Systematic Analysis of Alkaline/Neutral Invertase Genes Reveals the Involvement of Smi-miR399 in Regulation of SmNINV3 and SmNINV4 in Salvia miltiorrhiza
Abstract
:1. Introduction
2. Results
2.1. Genome-Wide Identification and Characterization of the SmNINV Gene Family
2.2. Structure and Phylogenetic Analysis of SmNINVs
2.3. Expression Patterns of SmNINVs in Different Organs and Root Tissues
2.4. Expression of SmNINVs in Response to Drought, Salicylic Acid (SA), Yeast Extract (YE) and Methyl Jasmonate (MeJA) Treatments
2.5. MiR399-Mediated Posttranscriptional Regulation of NINVs
2.6. MiR399-Mediated Posttranscriptional Regulation of SmPHO2
2.7. The Effect of Exogenous Sucrose on miR399s, SmNINV3, and SmNINV4 Expression in S. miltiorrhiza
3. Discussion
4. Conclusions
5. Materials and Methods
5.1. Plant Materials and Growth Conditions
5.2. SmNINV Gene Identification
5.3. Sequence Alignment and Phylogenetic Analysis
5.4. RNA Extraction and qRT-PCR Analysis
5.5. RNA-seq Data and Bioinformatic Analysis
5.6. Identification of S. miltiorrhiza miRNAs Potentially Targeting SmNINVs
5.7. 5′ RLM-RACE Validation of miR399-Directed Cleavage
Supplementary Materials
Author Contributions
Funding
Conflicts of Interest
References
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Gene Name | Gene Length (bp) | ORF Length (bp) | Protein Length (aa) | MW (kDa) | No. of Intron | pI | Loc a | TPlen b |
---|---|---|---|---|---|---|---|---|
SmNINV1 | 3088 | 1962 | 653 | 74.09 | 4 | 6.55 | C | 8 |
SmNINV2 | 2535 | 2028 | 675 | 76.15 | 4 | 5.99 | C | 34 |
SmNINV3 | 2954 | 1923 | 640 | 72.17 | 5 | 6.51 | C | 47 |
SmNINV4 | 2843 | 1851 | 616 | 69.86 | 5 | 8.67 | C | 44 |
SmNINV5 | 2796 | 1818 | 605 | 67.6 | 3 | 5.53 | - | - |
SmNINV6 | 2648 | 1731 | 576 | 65.68 | 3 | 6.09 | - | - |
SmNINV7 | 3112 | 1704 | 567 | 64.72 | 3 | 6.2 | - | - |
SmNINV8 | 2701 | 1710 | 569 | 64.61 | 3 | 6.02 | - | - |
SmNINV9 | 2395 | 1713 | 570 | 64.73 | 3 | 6.41 | - | - |
Plant Species | miR399 Members Involved | miR399-Regulated NINVs | Methods Used for Analysis |
---|---|---|---|
S. miltiorrhiza | Smi-miR399a–Smi-miR399e | SmNINV3 and SmNINV4 | Computational prediction, degradome analysis, and 5’ RLM-RACE validation |
A. thaliana | Ath-miR399b, Ath-miR399c | AT1G56560 and AT3G06500 | Computational prediction and degradome analysis |
P. trichocarpa | Ptc-miR399i | PtNINV3, PtNINV4, and PtNINV6 | Computational prediction |
M. esculenta | Mes-miR399f | MeNINV6, MeNINV7, and MeNINV10 | Computational prediction |
S. lycopersicum | Sly-miR399 | SlNINV1 | Computational prediction |
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Zhou, H.; Li, C.; Qiu, X.; Lu, S. Systematic Analysis of Alkaline/Neutral Invertase Genes Reveals the Involvement of Smi-miR399 in Regulation of SmNINV3 and SmNINV4 in Salvia miltiorrhiza. Plants 2019, 8, 490. https://doi.org/10.3390/plants8110490
Zhou H, Li C, Qiu X, Lu S. Systematic Analysis of Alkaline/Neutral Invertase Genes Reveals the Involvement of Smi-miR399 in Regulation of SmNINV3 and SmNINV4 in Salvia miltiorrhiza. Plants. 2019; 8(11):490. https://doi.org/10.3390/plants8110490
Chicago/Turabian StyleZhou, Hong, Caili Li, Xiaoxiao Qiu, and Shanfa Lu. 2019. "Systematic Analysis of Alkaline/Neutral Invertase Genes Reveals the Involvement of Smi-miR399 in Regulation of SmNINV3 and SmNINV4 in Salvia miltiorrhiza" Plants 8, no. 11: 490. https://doi.org/10.3390/plants8110490