Network analysis uncovers the master role of WRKY transcription factors in Arabidopsis thaliana response to N-acyl homoserine lactones
Abstract Background Plants can perceive bacterial molecules such as the quorum sensing signals N-acyl homoserine lactones (AHL), thus modifying their fitness in response to environmental factors. Even though the benefits conferred by AHL depend on various hormone signaling pathways, the understandin...
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CABI
2024-01-01
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| Series: | CABI Agriculture and Bioscience |
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| Online Access: | https://doi.org/10.1186/s43170-023-00206-x |
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| author | Yongming Duan Min Han Maja Grimm Adam Schikora |
| author_facet | Yongming Duan Min Han Maja Grimm Adam Schikora |
| author_sort | Yongming Duan |
| collection | DOAJ |
| description | Abstract Background Plants can perceive bacterial molecules such as the quorum sensing signals N-acyl homoserine lactones (AHL), thus modifying their fitness in response to environmental factors. Even though the benefits conferred by AHL depend on various hormone signaling pathways, the understanding of AHL signaling, especially the response to AHL presence, remains largely unknown. Methods Weighted gene co-expression network analysis (WGCNA), multi-omics network analysis, and reverse transcription quantitative PCR (RT-qPCR) assays were used to identify key genes in AHL signaling. Results To obtain comprehensive insights on AHL signaling, we integrated available transcriptome data from Arabidopsis thaliana exposed to different single or multiple AHL molecules and performed a weighted gene co-expression network analysis. We identified several key genes regulated in plants exposed to multiple AHL molecules. Multi-omics network analysis and RT-qPCR assay revealed a potential role of WRKY transcription factors. Conclusions Results presented here offer good indications for exploring the mechanism of plants' response to bacterial signaling molecules, which could further support the application of AHL-producing bacteria in sustainable agriculture. |
| format | Article |
| id | doaj-art-2c9a21794d8242d58b38fbbe246f1f4d |
| institution | Kabale University |
| issn | 2662-4044 |
| language | English |
| publishDate | 2024-01-01 |
| publisher | CABI |
| record_format | Article |
| series | CABI Agriculture and Bioscience |
| spelling | doaj-art-2c9a21794d8242d58b38fbbe246f1f4d2025-02-03T10:41:22ZengCABICABI Agriculture and Bioscience2662-40442024-01-015111610.1186/s43170-023-00206-xNetwork analysis uncovers the master role of WRKY transcription factors in Arabidopsis thaliana response to N-acyl homoserine lactonesYongming Duan0Min Han1Maja Grimm2Adam Schikora3Julius Kühn Institute (JKI) - Federal Research Centre for Cultivated Plants, Institute for Epidemiology and Pathogen DiagnosticsJulius Kühn Institute (JKI) - Federal Research Centre for Cultivated Plants, Institute for Epidemiology and Pathogen DiagnosticsJulius Kühn Institute (JKI) - Federal Research Centre for Cultivated Plants, Institute for Epidemiology and Pathogen DiagnosticsJulius Kühn Institute (JKI) - Federal Research Centre for Cultivated Plants, Institute for Epidemiology and Pathogen DiagnosticsAbstract Background Plants can perceive bacterial molecules such as the quorum sensing signals N-acyl homoserine lactones (AHL), thus modifying their fitness in response to environmental factors. Even though the benefits conferred by AHL depend on various hormone signaling pathways, the understanding of AHL signaling, especially the response to AHL presence, remains largely unknown. Methods Weighted gene co-expression network analysis (WGCNA), multi-omics network analysis, and reverse transcription quantitative PCR (RT-qPCR) assays were used to identify key genes in AHL signaling. Results To obtain comprehensive insights on AHL signaling, we integrated available transcriptome data from Arabidopsis thaliana exposed to different single or multiple AHL molecules and performed a weighted gene co-expression network analysis. We identified several key genes regulated in plants exposed to multiple AHL molecules. Multi-omics network analysis and RT-qPCR assay revealed a potential role of WRKY transcription factors. Conclusions Results presented here offer good indications for exploring the mechanism of plants' response to bacterial signaling molecules, which could further support the application of AHL-producing bacteria in sustainable agriculture.https://doi.org/10.1186/s43170-023-00206-xWGCNAWRKY transcription factorsNetwork analysisN-acyl homoserine lactonesArabidopsis |
| spellingShingle | Yongming Duan Min Han Maja Grimm Adam Schikora Network analysis uncovers the master role of WRKY transcription factors in Arabidopsis thaliana response to N-acyl homoserine lactones CABI Agriculture and Bioscience WGCNA WRKY transcription factors Network analysis N-acyl homoserine lactones Arabidopsis |
| title | Network analysis uncovers the master role of WRKY transcription factors in Arabidopsis thaliana response to N-acyl homoserine lactones |
| title_full | Network analysis uncovers the master role of WRKY transcription factors in Arabidopsis thaliana response to N-acyl homoserine lactones |
| title_fullStr | Network analysis uncovers the master role of WRKY transcription factors in Arabidopsis thaliana response to N-acyl homoserine lactones |
| title_full_unstemmed | Network analysis uncovers the master role of WRKY transcription factors in Arabidopsis thaliana response to N-acyl homoserine lactones |
| title_short | Network analysis uncovers the master role of WRKY transcription factors in Arabidopsis thaliana response to N-acyl homoserine lactones |
| title_sort | network analysis uncovers the master role of wrky transcription factors in arabidopsis thaliana response to n acyl homoserine lactones |
| topic | WGCNA WRKY transcription factors Network analysis N-acyl homoserine lactones Arabidopsis |
| url | https://doi.org/10.1186/s43170-023-00206-x |
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