sparrow_populations — House sparrow island population differentiation (2014)
- Description
Weighted network of genetic differentiation among the house sparrow (Passer domesticus) populations of 15 islands of an insular metapopulation off the coast of northern Norway, from the study of H. T. Baalsrud and collaborators on effective population sizes (genotypes deposited in the Dryad repository). The data were compiled by M. Cantor and collaborators for a study of nestedness across levels of biological organization, and are distributed in the repository of that study (file
mep_sparrow_Rst.txt). Nodes are populations, and an undirected edge connects every pair of populations (the network is a complete graph), weighted by their pairwise genetic differentiation RST (Slatkin, 1995), computed from the variance of microsatellite allele sizes (13 nuclear, selectively neutral microsatellite loci). RST is 0 for genetically identical populations and grows with differentiation; small negative values arise from sampling error. Note that the documentation of the source describes the weights as the genetic similarity 1 - RST, but the file contains RST itself (with zeros on the diagonal). The populations are not identified in the source data.The edges have the property
weight, the pairwise RST.
- Tags
- Biological Genetic Weighted
- Citation
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- H. T. Baalsrud, B.-E. Sæther, I. J. Hagen, A. M. Myhre, T. H. Ringsby, H. Pärn, H. Jensen, "Effects of population characteristics and structure on estimates of effective population size in a house sparrow metapopulation." Molecular Ecology 23, 2653-2668 (2014) 10.1111/mec.12770 Sci-Hub
- H. T. Baalsrud et al., "Data from: Effects of population characteristics and structure on estimates of effective population size in a house sparrow metapopulation." Dryad Digital Repository (2014) 10.5061/dryad.nb260 Sci-Hub
- M. Slatkin, "A measure of population subdivision based on microsatellite allele frequencies." Genetics 139(1), 457-462 (1995) 10.1093/genetics/139.1.457 Sci-Hub
- M. Cantor, M. M. Pires, F. M. D. Marquitti, R. L. G. Raimundo, E. Sebastián-González, P. P. Coltri, S. I. Perez, D. R. Barneche, D. Y. C. Brandt, K. Nunes, F. G. Daura-Jorge, S. R. Floeter, P. R. Guimarães Jr., "Nestedness across biological scales." PLoS ONE 12(2), e0171691 (2017) 10.1371/journal.pone.0171691 Sci-Hub
- Upstream URL OK
- https://bitbucket.org/maucantor/unodf_analyses
- Networks
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Tip: hover over a column header for a description.
Column legend
- $\left<k\right>$
- Mean degree
- $\sigma_k$
- Standard deviation of the degrees
- $\lambda_h$
- Largest eigenvalue of the Hashimoto (non-backtracking) matrix
- $\tau$
- Random walk mixing time
- $r$
- Degree assortativity
- $c$
- Global clustering coefficient
- $\oslash$
- (Pseudo-) diameter
- $S$
- Relative size of the largest component
- NPs
- Node properties
- EPs
- Edge properties