Additional file 1 of Comparative transcriptome combined with metabolome analyses revealed key factors involved in nitric oxide (NO)-regulated cadmium stress adaptation in tall fescue
Creators: name: Zhu, Huihui
name: Ai, Honglian
name: Hu, Zhengrong
name: Du, Dongyun
name: Sun, Jie
name: Chen, Ke
name: Chen, Liang
Publisher: name: figshare
Year: 2020
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Hematology
subject: Plant Biology
subject: Computational Biology

description: Additional file 1: Table S1. Relative fluorescence intensity in tall fescue roots. The fluorescence was quantified with ImageJ program and registered in fifteen squares of 1000 μm2 each photo. Values are presented as a ration to the untreated Con (n = 4). Table S2. Significance at Cd level in Table 1 analyzed by LSD test. The significant difference was presented as capital letters at P &lt; 0.01and small letters at P &lt; 0.05, respectively. Table S3. Significance at NO level in Table 1 analyzed by LSD test. The significant difference was presented as capital letters at P &lt; 0.01and small letters at P &lt; 0.05, respectively. Table S4. Summary of sequence assembly after illumina sequencing. Table S5. Length distribution of the transcripts and unigenes clustered from the de novo assembly. Table S6. Different metabolite levels inT1 treatment and Cd treatment in tall fescue. Table S7. The fold changes of selected metabolitesin T1 vs Cd comparison. Table S8. The level of related DEGs and different metabolites response to T1 treatment vs Cd treatment. Figure S1. Volcano Plots and Venn diagrams of significantly differentially expressedtranscripts in the tall fescue roots with or without NO treatment under cadmium stress. (a) Volcanoplot in T1vsCd. (b) volcano plot in T2vsCd. (c) Venn diagram analysis in different treatment. (d) Venn diagram analysis between T1vsCd and T2vsCd. Numbers indicate the number of transcripts with significant changes inexpression under different conditions. Overlaps indicate the number of common transcripts differentially expressed, and numbers outside overlaps indicate the number of cultivar or subgroup specific transcripts differentially expressed. There were three regime, comprising Cd, T1, and T2. They respectively presented the tall fescue seedlings were cultivated in 1/2 Hoagland solution with 50 mg/L Cd2+ (CdCl2•2.5H2O) (Cd treatment), 1/2 Hoagland solution with 50 mg/L Cd2+ and 200 μM SNP (T1 treatment) and 1/2 Hoagland solution with 50 mg/L Cd2+, 200 μM L-NAME and 100 μM c-PTIO (T2 treatment). Each value is the mean of three replicates. Figure S2. Histogram of the gene ontology classification analysis of the DEGs in response to theT1 treatment in tall fescue roots. The tall fescue seedlings were cultivated in 1/2 Hoagland solution with 50 mg/L Cd2+ (CdCl2•2.5H2O) (Cd treatment) and 1/2 Hoagland solution with 50 mg/L Cd2+ and 200 μM SNP (T1 treatment), respectively. Each value is the mean of three replicates. Figure S3. The top 10 metabolites according to the VIP values in tall fescue under T1 treatment. The tall fescue seedlings were cultivated in 1/2 Hoagland solution with 50 mg/L Cd2+ (CdCl2•2.5H2O) (Cd treatment) and 1/2 Hoagland solution with 50 mg/L Cd2+ and 200 μM SNP (T1 treatment), respectively. Each value is the mean of three replicates. Figure S4. Principal component analysis (PCA) of the metabolite profiles in tall fescue roots. The analysis was performed on all the metabolites detected in tall fescue roots under different conditions. There were four treatment regimes in this study, including the Con, Cd treatment, T1 treatment, and T2 treatment, and each regime had three replicates. They respectively presented the tall fescue seedlings were cultivated in 1/2 Hoagland solution (Con), 1/2 Hoagland solution with 50 mg/L Cd2+ (CdCl2•2.5H2O) (Cd treatment), 1/2 Hoagland solution with 50 mg/L Cd2+ and 200 μM SNP (T1 treatment), and 1/2 Hoagland solution with 50 mg/L Cd2+, 200 μM L-NAME and 100 μM c-PTIO (T2 treatment). Figure S5. The hierarchical cluster analysis (HCA) of the differentially expressed metabolites selected from the integrated analysis between the T1 treatment and Cd treatment in tall fescue roots. The tall fescue seedlings were cultivated in 1/2 Hoagland solution with 50 mg/L Cd2+ (CdCl2•2.5H2O) (Cd treatment) and 1/2 Hoagland solution with 50 mg/L Cd2+ and 200 μM SNP (T1 treatment), respectively. Each value is the mean of three replicates. Figure S6. The distribution of metabolites in different KEGG pathways. (A) The metabolites in Cd vs Con. (B) the metabolites in T1 vs Cd. There were three regime, comprising Cd, T1 and T2. They respectively presented the tall fescue seedlings were cultivated in 1/2 Hoagland solution with 50 mg/L Cd2+ (CdCl2•2.5H2O) (Cd treatment), 1/2 Hoagland solution with 50 mg/L Cd2+ and 200 μM SNP (T1 treatment) and 1/2 Hoagland solution with 50 mg/L Cd2+ and 200 μM NG-nitro-L-Arg-methyl ester (L-NAME) and 100 μM 2-(4-carboxyphenyl)-4,4,5,5-tetramethylimidazoline-1-oxyl-3-oxide (cPTIO) (T2 treatment). Figure S7. The activities of SOD (superoxide dismutase) and APX (Ascorbate peroxidase) in tall fescue roots. Values were given as means ± SD (n = 4). Data about Cd, T1 and T2 treatment were analyzed using one-way Analysis of Variance, followed by LSD test. Asterisks (*) indicate the significant difference at P &lt; 0.05. Figure S8. Correlations of expression level analyzed by RNA-Seq platform (y axis) with data resulted from qRT-PCR (x axis).