieri, exponential growth
Downloaded 15 times
Description XML formated infile for estimation of Oplurus cuvieri gene tree and divergence times in BEAST 1.6.2. Includes sequence data for ND1 and ND1 flanking regions and assumes exponential growth model.
Download ocuvND1exp02b.xml (73.32 Kb)
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Title BEAST infile for Oplurus cyclurus, constant pop size
Downloaded 18 times
Description XML formated infile for estimation of Oplurus cyclurus gene tree and divergence times in BEAST 1.6.2. Includes sequence data for ND1 and ND1 flanking regions and assumes constant growth model.
Download ocycND1con_ucld02b.xml (64.01 Kb)
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Title BEAST infile for Oplurus cyclurus, exponential growth
Downloaded 13 times
Description XML formated infile for estimation of Oplurus cyclurus gene tree and divergence times in BEAST 1.6.2. Includes sequence data for ND1 and ND1 flanking regions and assumes exponential growth model.
Download ocycND1exp_ucld02b.xml (64.64 Kb)
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Title BEAST infile for Oplurus cuvieri, Watershed Model Zone 8
Downloaded 15 times
Description XML formated infile for extended Bayesian skyline plot analysis of Oplurus cuvieri from watershed model (Wilme et al. 2006) Zone 8 in BEAST 1.6.2. Includes sequence data for ND1, ND1 flanking regions, PRLR, and UBN1.
Download cuvWilmeZ8a.xml (163.1 Kb)
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Title BEAST infile for Oplurus cyclurus, Watershed Model Zone 6
Downloaded 14 times
Description XML formated infile for extended Bayesian skyline plot analysis of Oplurus cyclurus from watershed model (Wilme et al. 2006) Zone 6 in BEAST 1.6.2. Includes sequence data for ND1, ND1 flanking regions, PRLR, and UBN1.
Download ocycWilmeZ6a.xml (81.42 Kb)
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Title BEAST infile for Oplurus cyclurus, Watershed Model Zone E
Downloaded 16 times
Description XML formated infile for extended Bayesian skyline plot analysis of Oplurus cyclurus from watershed model (Wilme et al. 2006) Zone E in BEAST 1.6.2. Includes sequence data for ND1, ND1 flanking regions, PRLR, and UBN1.
Download ocycWilmeZEa.xml (94.43 Kb)
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Title ND1 alignment
Downloaded 20 times
Description Alignment of sequence data for ND1 and ND1 flanking regions from all oplurine taxa included in this study.
Download oplurineND1.nex (104.1 Kb)
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Title PRLR alignment
Downloaded 17 times
Description Alignment of sequence data for PRLR from all oplurine taxa included in this study. Alleles were determined either through TA cloning or computationally using the program PHASE.
Download oplurinePRLR.nex (85.64 Kb)
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Title UBN1 alignment
Downloaded 21 times
Description Alignment of sequence data for UBN1 from all oplurine taxa included in this study. Alleles were determined either through TA cloning or computationally using the program PHASE.
Download oplurineUBN1.nex (114.9 Kb)
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When using this data, please cite the original publication:

Chan LM, Choi D, Raselimanana AP, Rakotondravony HA, Yoder AD (2012) Defining spatial and temporal patterns of phylogeographic structure in Madagascar's iguanid lizards (Genus Oplurus). Molecular Ecology 21(15): 3839–3851. http://dx.doi.org/10.1111/j.1365-294X.2012.05651.x

Additionally, please cite the Dryad data package:

Chan LM, Choi D, Raselimanana AP, Rakotondravony HA, Yoder AD (2012) Data from: Defining spatial and temporal patterns of phylogeographic structure in Madagascar's iguanid lizards (Genus Oplurus). Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.27q72
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