Additional file 2 of De novo assembly of the olive fruit fly (Bactrocera oleae) genome with linked-reads and long-read technologies minimizes gaps and provides exceptional Y chromosome assembly

Additional file 2: Table S1. Sequencing libraries used, sequence results, and kmer optimization for the GCA_001188975.2 assembly. Table S2. Comparison of assembly quality of the 3 main assemblies. Table S3. Assembly statistics for 9 different assemblies generated. Table S4. Comparison of assembly quality of the 3 Y chromosome assemblies. Table S5. Sequences of the primers used for the validation of Y-chromosome specific scaffolds. Table S6. Mapping positions and primers used to generate 9 new B. oleae DNA markers in this study. Table S7. Scaffold/contig localization on B. oleae chromosomes. Table S8. Distribution of the B. oleae Transposable elements in the genome assembly. Table S9. Samples and tissues used for the transcriptome sequencing and assembly. Table S10. Summary of the Trinity transcriptome generated from sequencing all the tissues in Supplementary Table S7. Table S11. Assessment of the completeness of the Trinity de novo transcriptome assembly. Table S12. Orthologous genes among 6 closely related insects. Table S13. Genes that peak at different metamorphic stages. Table S14. Gene ontology enrichment analysis for genes that peak at different metamorphic stages. Table S15. Datasets submitted to NCBI and their corresponding accession numbers and description. Table S16. Sources of proteomes and genomes used in Supplementary figures.