Significantly enriched Gene Ontology terms for sequences in the “Core” transcriptome after orthogroup classification. Terms are enriched if they have FDR-corrected p-values < 0.05 (Fisher’s Exact Test). Those terms that are overrepresented when all species are analyzed together (“Combined” column) are in bold. (XLSX 16 kb
Figure S3. Gene Ontology enrich analysis of DEGs between unpollinated and pollinated samples. (TIF 7...
Table S6. Raw data for the positively selected genes in the Rosaceae-common transcripts. (XLSX 185 k...
This Additional File is an Excel File containing 6 spreadsheets (Additional Tables 4–9) with the res...
Significantly enriched Gene Ontology terms for sequences that were unassigned during orthogroup clas...
Detailed sequencing and assembly statistics. A. Trinity assembly. B. Velvet and Oases assemblies. C....
Number of contigs detected as rRNAs and tRNAs in each transcriptome. (XLSX 33 kb
Maximum conditional probability of cluster membership assigned by coexpression clustering using Pois...
Neighbor-joining tree of R2R3-Mybs in Achimenes. Putative orthologs involved in anthocyanin and caro...
Table S1. Information on transcriptome data. Table S2. Sources of genome sequences. Table S3. List o...
Table S7. Functional enrichment analysis of the specific gene families from C. gigantea. The full li...
Differentially expressed transcripts from within and between taxa comparisons, with associated annot...
Gene Ontology terms assigned to the contigs with significant BLAST hits to plant genes,listed under ...
Phylogenetic information for each taxon, including number of nuclear and plastid genes, total bp for...
Table S4. KEGG and GO clustering information of 4447 Rosaceae-common genes. (XLSX 274 kb
Genes differentially transcribed in the comparison in the comparison L2 vs S2. Criteria as given in ...
Figure S3. Gene Ontology enrich analysis of DEGs between unpollinated and pollinated samples. (TIF 7...
Table S6. Raw data for the positively selected genes in the Rosaceae-common transcripts. (XLSX 185 k...
This Additional File is an Excel File containing 6 spreadsheets (Additional Tables 4–9) with the res...
Significantly enriched Gene Ontology terms for sequences that were unassigned during orthogroup clas...
Detailed sequencing and assembly statistics. A. Trinity assembly. B. Velvet and Oases assemblies. C....
Number of contigs detected as rRNAs and tRNAs in each transcriptome. (XLSX 33 kb
Maximum conditional probability of cluster membership assigned by coexpression clustering using Pois...
Neighbor-joining tree of R2R3-Mybs in Achimenes. Putative orthologs involved in anthocyanin and caro...
Table S1. Information on transcriptome data. Table S2. Sources of genome sequences. Table S3. List o...
Table S7. Functional enrichment analysis of the specific gene families from C. gigantea. The full li...
Differentially expressed transcripts from within and between taxa comparisons, with associated annot...
Gene Ontology terms assigned to the contigs with significant BLAST hits to plant genes,listed under ...
Phylogenetic information for each taxon, including number of nuclear and plastid genes, total bp for...
Table S4. KEGG and GO clustering information of 4447 Rosaceae-common genes. (XLSX 274 kb
Genes differentially transcribed in the comparison in the comparison L2 vs S2. Criteria as given in ...
Figure S3. Gene Ontology enrich analysis of DEGs between unpollinated and pollinated samples. (TIF 7...
Table S6. Raw data for the positively selected genes in the Rosaceae-common transcripts. (XLSX 185 k...
This Additional File is an Excel File containing 6 spreadsheets (Additional Tables 4–9) with the res...