Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Brassica species and functional analyses of their Arabidopsis homologs in resistance to Sclerotinia sclerotiorum
RNA silencing is an important mechanism to regulate gene expression and antiviral defense in plants. Nevertheless, RNA silencing machinery in the important oil crop Brassica napus and function in resistance to the devastating fungal pathogen Sclerotinia sclerotiorum are not well understood. In this...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2016-10-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fpls.2016.01614/full |
| _version_ | 1828394288319299584 |
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| author | Jia-Yi Cao You-Ping Xu Wen Li Shuang-Sheng Li Hafizur Rahman Xin-Zhong Cai |
| author_facet | Jia-Yi Cao You-Ping Xu Wen Li Shuang-Sheng Li Hafizur Rahman Xin-Zhong Cai |
| author_sort | Jia-Yi Cao |
| collection | DOAJ |
| description | RNA silencing is an important mechanism to regulate gene expression and antiviral defense in plants. Nevertheless, RNA silencing machinery in the important oil crop Brassica napus and function in resistance to the devastating fungal pathogen Sclerotinia sclerotiorum are not well understood. In this study, gene families of RNA silencing machinery in B. napus were identified and their role in resistance to S. sclerotiorum was revealed. Genome of the allopolyploid species B. napus possessed 8 Dicer-like (DCL), 27 Argonaute (AGO) and 16 RNA-dependent RNA polymerase (RDR) genes, which included almost all copies from its progenitor species B. rapa and B. oleracea and three extra copies of RDR5 genes, indicating that the RDR5 group in B. napus appears to have undergone further expansion through duplication during evolution. Moreover, compared with Arabidopsis, some AGO and RDR genes such as AGO1, AGO4, AGO9 and RDR5 had significantly expanded in these Brassica species. Twenty-one out of 51 DCL, AGO and RDR genes were predicted to contain calmodulin-binding transcription activators (CAMTA)-binding site (CGCG box). S. sclerotiorum inoculation strongly induced the expression of BnCAMTA3 genes while significantly suppressed that of some CGCG-containing RNA silencing component genes, suggesting that RNA silencing machinery might be targeted by CAMTA3. Furthermore, Arabidopsis mutant analyses demonstrated that dcl4-2, ago9-1, rdr1-1, rdr6-11 and rdr6-15 mutants were more susceptible to S. sclerotiorum, while dcl1-9 was more resistant. Our results reveal the importance of RNA silencing in plant resistance to S. sclerotiorum and imply a new mechanism of CAMTA function as well as RNA silencing regulation. |
| first_indexed | 2024-12-10T07:53:52Z |
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| id | doaj.art-854ff5cb9d5642c79c8bfae9acc77045 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-12-10T07:53:52Z |
| publishDate | 2016-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-854ff5cb9d5642c79c8bfae9acc770452022-12-22T01:56:58ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2016-10-01710.3389/fpls.2016.01614205267Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Brassica species and functional analyses of their Arabidopsis homologs in resistance to Sclerotinia sclerotiorumJia-Yi Cao0You-Ping Xu1Wen Li2Shuang-Sheng Li3Hafizur Rahman4Xin-Zhong Cai5Zhejiang UniversityZhejiang UniversityZhejiang UniversityZhejiang UniversityZhejiang UniversityZhejiang UniversityRNA silencing is an important mechanism to regulate gene expression and antiviral defense in plants. Nevertheless, RNA silencing machinery in the important oil crop Brassica napus and function in resistance to the devastating fungal pathogen Sclerotinia sclerotiorum are not well understood. In this study, gene families of RNA silencing machinery in B. napus were identified and their role in resistance to S. sclerotiorum was revealed. Genome of the allopolyploid species B. napus possessed 8 Dicer-like (DCL), 27 Argonaute (AGO) and 16 RNA-dependent RNA polymerase (RDR) genes, which included almost all copies from its progenitor species B. rapa and B. oleracea and three extra copies of RDR5 genes, indicating that the RDR5 group in B. napus appears to have undergone further expansion through duplication during evolution. Moreover, compared with Arabidopsis, some AGO and RDR genes such as AGO1, AGO4, AGO9 and RDR5 had significantly expanded in these Brassica species. Twenty-one out of 51 DCL, AGO and RDR genes were predicted to contain calmodulin-binding transcription activators (CAMTA)-binding site (CGCG box). S. sclerotiorum inoculation strongly induced the expression of BnCAMTA3 genes while significantly suppressed that of some CGCG-containing RNA silencing component genes, suggesting that RNA silencing machinery might be targeted by CAMTA3. Furthermore, Arabidopsis mutant analyses demonstrated that dcl4-2, ago9-1, rdr1-1, rdr6-11 and rdr6-15 mutants were more susceptible to S. sclerotiorum, while dcl1-9 was more resistant. Our results reveal the importance of RNA silencing in plant resistance to S. sclerotiorum and imply a new mechanism of CAMTA function as well as RNA silencing regulation.http://journal.frontiersin.org/Journal/10.3389/fpls.2016.01614/fullBrassica napusRNA silencingSclerotinia sclerotiorumArgonaute (AGO)Dicer-like (DCL)RNA-dependent RNA polymerase (RDR) |
| spellingShingle | Jia-Yi Cao You-Ping Xu Wen Li Shuang-Sheng Li Hafizur Rahman Xin-Zhong Cai Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Brassica species and functional analyses of their Arabidopsis homologs in resistance to Sclerotinia sclerotiorum Frontiers in Plant Science Brassica napus RNA silencing Sclerotinia sclerotiorum Argonaute (AGO) Dicer-like (DCL) RNA-dependent RNA polymerase (RDR) |
| title | Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Brassica species and functional analyses of their Arabidopsis homologs in resistance to Sclerotinia sclerotiorum |
| title_full | Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Brassica species and functional analyses of their Arabidopsis homologs in resistance to Sclerotinia sclerotiorum |
| title_fullStr | Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Brassica species and functional analyses of their Arabidopsis homologs in resistance to Sclerotinia sclerotiorum |
| title_full_unstemmed | Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Brassica species and functional analyses of their Arabidopsis homologs in resistance to Sclerotinia sclerotiorum |
| title_short | Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Brassica species and functional analyses of their Arabidopsis homologs in resistance to Sclerotinia sclerotiorum |
| title_sort | genome wide identification of dicer like argonaute and rna dependent rna polymerase gene families in brassica species and functional analyses of their arabidopsis homologs in resistance to sclerotinia sclerotiorum |
| topic | Brassica napus RNA silencing Sclerotinia sclerotiorum Argonaute (AGO) Dicer-like (DCL) RNA-dependent RNA polymerase (RDR) |
| url | http://journal.frontiersin.org/Journal/10.3389/fpls.2016.01614/full |
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