Supplemental Material for Gamez et al., 2020
2020-01-28T19:25:24Z (GMT) by
Figure 1 Global dynamics of gene expression.Figure 2 Soft clustering and principal component analysis on Ae. albopictus genes. Figure 3 Orthology analysis of Ae. aegypti and Ae. albopictus samples across corresponding developmental time points.Figure S1 Read mapping statistics and read count data across all developmental stages.Figure S2 Expression dynamics of protein genes involved in miRNA, siRNA and piRNA pathways.Figure S3 E-value score distribution for best reciprocal BLAST hits for Ae. aegypti and Ae. albopictus orthologs.Figure S4 Sample correlations of each developmental time point between Ae. aegypti and Ae. albopictus.Figure S5 MA plots depicting expression of orthologous genes in sex specific tissues.Figure S6 MA plots depicting expression of orthologous genes in blood-fed female ovaries and carcasses at different 12-hr time points.Figure S7 MA plots depicting expression of orthologous genes during embryogenesis of Ae. albopictus compared to Ae. aegypti. Figure S8 MA plots depicting expression of orthologous genes in the larval instars and diapause samples of Ae. albopictus compared to Ae. aegypti. Table S1 Summary of sequenced datasets. Table S2 Gene descriptions of Ae. albopictus loci. Table S3 Read mapping analysis of Ae. albopictus transcripts. Table S4 Detected counts, TPM, and FPKM of each developmental stage. Table S5 Complete developmental transcriptome transcripts of Ae. albopictus. Table S6 Pearson correlation matrix. Table S7 Gene ontology enrichment analysis of Ae. albopictus clusters 1 through 20. Table S8 AALF genes mFuzz cluster membership and descriptions. Table S9 Female-biased genes. Table S10 Male-biased genes. Table S11 Genes involved in small RNA production. Table S12 Best reciprocal hits orthology between Ae. albopictus and Ae. aegypti. Table S13 Count summary of Ae. albopictus reads mapping to orthologs. Table S14 Pearson correlation values of Ae. aegypti and Ae. albopictus at each developmental stage. Table S15 Upregulated genes in Ae. aegypti and Ae. albopictus expressed orthologs. Table S16 Ae. aegypti-Ae. albopictus male testes and carcass raw DESeq2 results. Table S17 Ae. aegypti-Ae. albopictus pupae raw DESeq2 results. Table S18 Ae. aegypti-Ae. albopictus female NBF and PBM ovary DESeq2 results. Table S19 Ae. aegypti-Ae. albopictus female NBF and PBM carcass DESeq2 results. Table S20 Ae. aegypti-Ae. albopictus embryogenesis DESeq2 results. Table S21 Ae. aegypti-Ae. albopictus larval stages and diapause raw DESeq2 results.
File S1 Script for processing count data produced by featureCounts
File S2 Script used for parsing out BLAST output
File S3 Script used to identify best reciprocal match