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
Shou Zhou
Corresponding Author
ORCiD: https://orcid.org/0000-0002-2047-5885
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background: Activated charcoal (AC) is highly adsorbent and is often used to promote seedling growth in plant tissue culture; however, the underlying molecular mechanism remains unclear. In this study, root and leaf tissues of 10-day-old seedlings grown via immature embryo culture in the presence or absence of AC in the culture medium were subjected to global transcriptome analysis by RNA sequencing to provide insights into the effects of AC on seedling growth.
Results: In total, we identified 18,555 differentially expressed genes (DEGs). Of these, 11,182 were detected in the roots and 7,373 in the leaves. In seedlings grown in the presence of AC, 9,460 DEGs were upregulated and 7,483 DEGs were downregulated in the presence of AC as compared to the control. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis revealed 254 DEG-enriched pathways, 226 of which were common between roots and leaves. Further analysis of the major metabolic pathways revealed that AC stimulated the expression of nine genes in the phenylpropanoid biosynthesis pathway, including PLA, CYP73A, COMT, CYP84A, and 4CL , the protein products of which promote cell differentiation and seedling growth. Further, AC upregulated genes involved in plant hormone signaling related to stress resistance and disease resistance, including EIN3, BZR1, JAR1, JAZ , and PR1 , and downregulated genes related to plant growth inhibition, including BKI1, ARR-B , DELLA , and ABF .
Conclusions: Growth medium containing AC promotes seedling growth by increasing the expression of certain genes in the phenylpropanoid biosynthesis pathway, which are related to cell differentiation and seedling growth, as well as genes involved in plant hormone signaling, which is related to resistance.
Keywords
RNA sequencing; wheat; immature embryo culture; phenylpropanoid biosynthesis; plant hormone signal transduction
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CURRENT STATUS: Published
View the published article at BMC Genetics.
Version 2
Posted 10 Jun, 2020
No community comments so far
Editorial decision: Accept
On 23 Jun, 2020
Editor assigned
On 04 Jun, 2020
Submission checks complete
On 03 Jun, 2020
Editor invited
On 03 Jun, 2020
No comments provided
Editorial decision: Major revision
On 04 Apr, 2020
Review #3 received
Received 18 Mar, 2020
Review #2 received
Received 15 Mar, 2020
Reviewer #3 agreed
On 08 Mar, 2020
Reviewer #2 agreed
On 05 Mar, 2020
Review #1 received
Received 07 Dec, 2019
Reviewer #1 agreed
On 24 Nov, 2019
Reviewers invited
Invitations sent on 21 Nov, 2019
Submission checks complete
On 27 Aug, 2019
Editor invited
On 27 Aug, 2019
Editor assigned
On 23 Aug, 2019
First submitted
On 18 Aug, 2019
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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
Shou Zhou
Corresponding Author
ORCiD: https://orcid.org/0000-0002-2047-5885
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Published
View the published article at BMC Genetics.
Version 2
Posted 10 Jun, 2020
No community comments so far
Editorial decision: Accept
On 23 Jun, 2020
Editor assigned
On 04 Jun, 2020
Submission checks complete
On 03 Jun, 2020
Editor invited
On 03 Jun, 2020
No comments provided
Editorial decision: Major revision
On 04 Apr, 2020
Review #3 received
Received 18 Mar, 2020
Review #2 received
Received 15 Mar, 2020
Reviewer #3 agreed
On 08 Mar, 2020
Reviewer #2 agreed
On 05 Mar, 2020
Review #1 received
Received 07 Dec, 2019
Reviewer #1 agreed
On 24 Nov, 2019
Reviewers invited
Invitations sent on 21 Nov, 2019
Submission checks complete
On 27 Aug, 2019
Editor invited
On 27 Aug, 2019
Editor assigned
On 23 Aug, 2019
First submitted
On 18 Aug, 2019
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at BMC Genetics.
Background: Activated charcoal (AC) is highly adsorbent and is often used to promote seedling growth in plant tissue culture; however, the underlying molecular mechanism remains unclear. In this study, root and leaf tissues of 10-day-old seedlings grown via immature embryo culture in the presence or absence of AC in the culture medium were subjected to global transcriptome analysis by RNA sequencing to provide insights into the effects of AC on seedling growth.
Results: In total, we identified 18,555 differentially expressed genes (DEGs). Of these, 11,182 were detected in the roots and 7,373 in the leaves. In seedlings grown in the presence of AC, 9,460 DEGs were upregulated and 7,483 DEGs were downregulated in the presence of AC as compared to the control. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis revealed 254 DEG-enriched pathways, 226 of which were common between roots and leaves. Further analysis of the major metabolic pathways revealed that AC stimulated the expression of nine genes in the phenylpropanoid biosynthesis pathway, including PLA, CYP73A, COMT, CYP84A, and 4CL , the protein products of which promote cell differentiation and seedling growth. Further, AC upregulated genes involved in plant hormone signaling related to stress resistance and disease resistance, including EIN3, BZR1, JAR1, JAZ , and PR1 , and downregulated genes related to plant growth inhibition, including BKI1, ARR-B , DELLA , and ABF .
Conclusions: Growth medium containing AC promotes seedling growth by increasing the expression of certain genes in the phenylpropanoid biosynthesis pathway, which are related to cell differentiation and seedling growth, as well as genes involved in plant hormone signaling, which is related to resistance.
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