Table 1 Identified key miRNA-mRNA interaction pairs for tartary buckwheat seed development
miRNA | Target gene ID | Annotation of targets | Function of targets | Orthologs | Pearson | P-value |
|---|---|---|---|---|---|---|
fta-miR156c-5p | FtPinG0000496000.01 | Squamosa promoter binding-like protein 16 | Grain size and quality | OsSPL16/Os08g0531600 | −0.70892 | 0.00340 |
fta-miR156h-5p | FtPinG0001940300.01 | Nodulin MtN21-like transporter family protein | NA | AT1G21890.1 | −0.86151 | 0.00021 |
FtPinG0005289100.01 | Ceramide synthase | Long chain fatty acid biosynthesis | AT1G13580.1 | −0.91146 | 0.00033 | |
FtPinG0005522500.01 | JAZ protein 9 | Response to jasmonic acid | AT1G70700.1 | −0.91696 | 0.00024 | |
FtPinG0005624200.01 | CELLULOSE SYNTHASE-INTERACTIVE PROTEIN 1 | Cell elongation | AT2G22125.1 | −0.80006 | 0.00044 | |
FtPinG0009120200.01 | Sulfite exporter TauE/SafE family protein | NA | AT1G61740.1 | −0.93448 | 0.00228 | |
fta-miR157-5p | FtPinG0007350700.01 | DNA replication protein | Cell proliferation, embryo development, pollen development, | AT2G16440.1 | −0.87897 | 0.00077 |
FtPinG0008009600.01 | NPH3-like protein | Involved in auxin-mediated organogenesis | AT4G37590.1 | −0.92728 | 0.00073 | |
fta-miR164a-5p | FtPinG0000240100.01 | NAC domain-containing protein 1 | Involved in shoot apical meristem formation and auxin-mediated lateral root formation, auxin response, plant growth and abiotic stress resistance | AT1G56010.1 | −0.89303 | 0.00275 |
FtPinG0003134600.01 | NAC domain-containing protein 1 | Involved in shoot apical meristem formation and auxin-mediated lateral root formation, auxin response, plant growth and abiotic stress resistance | AT1G56010.1 | −0.818700 | 0.00281 | |
FtPinG0002339300.01 | NAC domain-containing protein 5 | NA | AT5G61430.1 | −0.83097 | 0.00842 | |
fta-miR164c-5p | FtPinG0006614900.01 | Putative ligands homologous to the Clavata3 gene | Regulates stomatal and vascular development, stomatal closure | AT1G26600.1 | −0.75278 | 0.00301 |
fta-miR166b-3p | FtPinG0006632200.01 | Mn transporter 8 | Mn transport, Mn and Fe enrichment in seed embryos | AT3G58060.1 | −0.68351 | 0.00137 |
FtPinG0006851000.01 | Glutathione transferase 8 | Auxin, cytokinin, drought, and oxidative stress response | AT1G78380.1 | −0.84863 | 0.02431 | |
FtPinG0009174800.01 | Uncharacterized protein | NA | AT5G54980.1 | −0.82859 | 0.00233 | |
fta-miR166c-3p | FtPinG0008845600.01 | Homeodomain-leucine zipper protein 8 | Involved in cell differentiation and proliferation, auxin response | AT4G32880.1 | −0.77425 | 0.00131 |
fta-miR166g-3p | FtPinG0008326500.01 | NA | NA | NA | −0.64002 | 0.00146 |
fta-miR166i-5p | FtPinG0004865100.01 | Pentatricopeptide repeat protein | Cell proliferation during embryogenesis, embryo development | AT3G06430.1 | −0.95992 | 0.000002 |
fta-miR166j-3p | FtPinG0009852300.01 | Clathrin adaptor complexes medium subunit family protein | Vesicle-mediated transport | AT1G10730.1 | −0.66005 | 0.00071 |
fta-miR167c-5p | FtPinG0002560000.01 | NAC domain-containing protein | Grain size | NAC024/Os05g0415400 | −0.73942 | 0.00003 |
FtPinG0005477800.01 | RING/U-box superfamily protein | NA | AT1G24440.1 | −0.79803 | 0.00003 | |
fta-miR390a-5p | FtPinG0008213400.01 | Polygalacturonase inhibiting protein | Involved in defense response | AT5G06860.1 | −0.82038 | 0.00261 |
fta-miR396a-5p | FtPinG0000680700.01 | Sucrose synthase | Starch and cellulose biosynthesis, grain size and grain weight | SUS3/Os07g0616800 | −0.72690 | 0.00059 |
FtPinG0003172000.01 | Neutral ceramidase | Sphingolipid homeostasis, oxidative stress responses, ceramide catabolic process, long-chain fatty acid biosynthetic | AT1G07380.1 | −0.78815 | 0.00060 | |
FtPinG0005517700.01 | Phosphoglucomutase 2 | Plant growth; seed, root, male and female gametophyte development, and carbohydrate partitioning | AT1G70730.1 | −0.69606 | 0.00076 | |
fta-miR396c-3p | FtPinG0005040200.01 | Sulfur dioxygenase | Embryo and endosperm development, abiotic stress resistance, | T1G53580.1 | −0.778492 | 0.00799 |
fta-miR396d-3p | FtPinG0007060600.01 | Kinase interacting (KIP1-like) family protein | NA | AT2G22560.1 | −0.65160 | 0.01957 |
fta-miR396g-5p | FtPinG0005901900.01 | Chloroplast-localized protein with a zinc finger motif and four GTP-binding domains | Brassinosteroid responses, positive regulation of carotenoid and chlorophyll biosynthetic process | AT3G57180.1 | −0.59428 | 0.00063 |
FtPinG0009355400.01 | Chloroplast RNA editing factor | NA | AT1G08070.1 | −0.54344 | 0.00062 | |
fta-miR399b-3p | FtPinG0002932000.01 | Alkaline/neutral invertase | Modulating hormone balance, sucrose catabolic | AT3G06500.1 | −0.57593 | 0.00190 |
FtPinG0003424700.01 | Phosphate transporter | Phosphate transport and homeostasis | AT3G54700.1 | −0.81570 | 0.00232 | |
fta-miR530c-5p | FtPinG0002594600.01 | GRF1-interacting factor 3 | Regulates the sizes of stems, leaves, and grains | OsGIF1/Os03g0733600 | −0.59617 | 0.01955 |
fta-miR858a-5p | FtPinG0000919400.01 | MYB transcription factor 13 | Regulation of flower development, responses to cold stress | AT1G06180.1 | −0.91268 | 0.00001 |
FtPinG0001149900.01 | RNA recognition motif (RRM)-containing protein | Involved in phytochrome B signal transduction | AT5G25060.1 | −0.53630 | 0.00001 | |
FtPinG0002607600.01 | Parallel spindle 1 | Pollen development | AT1G34355.1 | −0.71400 | 0.00001 | |
FtPinG0003084400.01 | DNA-binding bromodomain-containing protein | NA | AT5G55040.1 | −0.54089 | 0.00001 | |
FtPinG0003543800.01 | MYB transcription factor 7 | Inhibition of seed germination | AT2G16720.1 | −0.76017 | 0.00001 | |
FtPinG0005011800.01 | MYB transcription factor 5 | Regulation trichome and endosperm development | AT3G13540.1 | −0.79056 | 0.00001 | |
FtPinG0007213700.01 | MYB transcription factor 123 | Regulation the proanthocyanidin accumulation of developing seed | AT5G35550.1 | −0.89174 | 0.00001 | |
FtPinG0007214000.01 | MYB transcription factor 23 | Regulate trichome formation | AT5G40330.1 | −0.797669 | 0.00001 | |
FtPinG0008420900.01 | MYB transcription factor 103 | Regulate cellulose and lignin biosynthesis | AT1G63910.1 | −0.934255 | 0.00001 | |
FtPinG0009153900.01 | MYB transcription factor 12 | Regulate flavonol biosynthesis | AT2G47460.1 | −0.935509 | 0.00001 | |
fta_novel_miR17 | FtPinG0000491900.01 | receptor-like kinase | Regulation of secondary growth, protein phosphorylation | AT5G67280.1 | −0.98523 | 0.00002 |
FtPinG0000612500.01 | Calcium binding protein | Involved in photomorphogensis | AT4G08810.1 | −0.75677 | 0.00002 | |
FtPinG0001194500.01 | Calcium binding protein | Involved in photomorphogensis | AT4G08810.1 | −0.98204 | 0.00002 | |
FtPinG0005891600.01 | SUMO protease | Regulation flowering, shoot and inflorescence development. | AT4G15880.1 | −0.96316 | 0.00002 | |
FtPinG0007576600.01 | Argonaute protein | Regulate the development of embryo and shoot meristem development, embryo development, seed size | AGO17/AK240838 | −0.54760 | 0.00002 | |
fta_novel_miR37 | FtPinG0004072300.01 | CBL-interacting protein kinase | Response to salt and osmotic stress, protein phosphorylation | AT5G57630.1 | −0.56995 | 0.00126 |
FtPinG0004651400.01 | Intrinsic thylakoid membrane protein | NA | AT2G17750.1 | −0.87363 | 0.00773 | |
fta_novel_miR41 | FtPinG0002471300.01 | Carboxyesterase 13 | NA | AT3G48700.1 | −0.55115 | 0.00159 |
FtPinG0007248800.01 | Receptor-like protein kinase | Defense response to bacterium, protein phosphorylation | AT4G23180.1 | −0.79183 | 0.00150 | |
fta_novel_miR55 | FtPinG0005410000.01 | MYB transcription factor 73 | Auxin and abiotic stress responses a | MYB73/AT4G37260.1 | −0.63527 | 0.01789 |
fta_novel_miR118 | FtPinG0003617400.01 | GRAS transcription factor 15 | Cell differentiation, repressing the seed maturation programme, | AT4G36710.1 | −0.88771 | 0.01772 |
fta_novel_miR123 | FtPinG0000299300.01 | C2H2 zinc finger protein | Transfer cell differentiation | AT4G27240.1 | −0.65706 | 0.00569 |
FtPinG0003531700.01 | CONSTANS-like 5 | Flower development, and flowering | AT5G57660.1 | −0.65534 | 0.00585 | |
FtPinG0006913600.01 | Galactosyltransferase family protein | Embryo development | GALT31A/AT1G32930.1 | −0.64824 | 0.00570 |