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Research article
Haiyan Yu
Chinese Academy of Forestry
Corresponding Author
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This work is licensed under a CC BY 4.0 License. Read Full License
Background: Chinese cork oak (Quercus variabilis) is a widely distributed and highly valuable deciduous broadleaf tree from both ecological and economic perspectives. Seeds of Q. variabilis are recalcitrant, i.e., sensitive to desiccation, which affects their storage and long-term preservation of germplasm. However, little is known about the underlying mechanism of desiccation sensitivity of Q. variabilis seeds.
Results: In this study, the seeds were desiccated with silica gel for 0 day (control, CK), one day (T1) to 15 days (T15). After desiccation, the transcriptomic profiles of these different desiccation stages were compared using the Quercus suber genome as a reference, as well four key stages (CK, T2, T4 and T11) of desiccation sensitivity of Q. variabilis seeds through germination test were identified. A total of 4405, 4441, and 5907 differentially expressed genes (DEGs) were identified in T2 vs CK, T4 vs CK, and T11 vs CK, respectively. Among them, 2219 DEGs were overlapped in the three comparison groups. KEGG (Kyoto Encyclopaedia of Genes and Genomes) enrichment analysis showed that these DEGs were enriched into 124 pathways, such as "plant hormone signal transduction" and "glycerophospholipid metabolism". DEGs related to hormone synthesis and signal transduction (ZEP, YUC, PYR, ABI5, ERF1B, etc), stress response proteins (LEA D-29, HSP70, etc), and phospholipase D (PLD1) were detected during seed desiccation. These genes and their interactions may regulate the desiccation sensitivity of Q. variabilis seeds. Finally, a possible work model was proposed to show the molecular regulation mechanism of desiccation sensitivity in recalcitrant Q. variabilis seeds
Conclusions: Our study is the first on the molecular regulation mechanism of desiccation sensitivity of Q. variabilis seeds by using RNA-Seq and propose a possible work model. Our findings could make a great contribute to seed storage and long-term conservation of germplasm resources of recalcitrant seeds in the future.
Keywords
Quercus variabilis, recalcitrant seeds, desiccation sensitivity, transcriptome, differentially expressed genes, storage
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This is a list of supplementary files associated with this preprint. Click to download.
- AdditionalFileTableS1.docx
Additional File: Table S1. Statistics of transcriptome sequencing data.
- AdditionalFileTableS2.xlsx
Additional File: Table S2. Differentially expressed genes in Quercus variabilis seeds during desiccation.
- AdditionalFileTableS3.xlsx
Additional File: Table S3. Gene Ontology annotation of DEGs in Quercus variabilis seeds during desiccation.
- AdditionalFileTableS4.xlsx
Additional File: Table S4. Kyoto Encyclopaedia of Genes and Genomes annotation of DEGs in Quercus variabilis seeds during desiccation.
- AdditionalFileTableS5.docx
Additional File: Table S5. Primer sequences for qRT-PCR.
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A new preprint design is coming!
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This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Research article
Haiyan Yu
Chinese Academy of Forestry
Corresponding Author
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Posted
Version 1
Posted 02 Dec, 2020
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background: Chinese cork oak (Quercus variabilis) is a widely distributed and highly valuable deciduous broadleaf tree from both ecological and economic perspectives. Seeds of Q. variabilis are recalcitrant, i.e., sensitive to desiccation, which affects their storage and long-term preservation of germplasm. However, little is known about the underlying mechanism of desiccation sensitivity of Q. variabilis seeds.
Results: In this study, the seeds were desiccated with silica gel for 0 day (control, CK), one day (T1) to 15 days (T15). After desiccation, the transcriptomic profiles of these different desiccation stages were compared using the Quercus suber genome as a reference, as well four key stages (CK, T2, T4 and T11) of desiccation sensitivity of Q. variabilis seeds through germination test were identified. A total of 4405, 4441, and 5907 differentially expressed genes (DEGs) were identified in T2 vs CK, T4 vs CK, and T11 vs CK, respectively. Among them, 2219 DEGs were overlapped in the three comparison groups. KEGG (Kyoto Encyclopaedia of Genes and Genomes) enrichment analysis showed that these DEGs were enriched into 124 pathways, such as "plant hormone signal transduction" and "glycerophospholipid metabolism". DEGs related to hormone synthesis and signal transduction (ZEP, YUC, PYR, ABI5, ERF1B, etc), stress response proteins (LEA D-29, HSP70, etc), and phospholipase D (PLD1) were detected during seed desiccation. These genes and their interactions may regulate the desiccation sensitivity of Q. variabilis seeds. Finally, a possible work model was proposed to show the molecular regulation mechanism of desiccation sensitivity in recalcitrant Q. variabilis seeds
Conclusions: Our study is the first on the molecular regulation mechanism of desiccation sensitivity of Q. variabilis seeds by using RNA-Seq and propose a possible work model. Our findings could make a great contribute to seed storage and long-term conservation of germplasm resources of recalcitrant seeds in the future.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
Figure 8
Figure 9
Figure 10
This is a list of supplementary files associated with this preprint. Click to download.
- AdditionalFileTableS1.docx
Additional File: Table S1. Statistics of transcriptome sequencing data.
- AdditionalFileTableS2.xlsx
Additional File: Table S2. Differentially expressed genes in Quercus variabilis seeds during desiccation.
- AdditionalFileTableS3.xlsx
Additional File: Table S3. Gene Ontology annotation of DEGs in Quercus variabilis seeds during desiccation.
- AdditionalFileTableS4.xlsx
Additional File: Table S4. Kyoto Encyclopaedia of Genes and Genomes annotation of DEGs in Quercus variabilis seeds during desiccation.
- AdditionalFileTableS5.docx
Additional File: Table S5. Primer sequences for qRT-PCR.
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