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Research Article
Genome-wide identification, characterization and expression analysis of BES1 gene family in tomato
Zhengguo Li
Chongqing University
Corresponding Author
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This work is licensed under a CC BY 4.0 License. Read Full License
Background: As the key regulators in BR signaling, BES1 family genes regulate thousands of target genes involved in various development processes. So far, the functions of BES1 family are poorly understood in tomato, and a comprehensive genomic and expressional analysis is worth to conduct for this family.
Results: Here, nine SlBES1 family members were identified in tomato and classified into five groups based on the conserved motif, gene structure and phylogenetic analysis. Synteny among tomato, Arabidopsis, pepper and rice were further analyzed to obtain insights into evolutionary characteristics. Several cis-elements related to hormone, stress and plant development were exhibited in the promoter regions of SlBES1 family genes. Subcellular localization showed seven members localized both in the nucleus and cytoplasm, implying the presence of dephosphorylated and phosphorylated form of these seven proteins, furthermore, five of them possessed transcription activation activity whereas the left two functioned as transcriptional repressors. Another two members, however, neither localized in the nucleus nor had transactivation activity. Besides, SlBES1.8 showed flower-specific expression while other members expressed ubiquitously in all organs. Moreover, SlBES1 genes exhibited variational expression in response to nine principal plant hormones. Notably, the expression levels of SlBES1 genes presented a dominant downregulated trend in response to stresses.
Conclusions: In this study, we systematically analyzed the genomic characterization of SlBES1 family, together with the analyses of protein functional features and expression patterns, our results lay a foundation for the functional research of SlBES1 family.
Keywords
BES1 gene family, Genome-wide analysis, Subcellular localization, Transactivation activity, Expression pattern, Tomato (Solanum lycopersicum)
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This is a list of supplementary files associated with this preprint. Click to download.
- AdditionalInformation.pdf
Additional file 1: Figure S1. The detailed sequence logos of those 10 conserved motifs in MEME analysis. Figure S2. Subcellular localization analysis of SlBES1.1 and SlBES1.7. Figure S3. Relative expression of the reference genes under corresponding hormone treatments. Table S1. Summary of the responsiveness of SlBES1 family to hormone treatments. Table S2. Summary of the responsiveness of SlBES1 family to stress treatments. Table S3. Primers used in this study.
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Reviewer #2 agreed
On 30 Dec, 2020
Reviewer #4 agreed
On 30 Dec, 2020
Reviewer #5 agreed
On 30 Dec, 2020
Reviewer #3 agreed
On 30 Dec, 2020
Reviewers invited
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Editor invited
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This preprint is under consideration at BMC Plant Biology. 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
Genome-wide identification, characterization and expression analysis of BES1 gene family in tomato
Zhengguo Li
Chongqing University
Corresponding Author
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 Review
Version 1
Posted 04 Jan, 2021
No community comments so far
Reviewer #1 agreed
On 06 Jan, 2021
Reviewer #2 agreed
On 30 Dec, 2020
Reviewer #4 agreed
On 30 Dec, 2020
Reviewer #5 agreed
On 30 Dec, 2020
Reviewer #3 agreed
On 30 Dec, 2020
Reviewers invited
Invitations sent on 30 Dec, 2020
Editor assigned
On 29 Dec, 2020
Editor invited
On 28 Dec, 2020
Submission checks complete
On 28 Dec, 2020
First submitted
On 24 Dec, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background: As the key regulators in BR signaling, BES1 family genes regulate thousands of target genes involved in various development processes. So far, the functions of BES1 family are poorly understood in tomato, and a comprehensive genomic and expressional analysis is worth to conduct for this family.
Results: Here, nine SlBES1 family members were identified in tomato and classified into five groups based on the conserved motif, gene structure and phylogenetic analysis. Synteny among tomato, Arabidopsis, pepper and rice were further analyzed to obtain insights into evolutionary characteristics. Several cis-elements related to hormone, stress and plant development were exhibited in the promoter regions of SlBES1 family genes. Subcellular localization showed seven members localized both in the nucleus and cytoplasm, implying the presence of dephosphorylated and phosphorylated form of these seven proteins, furthermore, five of them possessed transcription activation activity whereas the left two functioned as transcriptional repressors. Another two members, however, neither localized in the nucleus nor had transactivation activity. Besides, SlBES1.8 showed flower-specific expression while other members expressed ubiquitously in all organs. Moreover, SlBES1 genes exhibited variational expression in response to nine principal plant hormones. Notably, the expression levels of SlBES1 genes presented a dominant downregulated trend in response to stresses.
Conclusions: In this study, we systematically analyzed the genomic characterization of SlBES1 family, together with the analyses of protein functional features and expression patterns, our results lay a foundation for the functional research of SlBES1 family.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
Figure 8
Figure 9