Table 2.
List of loci upregulated and expressed only in profichi buds (from caprifig tree) was obtained with the RNA-seq analysis.
| GO category | GO description | Locus | Locus ‘Dottato’ | Genes ‘Dottato’ | Chr | Expression level | KEGG annotation | NCBI annotation |
|---|---|---|---|---|---|---|---|---|
| biological_process | Fatty acid biosynthetic process | s00042g04609 | CM019741.1 | scaffold4994_size7080_1_6190_F_g8478.t1 | 3 | 59.27 | Lipoxygenase | Linoleate 13S-lipoxygenase |
| Response to light stimulus | s00693g22683 | CM019742.1 | scaffold46213_size1701_246_1645_F_g34891.t1 | 4 | 3.48 | – | Gibberellin 20 oxidase | |
| Regulation of systemic acquired resistance | s00207g12592 | CM019748.1 | scaffold25821_size4231_2377_3511_R_g25563.t1 | 10 | 5.18 | – | – | |
| Malate transport | s00025g03163 | CM019750.1 | scaffold31761_size2380_1_2259_F_g28761.t1 | 12 | 1.51 | – | Aluminum-activated malate transporter | |
| Pigment biosynthetic process | s00026g03301 | CM019739.1 | scaffold10590_size4980_283_2371_R_g14493.t1 | 1 | 3.94 | Polyphenol oxidase | Polyphenol oxidase | |
| Recognition of pollen | s00095g08016 | CM019750.1 | scaffold16001_size3915_1886_3417_F_g19050.t1 | 12 | 0.33 | G-type lectin S-receptor-like serine/threonine-protein kinase | ||
| cellular_component | Origin recognition complex | s00903g25124 | CM019747.1 | scaffold13243_size4394_1_4221_R_g16822.t1 | 9 | 1.01 | Origin recognition complex subunit 5 | Origin of replication complex subunit 5 |
| Intracellular | augustus_masked-BDEM01000280.1-processed-gene-1.7 | CM019751.1 | scaffold322_size15895_5397_7851_R_g991.t1 | 13 | 1.64 | – | – | |
| molecular_function | RNA polymerase II transcription factor activity, sequence-specific DNA binding | s00038g04288 | VYVB01000457.1 | scaffold3676_size7976_7043_7871_R_g6729.t1 | – | 3.91 | Transcription factor MYB, plant | MYB transcription factor |
| Catalytic activity | augustus_masked-BDEM01000023.1-processed-gene-3.11 | CM019750.1 | scaffold9629_size6575_659_6538_F_g13580.t1 | 12 | 1.89 | – | Anthocyanidin reductase-like | |
| RNA-directed DNA polymerase activity | s00241g13648 | CM019749.1 | scaffold105_size19749_4726_13077_F_g364.t1 | 11 | 0.40 | – | – | |
| Acid phosphatase activity | s00541g20410 | CM019739.1 | scaffold33766_size2261_1_691_R_g29715.t1 | 1 | 94.48 | – | Acid phosphatase | |
| Carbonate dehydratase activity | s00006g01019 | CM019743.1 | scaffold66917_size1159_1_710_F_g41455.t1 | 5 | 19.63 | Carbonic anhydrase | Carbonic anhydrase | |
| Polygalacturonase activity | s00391g17456 | CM019742.1 | scaffold69640_size1106_1_821_R_g42133.t1 | 4 | 11.35 | Polygalacturonase | Polygalacturonase | |
| Structural constituent of cell wall | augustus_masked-BDEM01000491.1-processed-gene-0.0 | CM019741.1 | scaffold26864_size2722_1596_2722_F_g26160.t1 | 3 | 6.21 | – | Extensin-2-like | |
| Cysteine-type peptidase activity | s00368g16967 | CM019740.1 | scaffold16048_size3908_1266_3908_F_g19086.t1 | 2 | 0.10 | – | Senescence-specific cysteine protease | |
| Hydrolase activity, acting on ester bonds | augustus_masked-BDEM01000490.1-processed-gene-0.6 | CM019745.1 | scaffold32446_size2338_1_1251_R_g29086.t1 | 7 | 0.51 | – | GDSL esterase/lipase | |
| Hydrolase activity, acting on glycosyl bonds | s12649g33674 | CM019740.1 | scaffold15871_size3937_1026_3845_F_g18949.t1 | 2 | 13.89 | – | Heparanase-like protein | |
| Ligase activity | s00006g01157 | CM019743.1 | scaffold29_size24094_17182_19171_R_g125.t1 | 5 | 2.00 | – | E3 ubiquitin-protein ligase | |
| Carbohydrate binding | s01131g27036 | CM019751.1 | scaffold27470_size2674_1086_2164_F_g26500.t1 | 13 | 132.87 | – | – | |
| Polysaccharide binding | s01280g27982 | CM019750.1 | scaffold40297_size1938_1_1151_R_g32576.t1 | 12 | 2.51 | – | Wall-associated receptor kinase-like | |
| NADP binding | s00058g05819 | CM019748.1 | scaffold11747_size4701_1_2111_R_g15510.t1 | 10 | 18.60 | – | Indole-3-pyruvate monooxygenase |
The genes were associated with biological processes, cellular components, and molecular function using the GO database; the chromosome location was assigned through the ‘Dottato’ genome database, while the putative gene function was assigned using the KEGG and NCBI databases.
GO, Gene Ontology; KEGG, Kyoto Encyclopedia of Genes and Genomes; NCBI, National Center for Biotechnology Information.