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Research article
Comparative analysis of bHLH transcription factors in five Rosaceae species, and expression analysis of PbbHLHs in response to drought stress in pear
ShaoLing Zhang
Nanjing Agricultural University
Corresponding Author
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background
The bHLH (basic helix-loop-helix) transcription factor family plays important roles in regulating plant growth and development. However, informations about bHLH in rosaceous fruit species are still limited.
Results
In this study, a total of 198 PbbHLH genes were identified in the pear, with 188 bHLH genes in apple, 129 bHLH genes in peach, 112 in strawberry and 122 in Chinese plum. These Rosaceae bHLH genes, plus the 150 Arabidopsis thaliana bHLH genes, were divided into 34 groups, which included one Rosaceae-specific group. Evolutionary pattern analysis showed that whole-genome duplication (WGD) and segmental duplication played critical roles in expansion of the PbbHLH gene family. Ks value indicated that the two WGD duplication events (a recent WGD and an ancient WGD event) lead to the expansion of bHLH gene family. Tissue expression analysis shows that PbbHLHs may have diversity functions in different tissues. Furthermore, eight up-regulated and seven down-regulated PbbHLH genes were identified as the candidate genes in response to drought stress.
Conclusion
A comprehensive analysis of bHLH genes was performed in five Rosaceae species. The phylogenetic, evolution and expression analyses of the bHLH gene family in pear will be meaningful for investigating the biological roles of PbbHLH genes.
Keywords
Pear, Rosaceae, bHLH transcription factors, Evolution, Expression files, Drought stress
Figure 1
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Figure 9
Due to technical limitations, table 1 and 2 is only available as a download in the Supplemental Files section.
This is a list of supplementary files associated with this preprint. Click to download.
- Table1.xlsx
- Table2.xlsx
- TableS1.xlsx
- TableS2.xlsx
- TableS3.xlsx
- TableS4.xlsx
- TableS5.xlsx
- TableS6.xlsx
- TableS7.xlsx
- TableS8.xlsx
- FigS1.pdf
Fig.S1 The number of PbbHLHs distributed on 17 different chromosomes. Different colors represent different chromosomes. The number in parentheses represents the number of PbbHLHs mapped on each chromosome.
- FigS2.pdf
Fig.S2 Collinearity analysis between bHLH genes from pear with other four Rosaceae. The chromosomes of pear, apple, peach, strawberry and Chinese plum, represented by the different-colored boxes, are labeled Pb, Md, Pp, Fv and Pm, respectively. The black lines represent paralogous relationships among pear, apple, peach, strawberry and Chinese plum.
- FigS3.pdf
Fig.S3 Heat map of the expression level of PbbHLH genes in six stages. S1–S6 represent six different developmental stages: on April 22 (S1), May 13 (S2), June 27 (S3), July 28 (S4), August 30 (S5) and September 21 (S6). The color scale at the top represents log2-transformed RPKM values. Green indicates low expression and blue indicates high expression.
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This is a preprint. It has not completed peer review.
Research article
Comparative analysis of bHLH transcription factors in five Rosaceae species, and expression analysis of PbbHLHs in response to drought stress in pear
ShaoLing Zhang
Nanjing Agricultural University
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 24 Sep, 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
The bHLH (basic helix-loop-helix) transcription factor family plays important roles in regulating plant growth and development. However, informations about bHLH in rosaceous fruit species are still limited.
Results
In this study, a total of 198 PbbHLH genes were identified in the pear, with 188 bHLH genes in apple, 129 bHLH genes in peach, 112 in strawberry and 122 in Chinese plum. These Rosaceae bHLH genes, plus the 150 Arabidopsis thaliana bHLH genes, were divided into 34 groups, which included one Rosaceae-specific group. Evolutionary pattern analysis showed that whole-genome duplication (WGD) and segmental duplication played critical roles in expansion of the PbbHLH gene family. Ks value indicated that the two WGD duplication events (a recent WGD and an ancient WGD event) lead to the expansion of bHLH gene family. Tissue expression analysis shows that PbbHLHs may have diversity functions in different tissues. Furthermore, eight up-regulated and seven down-regulated PbbHLH genes were identified as the candidate genes in response to drought stress.
Conclusion
A comprehensive analysis of bHLH genes was performed in five Rosaceae species. The phylogenetic, evolution and expression analyses of the bHLH gene family in pear will be meaningful for investigating the biological roles of PbbHLH genes.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
Figure 8
Figure 9
Due to technical limitations, table 1 and 2 is only available as a download in the Supplemental Files section.