Supplementary Materials

Assemblage Time Series Reveal Biodiversity Change but Not Systematic Loss

Maria Dornelas, Nicholas J. Gotelli, Brian McGill, Hideyasu Shimadzu, Faye Moyes, Caya Sievers, Anne E. Magurran

Materials/Methods, Supplementary Text, Tables, Figures, and/or References

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  • Materials and Methods
  • Figs. S1 to S10
  • Table S1
  • Captions for databases S1 and S2
  • Supplementary References
Database S1
α diversity indices: All indices were calculated for pooled samples after sample-based rarefaction. We report the mean value out of 100 rarefaction bootstraps. Variable definition: ID, numerical variable identifying a survey; Year, year samples were collected; S species richness; varS variance in species richness among samples; N summed abundances for all species in pooled samples; varN variance among samples in summed abundances for all species; SsqrtN, species richness divided by the square root of total summed abundances; PIE probability of interspecific encounter; DomMc McNaughton dominance; expShannon exponential of Shannon diversity (also known as the Hill Number 1D; Chao, Chao1 asymptotic species richness estimator; Chao2 bias corrected Chao1.
Database S2
β diversity indices: All indices were calculated for pooled samples after sample-based rarefaction. We report the mean value out of 100 rarefaction bootstraps. Variable definition: ID, numerical variable identifying a survey; Year, year samples were collected; Jaccard_B is the Jaccard similarity between the year’s pooled samples and the pooled sample of the first year in the time series (the time series baseline); Horn_B similar to Jaccard_B but using Morisita-Horn distance; Chao_B, as before but using Chao distance; Pearson_B as before but using Pearson correlation