The cnidarian Aurelia sp. was set as outgroup.
The short chain tetrapeptides 5 and 7 were synthesized manually by Nα-Fmoc methodology on Wang resin, preloaded with a Phe residue, under microwave irradiation (Biotage SP Wave, temperature was set at 75 °C).
The sampling frequency was set to 125 sps, the pre-amplification gain was set to 1 and the duration of each record was 20 25 min long.
Therefore, a small-scale bioremediation assay made of (a) a biostimulation treatment with carvone, soya lecithin and xylose and (b) two bioaugmentation treatments, one with a TSZ7 mixed culture and another with a Rhodococcus sp. Z6 pure strain was set up.
For analysis of genetic structure of V. campbellii, or genetic structure of Vibrio sp. and V. jasicida, K was set between 1 and 3. Individual alignments of 897 sequences conserved in the 35 Vibrio strains were used to identify recent recombination events using a modification of embedded quartet decomposition analysis, as implemented by Luo et al. (2011).
The w s and w sp values were set to 0.2 and 1.0, respectively, where if the w s value was changed from 0.2 to 1.0, the epicenter moved approximately 15 km toward the islands.
The numbers of clusters in the GMM for the SP, NSP, and background were set at 5, 10, and 2, respectively.
However, in the section where k SM and k SP are allowed to evolve, the parameters were set such that k SP = k DP and k SM = k DM or k SM + k SP = k DP + k DM.
In the section where k SM and k SP are kept constant, the parameters were set such that k SM = k SP = k DP + k DM [i.e.0.5 k SM + k SP ) = k DP + k DM ].
The detection specificity (Sp) and the pandemic case reporting rate were set for all methods at the following values: Sp = 99% and α = 5%.
For a negative prediction (o < t), its confidence value is set to (1 – sp).
