Sampling and sequencing
Daphnia populations were collected from 13 lakes in the South Island and 1 lake in the North Island, NZ in March and October 2019 (Fig. 1). In each location, Daphnia were sampled by tows of a conical plankton net and preserved in DNA/RNA Shield. DNA from each pooled population sample (50-200 individuals) was extracted with Zymo DNA Clean and Concentrator-25 Kit and sequenced on an Illumina HiSeq 2500 platform.