Table 3.
List of loci downregulated and expressed only in mammoni buds (from caprifig tree) obtained with the RNA-seq analysis.
| GO category | GO description | Locus | Locus ‘Dottato’ | Genes ‘Dottato’ | Chr | Expression level | KEGG annotation | NCBI annotation |
|---|---|---|---|---|---|---|---|---|
| biological_process | Signal peptide processing | s00652g22144 | CM019741.1 | scaffold11116_size4854_1_4781_R_g14964.t1 | 3 | 0.46 | – | Signal peptidase complex |
| Metabolic process | augustus_masked-BDEM01000001.1-processed-gene-12.10 | VYVB01000409.1 | scaffold8926_size9877_5197_6441_R_g12884.t1 | – | 2.41 | 7-Deoxyloganetin glucosyltransferase | 7-Deoxyloganetin glucosyltransferase | |
| Response to biotic stimulus | s00232g13405 | CM019746.1 | scaffold1415_size10907_236_1251_R_g3238.t1 | 8 | 0.23 | – | Pathogenesis-related protein | |
| Embryo development ending in seed dormancy | s00025g03175 | CM019750.1 | scaffold33232_size2291_1456_2259_F_g29464.t1 | 12 | 2.37 | Late embryogenesis abundant protein | ||
| Cell wall modification | s00266g14365 | CM019749.1 | scaffold33026_size2304_1_1441_R_g29371.t1 | 11 | 3.15 | Pectinesterase | Pectinesterase | |
| Lignin catabolic process | s00107g08572 | CM019742.1 | scaffold19235_size3477_1752_3101_R_g21415.t1 | 4 | 2.46 | Laccase | Laccase-15-like | |
| Positive regulation of response to water deprivation | s00033g03881 | CM019739.1 | scaffold20836_size3292_1356_2847_F_g22474.t1 | 1 | 82.83 | – | Late embryogenesis abundant protein | |
| cellular_ component |
Cell wall | s00172g11363 | CM019746.1 | scaffold190_size17850_11955_14011_R_g624.t1 | 8 | 1.46 | – | Late embryogenesis abundant protein D-34-like |
| Lipid particle | s00117g09066 | CM019744.1 | scaffold10586_size4980_2886_3789_F_g14489.t1 | 6 | 3.10 | – | Oleosin-like protein | |
| Monolayer-surrounded lipid storage body | s00177g11527 | CM019744.1 | scaffold13563_size4332_1905_2871_R_g17092.t1 | 6 | 1.36 | – | Oleosin-like protein | |
| molecular_function | d-Arabinono-1,4-lactone oxidase activity | s00046g04937 | CM019745.1 | scaffold51567_size1529_1_1529_R_g36765.t1 | 7 | 71.01 | – | Probable l-gulonolactone oxidase |
| DNA-directed RNA polymerase activity | s04066g31473 | CM019743.1 | scaffold10696_size4953_895_2491_R_g14581.t1 | 5 | 19.46 | – | – | |
| Diacylglycerol O-acyltransferase activity | augustus_masked-BDEM01003719.1-processed-gene-0.0 | VYVB01000496.1 | scaffold46893_size1677_1_1622_F_g35145.t1 | – | 3.28 | – | O-Acyltransferase WSD1-like | |
| N,N-Dimethylaniline monooxygenase activity | s00527g20163 | CM019740.1 | scaffold4834_size7176_1_2484_F_g8278.t1 | 2 | 4.45 | – | Probable flavin-containing monooxygenase | |
| Serine-type endopeptidase inhibitor activity | s00002g00355 | CM019748.1 | scaffold24423_size2926_2116_2521_R_g24725.t1 | 10 | 10.55 | – | Proteinase inhibitor | |
| UDP-N-Acetylmuramate dehydrogenase activity | s00046g04936 | CM019745.1 | scaffold43128_size1818_1226_1818_F_g33704.t1 | 7 | 22.85 | – | Probable l-gulonolactone oxidase | |
| Transferase activity, transferring hexosyl groups | s00001g00185 | VYVB01000409.1 | scaffold8926_size9877_7551_9631_R_g12885.t1 | – | 0.37 | 7-Deoxyloganetin glucosyltransferase | 7-Deoxyloganetin glucosyltransferase-like | |
| Manganese ion binding | s00318g15730 | CM019741.1 | scaffold6918_size6155_3146_4501_R_g10715.t1 | 3 | 0.16 | – | Germin-like protein subfamily 1 | |
| Nutrient reservoir activity | s00002g00296 | CM019748.1 | scaffold52422_size1504_1_1504_F_g37041.t1 | 10 | 341.93 | – | 11S globulin precursor isoform | |
| Protein heterodimerization activity | s00032g03793 | CM019739.1 | scaffold1820_size10111_484_1388_F_g3955.t1 | 1 | 1.36 | Nuclear transcription Y subunit beta | Nuclear transcription factor Y | |
| Peroxiredoxin activity | s00558g20689 | CM019749.1 | scaffold48362_size1626_1_451_R_g35683.t1 | 11 | 5.75 | Peroxiredoxin 6, 1-Cys peroxiredoxin | 1-Cys peroxiredoxin |
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.