Data from: Local endemism and within-island diversification of shrews illustrate the importance of speciation in building Sundaland mammal diversity

Demos TC, Achmadi AS, Giarla TC, Handika H, Maharadatunkamsi, Rowe KC, Esselstyn JA

Date Published: August 24, 2016

DOI: http://dx.doi.org/10.5061/dryad.362pt

 

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Title Cytochrome-b_unique_haplotypes
Downloaded 4 times
Description Nexus file containing 114 unique haplotypes of cytochrome b from Sunda shelf shrews. This alignment was used to generate the gene trees in Figure 2.
Download Cytochrome-b_unique_haplotypes.nex (138.2 Kb)
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Title ApoB alignment
Downloaded 4 times
Description Nexus file containing phased alleles from ApoB sequences of Sunda shelf Crocidura. This alignment was used to generate the gene trees in Figures S1 and S2.
Download ApoBphased_all_sequences.nex (329.3 Kb)
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Title BDNF alignment
Downloaded 3 times
Description Nexus file containing phased alleles from BDNF sequences of Sunda shelf Crocidura. This alignment was used to generate the gene trees in Figures S1 and S2.
Download BDNFphased_all_sequences.nex (255.3 Kb)
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Title BRCA sequences
Downloaded 2 times
Description Nexus file containing phased alleles from BDNF sequences of Sunda shelf Crocidura. This alignment was used to generate the gene trees in Figures S1 and S2
Download BRCA sequences.nex (340.2 Kb)
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Title GHR sequences
Downloaded 3 times
Description Nexus file containing phased alleles from GHR sequences of Sunda shelf Crocidura. This alignment was used to generate the gene trees in Figures S1 and S2
Download GHR sequences.nex (328.6 Kb)
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Title MCGF sequences
Downloaded 1 time
Description Nexus file containing phased alleles from MCGF sequences of Sunda shelf Crocidura. This alignment was used to generate the gene trees in Figures S1 and S2
Download MCGF sequences.nex (342.1 Kb)
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Title PTGER sequences
Downloaded 2 times
Description Nexus file containing phased alleles from PTGER sequences of Sunda shelf Crocidura. This alignment was used to generate the gene trees in Figures S1 and S2
Download PTGER sequences.nex (291.3 Kb)
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Title RAG1 sequences
Downloaded 2 times
Description Nexus file containing phased alleles from RAG1 sequences of Sunda shelf Crocidura. This alignment was used to generate the gene trees in Figures S1 and S2
Download RAG1 sequences.nex (343.1 Kb)
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Title vWF sequences
Downloaded 2 times
Description Nexus file containing phased alleles from vWF sequences of Sunda shelf Crocidura. This alignment was used to generate the gene trees in Figures S1 and S2
Download vWF sequences.nex (385.9 Kb)
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Title ApoB sequences 2
Downloaded 4 times
Description Nexus file containing phased alleles from ApoB sequences of Sunda shelf Crocidura. This alignment was used to generate the species tree in Fig. 3.
Download ApoBphased_reduced.nex (121.9 Kb)
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Title BDNF sequences 2
Downloaded 3 times
Description Nexus file containing phased alleles from BDNF sequences of Sunda shelf Crocidura. This alignment was used to generate the species tree in Fig. 3.
Download BDNF sequences 2.nex (95.63 Kb)
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Title BRCA sequences 2
Downloaded 2 times
Description Nexus file containing phased alleles from BRCA sequences of Sunda shelf Crocidura. This alignment was used to generate the species tree in Fig. 3.
Download BRCA sequences 2.nex (124.0 Kb)
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Title GHR sequences 2
Downloaded 2 times
Description Nexus file containing phased alleles from GHR sequences of Sunda shelf Crocidura. This alignment was used to generate the species tree in Fig. 3.
Download GHR sequences 2.nex (128.1 Kb)
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Title MCGF sequences 2
Downloaded 3 times
Description Nexus file containing phased alleles from MCGF sequences of Sunda shelf Crocidura. This alignment was used to generate the species tree in Fig. 3.
Download MCGF sequences 2.nex (129.3 Kb)
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Title PTGER sequences 2
Downloaded 1 time
Description Nexus file containing phased alleles from PTGER sequences of Sunda shelf Crocidura. This alignment was used to generate the species tree in Fig. 3.
Download PTGER sequences 2.nex (126.5 Kb)
Details View File Details
Title RAG1 sequences 2
Description Nexus file containing phased alleles from RAG1 sequences of Sunda shelf Crocidura. This alignment was used to generate the species tree in Fig. 3.
Download RAG1 sequences 2.nex (132.6 Kb)
Details View File Details
Title vWF sequences 2
Description Nexus file containing phased alleles from vWF sequences of Sunda shelf Crocidura. This alignment was used to generate the species tree in Fig. 3.
Download vWF sequences 2.nex (146.3 Kb)
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When using this data, please cite the original publication:

Demos TC, Achmadi AS, Giarla TC, Handika H, Maharadatunkamsi, Rowe KC, Esselstyn JA (2016) Local endemism and within-island diversification of shrews illustrate the importance of speciation in building Sundaland mammal diversity. Molecular Ecology 25(20): 5158–5173. http://dx.doi.org/10.1111/mec.13820

Additionally, please cite the Dryad data package:

Demos TC, Achmadi AS, Giarla TC, Handika H, Maharadatunkamsi, Rowe KC, Esselstyn JA (2016) Data from: Local endemism and within-island diversification of shrews illustrate the importance of speciation in building Sundaland mammal diversity. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.362pt
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