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Research article
Jianmin Bian
Jiangxi Agricultural University
Corresponding Author
ORCiD: https://orcid.org/0000-0003-3703-379X
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background: In general, the Cd content in indica rice is usually higher than that in japonica. However, the mechanism for this discrepancy is unclear. Thus, understanding the genetic and molecular basis of Cd stress between indica and japonica is extremely important for rice improvement programs.
Results: In this study, two varieties of rice, japonica 02428 and indica CH891, were continuously exposed to Cd and seedlings of the two varieties at two critical stages (3rd and 5th day) were selected for the dynamic genes analysis by transcriptome method. The results showed that CH891 was more sensitive to Cd than 02428, and a total of 7,204 and 6,670 differently expressed genes (DEGs) associated with Cd stress were detected at 3rd day and 5th day. Furthermore, we divided these DEGs into three categories: SCR (sensitive variety with Cd-responsive), RCR (resistant variety with Cd-responsive) and CCR (common Cd-responsive). The enriched metabolic pathways analysis of DEGs preferentially expressed in a stage-specific and cultivars-specific manner, and secondary metabolic processes were enriched in SCR while protein metabolism and plant hormone were enriched in RCR. The diverted metabolic pathways might be the major cause for different response mechanism of Cd in indica and japonica rice.
Conclusion: These results provide a novel insight into the Cd response mechanism in rice seedlings between different varieties, and these important Cd-responsive DEGs were frequently involved in specific biological processes and metabolic pathways that might provide a novel insight over indica and japonica rice Cd response mechanism difference.
Keywords
rice, Cd stress, seedling, transcriptome analysis, indica, japonica
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CURRENT STATUS: Under Revision
The most recent version of this article is available here.
No community comments so far
Editorial decision: Major revision
On 26 Dec, 2020
Review #2 received
Received 17 Nov, 2020
Review #1 received
Received 10 Nov, 2020
Reviewer #2 agreed
On 09 Nov, 2020
Reviewers invited
Invitations sent on 06 Nov, 2020
Reviewer #1 agreed
On 06 Nov, 2020
Editor assigned
On 31 Oct, 2020
Submission checks complete
On 31 Oct, 2020
Editor invited
On 31 Oct, 2020
Version 1
Posted 08 Sep, 2020
No comments provided
Editorial decision: Major revision
On 29 Sep, 2020
Review #2 received
Received 26 Sep, 2020
Review #1 received
Received 13 Sep, 2020
Reviewer #1 agreed
On 09 Sep, 2020
Reviewer #2 agreed
On 09 Sep, 2020
Reviewers invited
Invitations sent on 08 Sep, 2020
Editor assigned
On 01 Sep, 2020
Submission checks complete
On 31 Aug, 2020
Editor invited
On 31 Aug, 2020
First submitted
On 29 Aug, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
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A new preprint design is coming!
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This preprint is under consideration at BMC Genomics. A preprint is 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.
Learn more about In Review
Research article
Jianmin Bian
Jiangxi Agricultural University
Corresponding Author
ORCiD: https://orcid.org/0000-0003-3703-379X
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Under Revision
The most recent version of this article is available here.
No community comments so far
Editorial decision: Major revision
On 26 Dec, 2020
Review #2 received
Received 17 Nov, 2020
Review #1 received
Received 10 Nov, 2020
Reviewer #2 agreed
On 09 Nov, 2020
Reviewers invited
Invitations sent on 06 Nov, 2020
Reviewer #1 agreed
On 06 Nov, 2020
Editor assigned
On 31 Oct, 2020
Submission checks complete
On 31 Oct, 2020
Editor invited
On 31 Oct, 2020
Version 1
Posted 08 Sep, 2020
No comments provided
Editorial decision: Major revision
On 29 Sep, 2020
Review #2 received
Received 26 Sep, 2020
Review #1 received
Received 13 Sep, 2020
Reviewer #1 agreed
On 09 Sep, 2020
Reviewer #2 agreed
On 09 Sep, 2020
Reviewers invited
Invitations sent on 08 Sep, 2020
Editor assigned
On 01 Sep, 2020
Submission checks complete
On 31 Aug, 2020
Editor invited
On 31 Aug, 2020
First submitted
On 29 Aug, 2020
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
The most recent version of this article is available here.
Background: In general, the Cd content in indica rice is usually higher than that in japonica. However, the mechanism for this discrepancy is unclear. Thus, understanding the genetic and molecular basis of Cd stress between indica and japonica is extremely important for rice improvement programs.
Results: In this study, two varieties of rice, japonica 02428 and indica CH891, were continuously exposed to Cd and seedlings of the two varieties at two critical stages (3rd and 5th day) were selected for the dynamic genes analysis by transcriptome method. The results showed that CH891 was more sensitive to Cd than 02428, and a total of 7,204 and 6,670 differently expressed genes (DEGs) associated with Cd stress were detected at 3rd day and 5th day. Furthermore, we divided these DEGs into three categories: SCR (sensitive variety with Cd-responsive), RCR (resistant variety with Cd-responsive) and CCR (common Cd-responsive). The enriched metabolic pathways analysis of DEGs preferentially expressed in a stage-specific and cultivars-specific manner, and secondary metabolic processes were enriched in SCR while protein metabolism and plant hormone were enriched in RCR. The diverted metabolic pathways might be the major cause for different response mechanism of Cd in indica and japonica rice.
Conclusion: These results provide a novel insight into the Cd response mechanism in rice seedlings between different varieties, and these important Cd-responsive DEGs were frequently involved in specific biological processes and metabolic pathways that might provide a novel insight over indica and japonica rice Cd response mechanism difference.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
This is a list of supplementary files associated with this preprint. Click to download.
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