Transcriptomic Analysis of Flower Blooming in Jasminum sambac through De Novo RNA Sequencing
Abstract
:1. Introduction
2. Results and Discussion
2.1. RNA-Seq and Assembly
Stage T1 | Stage T2 | |
---|---|---|
Read Number | 19,681,589 | 22,671,385 |
Base Number | 3,975,056,593 | 4,569,637,577 |
GC Content | 45.27% | 44.64% |
Q30 | 91.36% | 90.51% |
Length Range | Contig | Transcript | Unigene |
---|---|---|---|
200–300 | 3,688,028 (98.93%) | 19,287 (17.01%) | 16,596 (33.34%) |
300–500 | 14,475 (0.39%) | 15,583 (13.74%) | 11,230 (22.56%) |
500–1000 | 11,261 (0.30%) | 19,231 (16.96%) | 8681 (17.44%) |
1000–2000 | 9133 (0.24%) | 29,990 (26.45%) | 7938 (15.95%) |
2000+ | 4944 (0.13%) | 29,303 (25.84%) | 5327 (10.70%) |
Total Number | 3727,841 | 113,394 | 49,772 |
Total Length (bp) | 184,557,344 | 161,608,199 | 42,105,276 |
Mean Length (bp) | 49.51 | 1425.19 | 845.96 |
2.2. Transcriptome Functional Annotation
2.3. Differentially-Expressed Genes
2.4. Manual Identification of Flower Development and Floral Scent Genes
2.5. Discussion
Category of Floral Scent | Aromatic Constituents | Relative Content | No. of Genes | Gene Annotation (Gene ID, Red Letters: Upregulated; Green Letters: Downregulated) |
---|---|---|---|---|
Terpenoids | 1. linalool | 20.1002 | 4 | nerolidol/linalool synthase 2 (c19704.graph_c0); |
nerolidol/linalool synthase 1 (c10900.graph_c0); | ||||
linalool/myrcene synthase (c47600.graph_c0); | ||||
(E,E)-geranyllinalool synthase (c22241.graph_c0) | ||||
2. alpha-farnesene | 15.3245 | 43 | farnesyltransferase (c29468.graph_c0, c19601.graph_c0, c19799.graph_c0, c18836.graph_c0, c28581.graph_c0, c21749.graph_c1, c44587.graph_c0, c21456.graph_c0, c19099.graph_c0, c26508.graph_c1, c23779.graph_c0, c27539.graph_c0, c19768.graph_c0, c18630.graph_c, c17297.graph_c0, c19238.graph_c0, c13627.graph_c0, c20898.graph_c0, c27921.graph_c0, c26781.graph_c0, c12589.graph_c0, c29535.graph_c0, c8542.graph_c0, c1513.graph_c0, c9983.graph_c0, c28404.graph_c0, c19351.graph_c0, c25991.graph_c0, c27643.graph_c0, c13707.graph_c0, c23982.graph_c0, c29287.graph_c0, c10574.graph_c0, c21749.graph_c0, c40793.graph_c0, c24574.graph_c0); | |
farnesyl pyrophosphate synthase (c27053.graph_c0); | ||||
farnesyl-diphosphate farnesyltransferase (c30449.graph_c0, c15924.graph_c0, c36413.graph_c0, c30433.graph_c0, c26200.graph_c0, c30372.graph_c0); | ||||
farnesyl diphosphate synthase (c22132.graph_c0) | ||||
3. Hexanoic acid, 3-hexenyl ester | 2.4303 | 0 | - | |
4. alpha-caryophyllene | 2.3001 | 1 | terpene synthase 3 (c29392.graph_c0) | |
5. Germacrene D | 1.5928 | 2 | bicyclogermacrene synthase (c35308.graph_c0); germacrene-D synthase (c15826.graph_c1) | |
Benzenoids/Phenylpropanoids | 6. 3-Hexen-1-ol, benzoate | 30.4966 | 8 | o-succinylbenzoate-CoA ligase (c29960.graph_c0, c11812.graph_c0, c32591.graph_c0, c28597.graph_c0, c35614.graph_c0) |
hexaprenyldihydroxybenzoate methyltransferase (c24032.graph_c0) | ||||
(Z)-3-hexen-1-ol acetyltransferase (c30458.graph_c0, c30940.graph_c0) | ||||
7. Acetic acid, phenylmenthyl ester | 29.4231 | 8 | phenylalanine ammonia-lyase (c15788.graph_c0, c30394.graph_c0, c16474.graph_c0, c15481.graph_c0, c11285.graph_c0); | |
phenylacetaldehyde reductase (c30130.graph_c0, c29940.graph_c0, | ||||
c5943.graph_c0); | ||||
8. Methyl salicylate | 8.2246 | 8 | methyl salicylate esterase (c30688.graph_c0, c3125.graph_c0, c29061.graph_c0, c17812.graph_c0, c31454.graph_c0, c11814.graph_c0, c30703.graph_c0); | |
Salicylate O-methyltransferase (c32548.graph_c0); | ||||
9. Benzyl benzoate | 7.8029 | 3 | phenylcoumaran benzylic ether reductase (c22406.graph_c0, c28180.graph_c0, c9894.graph_c0); | |
10. Indole | 6.5240 | 3 | Indole-3-acetic acid-amido synthetase (c11944.graph_c0, c25369.graph_c0, c25323.graph_c0) | |
11. Benzoic acid, cyclohexyl ester | 5.2911 | 0 | - | |
12. Salicylic acid, 3-hexenyl ester | 2.4519 | 1 | - | |
13. Benzoic acid, 2-hydroxy-, phenyl | 2.0409 | 0 | - | |
14. Benzoic acid, methyl ester | 1.7692 | 0 | - | |
15. Benzyl alcohol | 1.5769 | 7 | benzyl alcohol O-benzoyltransferase (c17166.graph_c0, c8299.graph_c0, c26169.graph_c0, c30012.graph_c0); benzyl alcohol benzoyl transferase (c18321.graph_c0, c30940.graph_c0, c24915.graph_c0) |
3. Experimental Section
3.1. Plant Material
3.2. RNA Isolation, Library Construction and Sequencing
3.3. Sequence Cleaning, Assembly and Contig Annotation
3.4. Expression Annotation
4. Conclusions
Supplementary Materials
Acknowledgments
Author Contributions
Conflicts of Interest
References
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Li, Y.-H.; Zhang, W.; Li, Y. Transcriptomic Analysis of Flower Blooming in Jasminum sambac through De Novo RNA Sequencing. Molecules 2015, 20, 10734-10747. https://doi.org/10.3390/molecules200610734
Li Y-H, Zhang W, Li Y. Transcriptomic Analysis of Flower Blooming in Jasminum sambac through De Novo RNA Sequencing. Molecules. 2015; 20(6):10734-10747. https://doi.org/10.3390/molecules200610734
Chicago/Turabian StyleLi, Yong-Hua, Wei Zhang, and Yong Li. 2015. "Transcriptomic Analysis of Flower Blooming in Jasminum sambac through De Novo RNA Sequencing" Molecules 20, no. 6: 10734-10747. https://doi.org/10.3390/molecules200610734