DOI: 10.6084/m9.figshare.16664318
title: Additional file 2 of Phylogenetic analysis and development of molecular markers for five medicinal Alpinia species based on complete plastome sequences

description: Additional file 2: Table S1. Base composition in the plastomes of four Alpinia species. Table S2. List of genes annotated in the plastome of A. galanga. Numbers in parentheses represented the repetition of genes. Superscript T: trans-splicing gene. Table S3. List of genes annotated in the plastome of A. nigra. Numbers in parentheses represented the repetition of genes. Superscript T: trans-splicing gene. Table S4. List of genes annotated in the plastome of A. officinarum. Numbers in parentheses represented the repetition of genes. Superscript T: trans-splicing gene. Table S5. List of genes annotated in the plastome of A. oxyphylla. Numbers in parentheses represented the repetition of genes. Superscript T: trans-splicing gene. Table S6. The length of introns and exons for the splitting genes in the plastome of A. galanga. The gene rps12 was a trans-splicing gene. Table S7. The length of introns and exons for the splitting genes in the plastome of A. nigra. The gene rps12 was a trans-splicing gene. Table S8. The length of introns and exons for the splitting genes in the plastome of A. officinarum. The gene rps12 was a trans-splicing gene. Table S9. The length of introns and exons for the splitting genes in the plastome of A. oxyphylla. The gene rps12 was a trans-splicing gene. Table S10. SSR identified in the plastome of A.galanga. P1 = Mononucleotide; P2 = Di nucleotide; P3 = Tri nucleotide; P4 = Tetra nucleotide; P5 = Penta nucleotide; 6 = Hexa nucleotide repeats and c = Compound repeat microsatellites. Table S11. SSR identified in the plastome of A.nigra. P1 = Mononucleotide; P2 = Di nucleotide; P3 = Tri nucleotide; P4 = Tetra nucleotide; P5 = Penta nucleotide; 6 = Hexa nucleotide repeats and c = Compound repeat microsatellites. Table S12. SSR identified in the plastome of A. officinarum. P1 = Mononucleotide; P2 = Di nucleotide; P3 = Tri nucleotide; P4 = Tetra nucleotide; P5 = Penta nucleotide; 6 = Hexa nucleotide repeats and c = Compound repeat microsatellites. Table S13. SSR identified in the plastome of A. oxyphylla. P1 = Mononucleotide; P2 = Di nucleotide; P3 = Tri nucleotide; P4 = Tetra nucleotide; P5 = Penta nucleotide; 6 = Hexa nucleotide repeats and c = Compound repeat microsatellites. Table S14. Comparison of SSR markers found among four Alpinia species and one outgroup species of Zingiber spectabile. Zisp: Zingiber spectabile; Alga: Alpinia galanga; Alni: Alpinia nigra; Alof: Alpinia officinarum; Alox: Alpinia oxyphylla. Table S15. Dispersed repeat sequences in the plastome of A. galanga. Table S16. Dispersed repeat sequences in the plastome of A.nigra. Table S17. Dispersed repeat sequences in the plastome of A. officinarum. Table S18. Dispersed repeat sequences in the plastome of A. oxyphylla. Table S19. Tandem repeat sequences identified in the plastome of A. galanga. Table S20. Tandem repeat sequences identified in the plastome of A. nigra. Table S21. Tandem repeat sequences identified in the plastome of A.officinarum. Table S22. Tandem repeat sequences identified in the plastome of A.oxyphylla. a: coding sequences; b: intergenic spacers. Table S23. The distances among the shared intergenic spacer (IGS) regions from the five Alpinia plastomes. Alga: Alpinia galanga; Alha: Alpinia hainanensis; Alni: Alpinia nigra; Alof: Alpinia officinarum; Alox: Alpinia oxyphylla. Table S24. The list of accession numbers of the plastome sequences used in the phylogenetic analyses of the Zingiberaceae. Table S25. The dN, dS and dN/dS (ω) value of 77 commom protein-coding genes from plastomes of 21 Alpinia species. Table S26. The two pairs of primers for the ampilification of DNA barcodes. Table S27. The list of sample numbers of the samples used in the species discrimination analyses of the Alpinia.