Additional file 1:Figure S1. of Calcium/calmodulin alleviates substrate inhibition in a strawberry UDP-glucosyltransferase involved in fruit anthocyanin biosynthesis

Amino acid sequence alignment of FvUGT1 and six other plant UGTs. Color and intensity change indicates the differences in the level of conservation. Dark red and dark blue represent the highest and lowest conserved levels, respectively. α-helices and β-strands are marked by black lines. The putative secondary plant glycosyltransferase (PSPG) motif is underlined by a red line and 10 conserved sugar donor interacting residues of the PSPG motif are marked with black solid triangles. The putative calmodulin-binding region in FvUGT1 is indicated by a black open box. The GenBank accession numbers or sources of proteins are FvUGT1 (KP165417; F. vesca), VtGT1 (AAB81682; grape), FaGT1 (AAU09442; F. × ananassa), Ct3GT (BAF49297; C. ternatea), MtUGT78G1 (A6XNC6.1; M. truncatula), AtUGT72B1 (Q9M156.1; A. thialiana), MtUGT71G1 (AAW56092.1; M. truncatula), and MtUGT85H2 (2PQ6_A; M. truncatula). (PDF 787 kb

Additional file 9 of “The PLCP gene family of grapevine (Vitis vinifera L.): characterization and differential expression in response to Plasmopara Viticola”

Additional file 9: Table S6: FPKM expression matrix of PLCP gene, FPKM refers to expected number of Fragments Per Kilobase of transcript sequence per Millions base pairs sequenced

Additional file 8 of “The PLCP gene family of grapevine (Vitis vinifera L.): characterization and differential expression in response to Plasmopara Viticola”

Additional file 8: Table S5: The detailed information of the GO function enrichment list of PLCP gene. (XLS 5 kb

Data_Sheet_2_Transcriptional Profiling of Resistant and Susceptible Cultivars of Grapevine (Vitis L.) Reveals Hypersensitive Responses to Plasmopara viticola.pdf

Grapevine downy mildew is the most serious disease of grapevine cultivars that affects the rate of resistance/susceptibility to Plasmopara viticola. In this study, we used the susceptible cultivar “Zitian Seedless” and the resistant cultivar “Kober 5BB” as materials to determine the transcriptome differences and phenotypes of the leaves after inoculation with downy mildew. The differences in microstructures and molecular levels were compared and analyzed. Fluorescence staining and microscopic observations confirmed that hypersensitive cell death occurred around the stomata in “Kober 5BB” infected by downy mildew zoospores. Meanwhile, transcriptomic profiling indicated that there were 11,713 and 6,997 gene expression differences between the resistant and susceptible cultivars at 72 h after inoculation when compared to control (0 h), respectively. The differentially expressed genes of the two cultivars are significantly enriched in different pathways, including response to plant-pathogen interaction, mitogen-activated protein kinase (MAPK) signaling pathway, plant hormone signal transduction, phenylpropanoid, and flavonoid biosynthesis. Furthermore, the results of functional enrichment analysis showed that H2O2 metabolism, cell death, reactive oxygen response, and carbohydrate metabolism are also involved in the defense response of “Kober 5BB,” wherein a total of 322 key genes have been identified. The protein interaction network showed that metacaspases (MCAs), vacuolar processing enzymes (VPEs), and Papain-like cysteine proteases (PLCPs) play an important role in the execution of hypersensitive responses (HR). In conclusion, we demonstrated that HR cell death is the key strategy in the process of grape defense against downy mildew, which may be mediated or activated by Caspase-like proteases.</p

Biological network of anthocyanin biosynthesis and transport pathway in grapevine fruit.

<p>♦, indicated the transcript differential expressed between 65DAF and 40DAF fruits. ✤, indicated the transcript differential expressed between 90DAF and 65DAF fruits. ■, indicated the transcript differential expressed between 90DAF and 40DAF fruits.</p

Additional file 3 of “The PLCP gene family of grapevine (Vitis vinifera L.): characterization and differential expression in response to Plasmopara Viticola”

Additional file 3: Figure S1: Predict the conservative motif of PLCPs by online MEME website

Additional file 2 of “The PLCP gene family of grapevine (Vitis vinifera L.): characterization and differential expression in response to Plasmopara Viticola”

Additional file 2: Table S2: Protein properties of PLCP gene family in grapevine

The comparison among the values of average GC content, CS/GS and mEST/sEST in CSG plants.

<p>The comparison among the values of average GC content, CS/GS and mEST/sEST in CSG plants.</p

Bin map of cell wall (left) and lipid (right) metabolism between 65DAF and 40DAF, or 90DAF and 60DAF fruits.

<p>Note: 10.1, Precursor synthesis; 10.2, Cellulose synthesis; 10.3, Hemicellulose synthesis; 10.4, Pectin synthesis; 10.5, Cell wall proteins; 10.6, Degradation; 10.7, Modification; 10.8, Pectinesterases. 11.1, FA synthesis and FA elongation; 11.2, FA desaturation; 11.3, Phospholipid synthesis; 11.4, TAG synthesis; 11.8, Exotics'(steroids, squalene etc); 11.9, Lipid degradation; 11.10, Glycolipid synthesis.</p

Distribution map of EST and repeat sequence abundance, and length in ten chromosome regions of <i>Arabidopsis thaliana</i>, <i>Brachypodium distachyon</i>, <i>Glycine max</i>, <i>Oryza sativa</i>, <i>Vitis vinifera</i>, and <i>Zea mays</i>.

<p>The blue line represents the changing trend in EST abundance, the yellow line represents repeat sequence abundance, the red line represents repeat sequence length, and the green line indicates the middle point of chromosomes. The value of Y-axis indicates the number of EST abundance.</p