Data from: Leap-frog dispersal and mitochondrial introgression: phylogenomics and biogeography of Limnonectes fanged frogs in the Lesser Sundas Archipelago of Wallacea

Reilly SB, Stubbs AL, Karin BR, Bi K, Arida E, Iskandar DT, McGuire JA

Date Published: February 28, 2019

DOI: https://doi.org/10.5061/dryad.nk1mt6b

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Title Limnonectes 16S mitochondrial DNA alignment
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Description 16S mitochondrial DNA alignment for Limnonectes kadarsani, L. dammermani, and L. microdiscus.
Download Limnonectes_16S.nex (139.7 Kb)
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Title Limnonectes Exon-Capture alignment
Downloaded 3 times
Description A concatenated phylip alignment file of 974 genes (exons+introns) for Limnonectes kadarsani, L. dammermani, and L. microdiscus. These data were collected using MYbaits in-solution exon-capture experiment.
Download Limno_Exon-Capture.phylip (59.32 Mb)
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Title ASTRAL Input Trees
Downloaded 5 times
Description Individual RAxML phylogenies for 974 genes that are used as the input for the summary coalescent software ASTRAL-II.
Download Limno_TF_refined_ASTRAL_input.tre (2.816 Mb)
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Title G-PhoCS Input File
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Description Individual alignments for the flanking regions (introns) of 659 genes used as the input file for demographic analyses performed by the software G-PhoCS.
Download Limno_GPhocsInput.aln (34.37 Mb)
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Title Scaled Distances for BioGeoBears analysis
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Description Scaled geographic distances between islands or island regions for biogeographical model testing analyses in BioGeoBears.
Download geographic-distances-scaled.txt (147 bytes)
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Title Defined areas for BioGeoBears
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Description The defined islands or island regions used in biogeographical model testing analyses for BioGeoBears.
Download geographicAreas.txt (172 bytes)
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Title Guide tree for BioGeoBears
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Description An ultrametric tree of the relationships between major clades of Limnonectes from the Lesser Sundas used as a guide tree for biogeographical model testing analyses in BioGeoBears.
Download clade-tree-ultrametric.tre (287 bytes)
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Title BioGeoBears Model 1
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Description The stepping-stone model tested in BioGeoBears.
Download model1-steppingstone.txt (249 bytes)
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Title BioGeoBears Model 2
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Description The BioGeoBears model allowing stepping-stone plus one leap-frog dispersals.
Download model2-steppingstone+1leapfrog.txt (185 bytes)
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Title BioGeoBears Model 3
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Description The BioGeoBears model allowing stepping-stone plus one or two leap-frog dispersals.
Download model3-steppingstone+1leapfrog+2leapfrog.txt (137 bytes)
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Title BioGeoBears Model 4
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Description The BioGeoBears model allowing stepping-stone plus up to three leap-frog dispersals.
Download model4-steppingstone+1leapfrog+2leapfrog+...og.txt (105 bytes)
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Title BioGeoBears Model 5
Downloaded 4 times
Description The BioGeoBears model allowing stepping-stone plus up to four leap-frog dispersals.
Download model5-steppingstone+1leapfrog+2leapfrog+...og.txt (89 bytes)
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When using this data, please cite the original publication:

Reilly SB, Stubbs AL, Karin BR, Bi K, Arida E, Iskandar DT, McGuire JA (2019) Leap‐frog dispersal and mitochondrial introgression: Phylogenomics and biogeography of Limnonectes fanged frogs in the Lesser Sundas Archipelago of Wallacea. Journal of Biogeography 46(4): 757-769. https://doi.org/10.1111/jbi.13526

Additionally, please cite the Dryad data package:

Reilly SB, Stubbs AL, Karin BR, Bi K, Arida E, Iskandar DT, McGuire JA (2019) Data from: Leap-frog dispersal and mitochondrial introgression: phylogenomics and biogeography of Limnonectes fanged frogs in the Lesser Sundas Archipelago of Wallacea. Dryad Digital Repository. https://doi.org/10.5061/dryad.nk1mt6b
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