Additional file 1 of Comparative analysis of medicinal plants Scutellaria baicalensis and common adulterants based on chloroplast genome sequencing
Creators: name: Li, Zhen
name: Duan, Baozhong
name: Zhou, Zhongyu
name: Fang, Hui
name: Yang, Meihua
name: Xia, Conglong
name: Zhou, Ying
name: Wang, Jing
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1: Table S1. Codons in cp genome of S. likiangensis. Table S2. Codons in cp genome of S. tenax. Table S3. Codons in cp genome of S. barbata. Table S4. Codons in cp genome of S. baicalensis. Table S5. Codons in cp genome of S. yunnanensis. Table S6. Codons in cp genome of S. indica. Table S7. Codons in cp genome of S. caryopteroides. Table S8. Codons in cp genome of S. forrestii. Table S9. Codons in cp genome of S. amoena. Table S10. GC content at different positions of CDS sequence codon. Table S11. The number of fowarde (F), reverse (R), complementary (C), and palindromic (P) repeats in the cp genome. Table S12. The large repeated sequences in the nine Scutel laria cp genomes with diferent hamming distance. F: forward (direct) matching; R: reverse matching;C: complement matching; P: palindromic (inverted) matching. Table S13. Number of SSR types in the cp genome. Table S14. Primer design by SnapGene. Table S15. Universal DNA barcodes primers. Table S16. Information about the samples collected. Table S17. Species information downloaded by NCBI. Fig. S1. The gel electrophoresis results of universal DNA barcodes PCR products. Lane M was the marker of DL2000 Plus. The lanes from left to right corresponded: S1. S. likiangensis; S2. S. barbata; S3. S. yunnanensis; S4. S. amoena; S5. S. tenax; S6. S. baicalensis; S10. S. purpureocardia; S11. S. weishanensis; S12. S. teniana; S13. S. kingiana. Fig. S2. Phylogenetic tree created using the NJ technique based on the universal DNA barcodes (A. ITS; B. psbA-trnH; C.matK; D. rbcL; E. trnL-trnF). Fig. S3. A. Repeat sequences detected in Scutellaria cp genome. P, F, C, and R indicate the repeat types: R (Reverse repeats), P (Palindromic repeats), F (Forward repeats), C (Complement repeats); B. The number and type of SSRs in Scutellaria cp genome. Fig. S4. Phylogenetic tree created using the ML technique based on the cp genome's several IGS (A. accD-psaI; B. matK-rps16; C. ndhC-trnV-UAC; D. petN-psbM; E. psbE-petL; F. rbcL-accD; G. rpl16-rps3; H. rps16-trnQ-UUG; I. trnN-GUU-trnR-ACG; J. four IGSs (matK-rps16, ndhC-trnV-UAC, psbE-petL, and rps16-trnQ-UUG)). Fig. S5. The gel electrophoresis results of nine IGS PCR products. Lane M was the marker of DL2000 Plus. The lanes from left to right corresponded: S1. S. likiangensis; S2. S. barbata; S3. S. yunnanensis; S4. S. amoena; S5. S. tenax; S6. S. baicalensis; S10. S. purpureocardia; S11. S. weishanensis; S12. S. teniana; S13. S. kingiana. Fig. S6. Sequencing chromatograms of the psbE-petL barcode in seven Scutellaria specvies. Fig. S7. The ML phylogenetic tree based on shared coding sequences (CDS) of the 24 species. The bootstrap support values are listed at each node. Fig. S8. Divergence times estimation based on cp genomes. The node ages are given for each node.