Raw fasta files used in Molecular evidence of Intermediate Disturbance Hypothesis across scales of biological organization

Description

FASTA files containing fragments of the mitochondrial gene Cytochrome C Oxidase subunit I (COI) obtained with Sanger sequencing, for two sea urchin species, Arbacia lixula and Paracentrotus lividus. These samples were collected from individuals inhabiting along natural CO2 gradient in the Canary Islands, Spain.

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The DNA was obtained from preserved gonads in RNAlater using the Speedtools tissue DNA extraction kit (www.biotools.eu). We amplified and sequenced COI gene fragments measuring 905 base pairs (from 102 A. lixula) and 801 base pairs (from 75 P. lividus). To design the specific primers, we used primer 3 software and referred to the complete mitochondrial genome of each species, which is available at Genbank (X80396.1 for A. lixula and NC_001572.1 for P. lividus). For each species, we conducted PCR in a final volume of 20 µL, including µL of REDEXtract-N-ampl PCR reaction mix (www.sigma.com), 0.8 μL of each primer (10μM), 7.4 μL of ultrapure water, and 1 μL of DNA extraction. The PCR temperature cycling for fragment amplification was the same for both species: 94ºC for 5 minutes, followed by 35 cycles of 94ºC for 1 minute, 55ºC for 1 minute, and 72ºC for 1 minute, with a final step of 72ºC for 5 minutes. We sent the PCR products to Macrogen, Inc (Seoul, Korea) for purification and sequencing. The obtained sequences were edited using Geneious software (Geneious Prime 2021.1.1). Then, we aligned the sequences separately for A. lixula and P. lividus using the Clustal Omega alignment algorithm of Geneious.

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