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Correspondence to S. Kathleen Lyons.

Extended data figures and tables

Extended Data Figure 1 Results from subsetting analyses rarefying to 20 sites instead of 10 as done by Telford et al.1

ad, Datasets are US desert rodents (a), Holocene mammals (b), 1,000-year-old North American pollen (c) and 1950 Wisconsin understory vegetation (d). Lines indicate a significant linear regression at P < 0.05. Panels without lines are non-significant.

Extended Data Figure 2 Box plots showing the number of sites and proportion of aggregated species pars with the data stratified into three groups: Deep Time (>1 million years ago Ma; n = 29 data sets), Shallow Time (1 million–100 years ago; n = 24), and Modern (<100 years ago; n = 46).

Deep Time and Modern datasets each differ significantly in the number of sites compared to Shallow time, but Deep Time and Modern datasets do not differ significantly from one another (left; P = 0.37). By contrast, there is a significant difference between Deep Time and Modern datasets in the proportion of aggregated species pairs (P < 0.01). Even if there is an effect of sample size on pairs analysis, it cannot explain our previous findings2

Extended Data Table 1 Results of break-point analysis and ANOVAs showing a consistent difference in the proportion of aggregated pairs in modern versus fossil data sets and a consistent Holocene break point

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Lyons, S., Miller, J., Amatange, K. et al. Lyons et al. reply. Nature 538, E3–E4 (2016).

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