Whole genome sequence data of Trinomia digitata
DNA was extracted from the tissue of three thoracic legs for each specimen. We used the Zymo Quick-DNA Miniprep Plus Kit (Zymo Research Corp.) according to the manufacturers protocol, except that we eluted the DNA of the spin column with 120 l of elution buffer. After DNA extraction, we quantified double-stranded DNA with a Qubit 3.0 fluormeter (Thermo Fisher Scientific, Inc.) and assessed fragmentation by running 2 l of each sample on a high sensitivity screening tape in a 4150 TapeStation System (Agilent Technologies, Inc.). We sheared a total of 50 ng to an approximate target fragment size of 300-500 bp with a BioRuptor 300 (Diagenode, Inc.). Following sonication, we prepared sequencing libraries for Illumina platforms using a KAPA HyperPrep Kit (F. Hoffmann-La Roche, Ltd.). We followed the protocol outlined in Branstetter et al. (2021), which starts with a purification step of the input DNA using magnetic beads at a 3:1 ratio (3.0x SPRI). The libraries were dual-indexed (Glenn et al., 2019) and we used the KAPA kits PCR mastermix. We ran between 15 and 18 PCR cycles, pooled the samples at equimolar concentrations and size selected the pool to a fragment distribution of 250-650 bp with a BluePippin device (Sage Science, Inc.). Sequencing was carried out on an Illumina NovaSeq X Plus sequencer and a 10B flow cell by Novogene Co., Ltd.