Additional file 1: of Genomic insights into virulence mechanisms of Leishmania donovani: evidence from an atypical strain

Table S1-(A). Summary of patient characteristics. Table S1-(B). Genome coverage and number of sequencing reads per sample Table S2. Calculation of chromosome somy. Table S3. Chromosome somy calls in Sri Lankan L. donovani six CL and two VL isolates. Table S4. Genes with highly variable copy numbers between Sri Lankan L. donovani CL and VL isolates. Table S5. Multicopy genes (tandem arrays) with highly variable copy numbers between Sri Lankan L. donovani CL and VL isolates. Table S6. Multicopy genes (tandem arrays) in Sri Lankan L. donovani CL isolates. Table S7. Multicopy genes (tandem arrays) in Sri Lankan L. donovani VL isolates. Table S8. Gene ontology enrichment in Sri Lankan Leishmania donovani CL and VL isolates based on genes identified with high copy numbers. Table S9. REVIGO analysis of GO ontology terms for genes with high copy numbers in Sri Lankan Cutaneous and Visceral Leishmania donovani populations Table S10. High SNP count genes in Sri Lankan L. donovani CL isolates. Table S11. High indel count genes in Sri Lankan L. donovani CL isolates. Table S12. High SNP count genes in Sri Lankan L. donovani VL isolates. Table S13. High indel count genes in Sri Lankan L. donovani VL isolates. Table S14. Predicted pseudogenes among L. donovani CL-SL and VL-SL isolates. Table S15. Genes under strong selection among the high SNP count genes in Sri Lankan L. donovani CL isolates. Table S16. Genes under strong selection among the high SNP count genes in Sri Lankan L. donovani VL isolates. Table S17. Genes with highly variable copy numbers between Sri Lankan L. donovani CL wild type and CL poor responders to sodium stibogluconate. Table S18. Multicopy genes (tandem arrays) in Sri Lankan L. donovani CL wild type. Table S19. Multicopy genes (tandem arrays) in Sri Lankan L. donovani CL poor responders to sodium stibogluconate. Table S20. Multicopy genes (tandem arrays) with highly variable copy numbers between Sri Lankan L. donovani CL wild type and CL poor responders to sodium stibogluconate. Table S21. Top genes with non-synonymous unique SNPs in Sri Lankan L. donovani CL poor responders to SSG. Table S22. Predicted pseudogenes and their functions in L. donovani CL wild type and CL poor responders to sodium stibogluconate. (XLSX 961 kb)