Additional file 1 of The Musa troglodytarum L. genome provides insights into the mechanism of non-climacteric behaviour and enrichment of carotenoids
Creators: name: Li, Zhiying
name: Wang, Jiabin
name: Fu, Yunliu
name: Jing, Yonglin
name: Huang, Bilan
name: Chen, Ying
name: Wang, Qinglong
name: Wang, Xiao Bing
name: Meng, Chunyang
name: Yang, Qingquan
name: Xu, Li
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1: Figure S1. Fluorescent staining of karat chromosomes. The root tip of Musa troglodytarum L. karat plants staining with DPAI and screened under ultraviolet and fluorescence microscopy. Figure S2. GenomeScope profile of karat and tongkat. Figure S3. Bimodal histogram for Purge Haplotigs processing. The cutoff values for low, mid, and high points were 6,42 and 105, respectively. Figure S4. Hi-C mapping of chromosomes of the T genome. Figure S5. Heatmap of density of Nanica LINE. Figure S6. Analysis of LTR insertion times of the A, B, S and T genomes. Ma, Musa acuminata; Mb, Musa balbisiana; Ms, Musa schizocarpa; and Mt, Musa troglodytarum L. Figure S7. Distribution of SNP and indel sites in karat and tongkat. Indel sites in tongkat (A) and karat (B) and SNP sites in tongkat (C) and karat (D). Figure S8. GO enrichment analysis of T genome specific genes. Figure S9. GO enrichment analysis rapidly evolving gene families in T genome. Figure S10. Dot plot of syntenic bocks between M. troglodytarum and M. acuminata. Figure S11. Synteny map of chromosome 8 and 9 among M. troglodytarum, M. acuminata and M. balbisiana. Figure S12. Clusters of metabolites in karat fruit pulp. DAF, days after flowering. Figure S13. The distribution of JA response element G-box and TGACG-box motifs in the promoters of MtCCD4s. Figure S14. The distribution of GCC-boxes in the promoters of MtACO1 and MtACS1. Figure S15. Expression patterns of genes involved in karat fruit ripening. Gene expression was normalized to FPKM (fragments per kilobase of transcript per million read pairs). DAF, days after flowering. Figure S16. Expression patterns of genes involved in FJ fruit ripening. Gene expression was normalized to FPKM (fragments per kilobase of transcript per million read pairs). FJ (Fen jiao), dwarf banana. DAF, days after flowering. DPH, days post-harvest. Figure S17. Expression patterns of genes involved in BXJ fruit ripening. Gene expression was normalized to FPKM (fragments per kilobase of transcript per million read pairs). BXJ (BaXi Jiao), Cavendish banana. Figure S18. Expression patterns of genes involved in starch degradation and galactose accumulation. The gene IDs of M. troglodytarum, M. acuminata and M. balbisiana start with ‘Mt’, ‘LOC’ and ‘THU’, respectively. Gene expression was normalized to FPKM (fragments per kilobase of transcript per million read pairs). Figure S19. The effect of exogenous application free galactose on shoot buds of karat and BXJ. The shoot buds of karat (a) and BXJ (b) grown 20 days under a controlled environment (10 h light, 35% relative humidity and 25 °C). The karat (c)and BXJ (d) shoot buds (2-3 cm) were transferred into half-strength MS supplemented with Gal (10 mM, B2; and 100 mM, B1) and sucrose (10 mM, Z1), respectively. Table S1. Summary of GenomeScope profile on Tongkat with a k-mer of 19. Table S2. Summary of GenomeScope profile on karat with a k-mer of 19. Table S3. summary of short reads of genome sequencing. Table S4. summary of Pacbio reads of genome sequencing. Table S5. Summary of Nanopore reads of genome sequencing. Table S6. Summary of BUSCO analysis of contigs before Purge Haplotigs processing (C:98.4%). Table S7. Summary contigs after Purge Haplotigs processing and correction of chimeric contigs using ALLHIC_correcter. Table S8. Summary of BUSCO analysis of genome (C:97.7%). Table S9. Summary of protein-coding genes of M. troglodytarum. Table S10. Summary of BUSCO analysis of predicted gene (C:92.5%). Table S11. Summary of Repeat content of genome. Table S12. Summary of SNP and Indel sites of Karat and Tongkat.