List of Supplementary Tables
Table S1 Data sources used in this study.
Table S2 Statistic of genomic region linked to AEK post-γ.
Table S3 Synenic genes number and rate with each Amborella
trichopoda genes.
Table S4 The genes expression with typical circadian patterns inCissus rotundifolia and corresponding orthologies inArabidopsis and Ananas comosus during diel cycle and the
correlation between them (Mockler et al., 2007).
Table S5 Information of raw data used in C. rotundifolia genome.
Table S6 The detail information of each step of the assembly.
Table S7 The length of C. rotundifolia chromosomes.
Table S8 The number of predicted coding genes annotated in public
databases.
Table S9 BUSCO analysis of the assembled C. rotundifolia genome.
Table S10 The repetitive sequences in C. rotundifolia andV. vinifera genome.
Table S11 The number of SSRs in C. rotundifolia and V.
vinifera genomes.
Table S12 Segmental duplications inside chromosome in Cissus and
grape.
Table S13 GO enrichment of the specific genes on Chromosome 01 ofC. rotundifolia .
Table S14 The GO enrichment of expanded gene families in C.
rotundifolia .
Table S15 The selective amplifications of genes in Cissus and
grape.
Table S16 The expression pattern of expanded HSP-20 in C.
rotundifolia.
Table S17 The orthogroup between 18 species. ’O13’and ‘S5’respresent
significant orthogroup in 13 non-succulent and 5 succulent plants,
respectively.
Table S18 Outlier annotation of orthogroup between 18 species (labled in
Figure 3b).
Table S19 The significant orthogroup 5 succulent plants.
Table S20 The significant orthogroup in 13 non-succulent plants.
Table S21 The GO enrichment analysis of tandem repeat genes in the
genome of C. rotundifolia .
Table S22 The gene number, GO and KEGG enrichment analysis of shared and
unique tandem repeat genes in C. rotundifolia (Cre) and V.
vinifera (Vvi).
Table S23 Functional bias in tandem duplicate genes retention betweenCissus and grape.
Table S24 Gene number of expanded lineage-specific TD in succulent
plants and other non-succulent plants from different GO categories.
Table S25 The List of putative CAM-related carbon fixation genes inC. rotundifolia and V. vinifera .
Table S26 The number of CAM gene family in Cissus rotundifolia ,Vitis vinifera , Ananas comosus , Oryza sativa ,Zea mays , Kalanchoe fedtschenkoi and Phalaenopsis
equestris .
Table S27 Biological processes enriched in co-expression modules listed
in Figure S10.
Table S28 Number of genes shared between co-expression modules (Figure
S10) and genes clusters (Figure S11). The genes with significant diel
expression patterns were used to constracte cluster analysis.
Table S29 The hub genes with the top 1% most connected nodes as well as
putative CAM genes with at least 10 directed edges from each gene
cluster shown in Table S28 and Figure S11.
Table S30 The occurrence frequency of motif in promoter region of CAM
pathway genes.
Table S31 The circadian clock cis -elements annotated at promoter
regions of orthologs in C. rotundifolia, A. thaliana andV. vinifera .
Table S32 Comparison of gene density between C. rotundifolia andV. vinifera .