Table S1.Summary of sequencing data of A. acutangulus root transcriptomes.

Root
Total number of raw reads / 54,829,682
Total number of valid reads / 42,925,374
Total number of valid base / 3,933,279,633
Total number of transcript / 249,170
Total number of unigenes / 90,903
N50 of unigenes / 951bp
Average length of unigenes / 592bp

Table S2. Annotation analysis of unigenes against different database

Unigene num / NR / SWISS-PROT / TREMBL / CDD / PFAM / KOG
90903 / 44325 / 24497 / 44932 / 20265 / 37617 / 12874
48.76% / 26.95% / 49.43% / 22.29% / 41.38% / 14.16%

Table S3. Functional classification of metabolic pathways related to secondary metabolism by KEGG

Classification / Pathway ID / Unigene number
Metabolism of Terpenoids and Polyketides / 379
Terpenoid backbone biosynthesis / ko00900 / 86
Limonene and pinene degradation / ko00903 / 81
Carotenoid biosynthesis / ko00906 / 68
Diterpenoid biosynthesis / ko00904 / 38
Zeatin biosynthesis / ko00908 / 35
Brassinosteroid biosynthesis / ko00905 / 17
Monoterpenoid biosynthesis / ko00902 / 16
Sesquiterpenoid and triterpenoid biosynthesis / ko00909 / 15
Tetracycline biosynthesis / ko00253 / 13
Biosynthesis of ansamycins / ko01051 / 6
Polyketide sugar unit biosynthesis / ko00523 / 3
Biosynthesis of siderophore group nonribosomal peptides / ko01053 / 2
Geraniol degradation / ko00281 / 1
Biosynthesis of Other Secondary Metabolites / 524
Phenylpropanoid biosynthesis / ko00940 / 319
Stilbenoid, diarylheptanoid and gingerol biosynthesis / ko00945 / 106
Flavonoid biosynthesis / ko00941 / 60
Tropane, piperidine and pyridine alkaloid biosynthesis / ko00960 / 48
Isoquinoline alkaloid biosynthesis / ko00950 / 37
Streptomycin biosynthesis / ko00521 / 21
Flavone and flavonol biosynthesis / ko00944 / 17
Butirosin and neomycin biosynthesis / ko00524 / 15
Novobiocin biosynthesis / ko00401 / 12
Glucosinolate biosynthesis / ko00966 / 7
Caffeine metabolism / ko00232 / 6
Betalain biosynthesis / ko00965 / 6
Indole alkaloid biosynthesis / ko00901 / 3

Figure legends for supplemental figures:

Fig S1.Length distributing of all unigenes in the A. acutangulustranscriptome of root.

The length of 90,903 unigenesdistributed in a wide range with an average length of 592 bases. The numbers above the column represent the unigene number.

Fig S2.GC content frequency distribution.

GC content of the unigene sequences in A. acutangulustranscriptome of root distributed among 30-50%.

Fig S3.Taxonomy statistic of annotation in NR database.

Theassembled unigeneswere preliminarily annotated usingBLAST search in the NR at NCBI, and 44,231unigenesshowed similarity to known protein sequences from 777 different species, and 84.49% of them hit in 10 plant species, including Vitisvinifera, Ricinuscommunis, Populustrichocarpa,Glycine max, Solanumlycopersicum, Nicotianatabacum, Solanumtuberosum, MedicagotruncatulaandSolanumdemissum.

Fig S4. Functional classification expressed in A. acutangulusroot.

34,819 unigenes were classified into three large categories and 63GO terms by GO analysis, of which26,425 were assigned to the “biological process”, 16,679 to the“cellular component”, and 31,836to the “molecular function”.In the category of “biological process”, “metabolic process” and “cellular process” were dominantandoccupied 27.56% and 23.70% of all unigenes,respectively

Fig.S1

Fig S1.Length distributing of all unigenes in the A. acutangulustranscriptome of root.

Fig S2. GC content frequency distribution

Fig S3.Taxonomy statistic of annotation in NR database.

Fig S4. Functional classification expressed in A. acutangulusroot.