Molecular phylogenetics and evolutionary history of the endemic land snail genus Everettia in northern Borneo
Supplemental Information
Additional File 1. Species records of Genus Everettia in Sabah for Maxent Analysis. The table consists of the 718 records of 17 Everettia species in Sabah obtained from BORNEENSIS collection, Universiti Malaysia Sabah. The collection lot reference number, number of specimens in each collection lot, and the geographic coordinates of the specimens were included in the table.
Additional File 2. Results of ModelTest for each partition of DNA sequencing alignment and parameter used in BEAST analysis. Each of the six partitions, namely, codons of COI, namely, 1st, 2nd and 3rd codon positions of COI, 16S rDNA, ITS-1, and 28S rDNA, was tested for molecular evolution via ModelFinder (Kalyaanamoorthy et al., 2017) and partition models (Chernomor et al., 2016) based on the both AIC and BIC that built into IQ-Tree v.1.6.7 (Nguyen et al., 2015; Trifinopoulos et al. 2016). We limited the candidate models to the six models that are available in MrBayes analysis, namely, JC, F81, K80, HKY, SYM, and GTR.
Additional File 4. A zipped folder consists of input files and outputs of BEAST analysis. A total of four BEAST input XML files for the combinations two different best-fit substitution models (selected by BIC and AIC criteria) and two calibrated models (Yule model vs. Birth-Death model). The calibrated phylogenies for each of the four analyses were summarised in the word document file.
Additional File 5. Correlations between bioclim variables. Bioclimatic variables were sampled 500 at random locations in Borneo in each of the 19 climatic layers. Collinearity among the 19 climatic variables was evaluated by using pairwise Pearson’s r correlation. After the analysis, 12 highly correlated variables (r > 0.8) were excluded from MAXENT analysis. The seven climatic variables were used for species distribution modelling, namely, BIO1 Annual Mean Temperature, BIO3 Isothermality, BIO4 Temperature Seasonality, BIO7 Temperature Annual Range, BIO12 Annual Precipitation, BIO15 Precipitation Seasonality, and BIO19 Precipitation of Coldest Quarter.
Additional File 6. Concatenated DNA Data Matrix for 16S, COI, ITS, and 28S Sequences for 73 taxa. DNA sequences alignment in FASTA format. Position 1-501: 16S; Position 502-1059: COI; Position 1060-1869: ITS; and Position 1870-2795: 28S.
