Additional file 2 of Identification of BBX gene family and its function in the regulation of microtuber formation in yam
Creators: name: Chang, Yingying
name: Sun, Haoyuan
name: Liu, Shiyu
name: He, Yulong
name: Zhao, Shanshan
name: Wang, Jiage
name: Wang, Tianle
name: Zhang, Jiangli
name: Gao, Jin
name: Yang, Qingxiang
name: Li, Mingjun
name: Zhao, Xiting
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 2: Supplementary Figure 1. Chromosomal distribution of DrBBXs and DaBBXs. Chromosomal mapping was based on the physical position in the white D. rotundata (Dr) and D. alata (Da) chromosomes. The chromosome numbers are presented above each vertical bar. The scale on the left is in base pairs (Mb). Supplementary Figure 2. Multi-sequence alignment of BBX proteins in D. rotundata and D. alata. B-box domains are marked by green boxes, CCT conserved domain is markered by an orchid box, VP motifs are marked by blue boxes. Supplementary Figure 3. Conserved domains analyses of DrBBX and DaBBX proteins were aligned by a WebLogo program using default parameters. The B-box1, B-box2, and CCT conserved domain logos were obtained by aligning all the 40 BBXs sequences, 29 group I, II, IV sequences, and 23 group I, II, III sequences form the white Guinea yam and the greater yam, respectively. The group I’s VP motif logo was obtained by aligning the sequences of four group I DrBBXs and four group I DaBBXs. The group IV’s VP motif logo was obtained from DrBBX13, DrBBX14, DrBBX18, DrBBX19, DaBBX12, DaBBX13, DaBBX15, DaBBX15, and DaBBX16. Supplementary Figure 4. Cloning, domain diagram and phylogenetic analysis of DoBBX2 and DoBBX8. (a) The complete cDNA sequences and amino acid sequences of DoBBX2 and DoBBX8. (b) DoBBX2 and DoBBX8 protein domains. (c) Phylogenetic analysis of DoBBX2 and DoBBX8. Do: D. opposita ‘Tiegun’, Da: the greater yam (D. alata), Dr: the white Guinea yam (D. rotundata), Pd: Phoenix dactylifera, Eg: Elaeis guineensis, Dof: Dendrobium officinale, Peq: Phalaenopsis equestris, Os: O. sativa, At: A. thaliana, St: Solanum tuberosum, Nn: Nelumbo nucifera, Vv: Vitis vinifera, Md: Malus domestica, Ptr: Populus trichocarpa. The red diamond represents DoBBX2/DoCOL5 protein in ‘Tiegun’, and the blue triangle represents DoBBX8/DoCOL8 protein in ‘Tiegun’. Supplementary Figure 5. Morphological structure of 45 d-old D. opposita ‘Tiegun’ plant. (Bar=1 cm). Supplementary Figure 6. The transcript levels of DoBBX2 and DoBBX8 in 15-days-old control pants and overexpression plants. (a) The quantitative qRT-PCR results. (b) The semi quantitative PCR results. Left panel shows the transcript levels of DoBBX2 gene in 15-days-old control pants (‘E3’) and DoBBX2 overexpression plants (DoBBX2-3, DoBBX2-1 and DoBBX2-2). The grouping of gels/blots cropped from different parts of the same gel. Right panel shows the transcript levels of DoBBX8 gene in 15-days-old control pants (‘E3’) and DoBBX8 overexpression plants (DoBBX8-2, DoBBX8-3 and DoBBX8-1). The grouping of gels/blots cropped from different parts of the same gel. The potato ELONGATION FACTOR 1 α (EF1-α) gene was used as reference gene for primary data normalization. Error bars indicate standard deviations (SD) from three biological replicates. Supplementary Figure 7. Tuber yield per plant in controls and the lines overexpressing DoBBX2 and DoBBX8. Data are from three independent biological experiments (n = 3 independent biological experiments × 9 growth chambers × 10 individual plants). The red line within the boxplot marks the median (50th percentile) while the black box within the box marks the mean. Significant differences between two means are indicated by Fisher LSD test (P&lt;0.05).