Data from: A seascape genetic analysis reveals strong biogeographical structuring driven by contrasting processes in the polyploid saltmarsh species Puccinellia maritima and Triglochin maritima.

Rouger R, Jump AS

Date Published: May 28, 2014

DOI: http://dx.doi.org/10.5061/dryad.dc56n

 

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Title Mantel test script
Description R script permitting to compute Mantel tests
Download Mantel.R (23.56 Kb)
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Title Ordination (NMDS) script
Description R script permitting to compute and plot a Nonmetric Multidimensional Scaling (NMDS) ordination
Download Ordination.R (7.776 Kb)
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Title Puccinellia maritima population assignment to DAPC regions (K=4)
Description Puccinellia maritima input file for the implementation of the AMOVA
Download P_4clusters.txt (181 bytes)
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Title Puccinellia maritima population assignment to DAPC regions (K=5)
Description Puccinellia maritima input file for the implementation of the AMOVA
Download P_5clusters.txt (183 bytes)
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Title Puccinellia maritima population assignment to DAPC regions (K=6)
Description Puccinellia maritima input file for the implementation of the AMOVA
Download P_6clusters.txt (181 bytes)
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Title Puccinellia maritima AMOVA script
Description R script permitting to compute AMOVA for Puccinellia maritima
Download P_amova.R (2.386 Kb)
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Title Puccinellia maritima samples assignment to population of origin
Description Puccinellia maritima input file for the implementation of the AMOVA
Download P_Populationdata.txt (17.98 Kb)
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Title Puccinellia maritima DAPC script
Description R script permitting to compute DAPC for Puccinellia maritima
Download P_Script DAPC.R (3.196 Kb)
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Title Coastal distance between Puccinellia maritima populations
Description Matrix showing coastal distance between Puccinellia maritima populations
Download Pdistcoast.txt (1.216 Kb)
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Title Puccinellia maritima microsatellite dataset
Description Individuals are in row, microsatellite alleles in columns. Microsatellite alleles are coded as present or absent (1/0) in each individuals. NA for missing data.
Download Pglobalpopgenbin.txt (163.5 Kb)
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Title Pairwise effective resistance between Puccinellia maritima population (TIDE model)
Description Matrix of pairwise effective resistance (TIDE model) between Puccinellia maritima population inferred using the software Circuitscape. This matrix is inputted in R for Mantel test.
Download Pres_100_linear_buffer.txt (1.851 Kb)
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Title Pairwise effective resistance between Puccinellia maritima population (SEDCELLS model)
Description Matrix of pairwise effective resistance (SEDCELLS model) between Puccinellia maritima population inferred using the software Circuitscape. This matrix is inputted in R for Mantel test.
Download Pres_100_sedcells_buffer.txt (1.851 Kb)
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Title Pairwise effective resistance between Puccinellia maritima population (TIDE_SEDCELLS model)
Description Matrix of pairwise effective resistance (TIDE_SEDCELLS model) between Puccinellia maritima population inferred using the software Circuitscape. This matrix is inputted in R for Mantel test.
Download Pres_100_sedcells_linear_buffer.txt (1.851 Kb)
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Title Triglochin maritima population assignment to DAPC regions (K=4)
Description Triglochin maritima input file for the implementation of the AMOVA
Download T_4 clusters.txt (169 bytes)
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Title Triglochin maritima population assignment to DAPC regions (K=5)
Description Triglochin maritima input file for the implementation of the AMOVA
Download T_5 clusters.txt (169 bytes)
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Title Triglochin maritima population assignment to DAPC regions (K=6)
Description Triglochin maritima input file for the implementation of the AMOVA
Download T_6 clusters.txt (169 bytes)
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Title Triglochin maritima AMOVA script
Description R script permitting to compute AMOVA for Triglochin maritima
Download T_amova.R (2.391 Kb)
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Title Triglochin maritima samples assignment to population of origin
Description Triglochin maritima input file for the implementation of the AMOVA
Download T_Populationdata.txt (15.23 Kb)
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Title Triglochin maritima DAPC script
Description R script permitting to compute DAPC for Triglochin maritima
Download T_Script DAPC.R (3.293 Kb)
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Title Coastal distance between Triglochin maritima populations
Description Matrix showing coastal distance between Triglochin maritima populations
Download Tdistcoast.txt (1.477 Kb)
Details View File Details
Title Triglochin maritima microsatellite dataset
Description Individuals are in row, microsatellite alleles in columns. Microsatellite alleles are coded as present or absent (1/0) in each individuals. NA for missing data.
Download Tglobalpopgenbin.txt (149.9 Kb)
Details View File Details
Title Pairwise effective resistance between Triglochin maritima population (TIDE model)
Description Matrix of pairwise effective resistance (TIDE model) between Triglochin maritima population inferred using the software Circuitscape. This matrix is inputted in R for Mantel test.
Download Tres_100_linear_buffer.txt (1.616 Kb)
Details View File Details
Title Pairwise effective resistance between Triglochin maritima population (SEDCELLS model)
Description Matrix of pairwise effective resistance (SEDCELLS model) between Triglochin maritima population inferred using the software Circuitscape. This matrix is inputted in R for Mantel test.
Download Tres_100_sedcells_buffer.txt (1.616 Kb)
Details View File Details
Title Pairwise effective resistance between Triglochin maritima population (TIDE_SEDCELLS model)
Description Matrix of pairwise effective resistance (TIDE_SEDCELLS model) between Triglochin maritima population inferred using the software Circuitscape. This matrix is inputted in R for Mantel test.
Download Tres_100_sedcells_linear_buffer.txt (1.616 Kb)
Details View File Details

When using this data, please cite the original publication:

Rouger R, Jump AS (2014) A seascape genetic analysis reveals strong biogeographical structuring driven by contrasting processes in the polyploid saltmarsh species Puccinellia maritima and Triglochin maritima. Molecular Ecology 23(13): 3158–3170. http://dx.doi.org/10.1111/mec.12802

Additionally, please cite the Dryad data package:

Rouger R, Jump AS (2014) Data from: A seascape genetic analysis reveals strong biogeographical structuring driven by contrasting processes in the polyploid saltmarsh species Puccinellia maritima and Triglochin maritima. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.dc56n
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