Supplemental Material for Minio et al., 2018

File S1: Iso-Seq reconstructed transcriptome (FASTA format)File S2: databases used for InterProScan search of functional domainsFile S3: parameters used for MAKER-P annotationFile S4: parameters used in PASA for annotation polishing File S5: association of Iso-Seq reconstructed transcripts with gene loci in the Cabernet Sauvignon genomeFile S6: biological process GO tree of the Iso-Seq reconstructed transcriptomeFile S7: cellular component GO tree of the Iso-Seq reconstructed transcriptomeFile S8: molecular function GO tree of the Iso-Seq reconstructed transcriptome File S9: biological process GO tree of the protein-coding genes predicted in the Cabernet Sauvignon genomeFile S10: cellular component GO tree of the protein-coding genes predicted in the Cabernet Sauvignon genomeFile S11: molecular function GO tree of the protein-coding genes predicted on the Cabernet Sauvignon genomeFile S12: distribution and classification of alternative splicing events annotated on the Cabernet Sauvignon genomeFigure S1: Soluble solids content of Cabernet Sauvignon berries at four different growth stages. For each biological replicate, soluble solid measurement (°Brix) was performed using two technical replicates.Figure S2: Evaluation of the impact of the expression level on Iso-Seq sequence accuracyFigure S3: Cabernet Sauvignon genome annotation pipeline. The diagram represents the workflow used to produce the gene annotation of Cabernet Sauvignon genome.Table S1: Weather conditions during the sampling of Cabernet Sauvignon berries.Table S2: Soluble solids content (°Brix) of Cabernet Sauvignon berries at the four developmental stages.Table S3: Sequences of the oligo dT barcodes used for the construction of the Iso-Seq SMRTBell libraries.Table S4: Iso-Seq read sequencing and standard PacBio clustering pipeline statistics.Table S5: Short-read sequencing, filtering and mapping results.Table S6: Repetitive content identification statistics.Table S7: Experimental evidences used for MAKER annotation.Table S8: Gene and transcript annotation statistics.Table S9: RFAM categories identified in Cabernet Sauvignon genome.Table S10: Groups of ISNT isoforms and annotated gene loci based on sequence clustering approach.Table S11: Functional annotation of the reconstructed ISNT.Table S12: Functional annotation of the cultivar-specific ISNT isoforms.Table S13: Functional annotation of the Cabernet Sauvignon genome.Table S14: Functional annotation of the Cabernet Sauvignon private gene loci.Table S15: RNA-seq analysis of the 16 berry samples using the Iso-Seq non-redundant transcriptome (ISNT) as reference. Table S16: RNA-seq analysis of the 16 berry samples using the Cabernet Sauvignon genome as reference. Table S17: Expression and differential expression analysis of the clustered ISNT transcripts.