No obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysis
ABSTRACTUnintended effects of gene edit crops may pose safety issues. Omics is a useful tool for researchers to evaluate these unexpected effects. Transcriptome and proteomics analyses were performed for two gene editors, CRISPR-Cas9 and adenine base editor (ABE) gene edit rice, as well as correspon...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2023-12-01
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| Series: | GM Crops & Food |
| Subjects: | |
| Online Access: | https://www.tandfonline.com/doi/10.1080/21645698.2023.2229927 |
| _version_ | 1827399056752640000 |
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| author | Liu Xiao-Jing Xing Bao Wang Meng-Yu Li Xiao-Man Wang Xu-Jing Wang Zhi-Xing |
| author_facet | Liu Xiao-Jing Xing Bao Wang Meng-Yu Li Xiao-Man Wang Xu-Jing Wang Zhi-Xing |
| author_sort | Liu Xiao-Jing |
| collection | DOAJ |
| description | ABSTRACTUnintended effects of gene edit crops may pose safety issues. Omics is a useful tool for researchers to evaluate these unexpected effects. Transcriptome and proteomics analyses were performed for two gene editors, CRISPR-Cas9 and adenine base editor (ABE) gene edit rice, as well as corresponding wild-type plants (Nipponbare). Transcriptome revealed 520 and 566 rice differentially expressed genes (DEGs) in the Cas9/Nip and ABE/Nip comparisons, respectively. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis showed that most DEGs participated in metabolism of terpenoids and polyketones, plant–pathogen interactions, and plant signal transduction. It mainly belongs to environmental adaptation. Proteomics revealed 298 and 54 rice differentially expressed proteins (DEPs) in the Cas9/Nip and ABE/Nip comparisons, respectively. KEGG pathway enrichment analysis showed that most DEPs participated in the biosynthesis of secondary metabolite and metabolic pathways.According to integrated transcriptomes and proteomics analysis, the results showed that no newly generated genes were identified as new transcripts of these differentially expressed genes, and gene edit tools had little effect on rice transcription levels and no new proteins were generated in the gene-edited rice. |
| first_indexed | 2024-03-08T19:39:01Z |
| format | Article |
| id | doaj.art-0184249f422a47c8a005beac07ee2a43 |
| institution | Directory Open Access Journal |
| issn | 2164-5698 2164-5701 |
| language | English |
| last_indexed | 2024-03-08T19:39:01Z |
| publishDate | 2023-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | GM Crops & Food |
| spelling | doaj.art-0184249f422a47c8a005beac07ee2a432023-12-25T13:28:18ZengTaylor & Francis GroupGM Crops & Food2164-56982164-57012023-12-0114111610.1080/21645698.2023.2229927No obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysisLiu Xiao-Jing0Xing Bao1Wang Meng-Yu2Li Xiao-Man3Wang Xu-Jing4Wang Zhi-Xing5Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, MARA Key Laboratory on Safety Assessment (Molecular) of Agri-GMO, Beijing, ChinaBiotechnology Research Institute, Chinese Academy of Agricultural Sciences, MARA Key Laboratory on Safety Assessment (Molecular) of Agri-GMO, Beijing, ChinaBiotechnology Research Institute, Chinese Academy of Agricultural Sciences, MARA Key Laboratory on Safety Assessment (Molecular) of Agri-GMO, Beijing, ChinaBiotechnology Research Institute, Chinese Academy of Agricultural Sciences, MARA Key Laboratory on Safety Assessment (Molecular) of Agri-GMO, Beijing, ChinaBiotechnology Research Institute, Chinese Academy of Agricultural Sciences, MARA Key Laboratory on Safety Assessment (Molecular) of Agri-GMO, Beijing, ChinaBiotechnology Research Institute, Chinese Academy of Agricultural Sciences, MARA Key Laboratory on Safety Assessment (Molecular) of Agri-GMO, Beijing, ChinaABSTRACTUnintended effects of gene edit crops may pose safety issues. Omics is a useful tool for researchers to evaluate these unexpected effects. Transcriptome and proteomics analyses were performed for two gene editors, CRISPR-Cas9 and adenine base editor (ABE) gene edit rice, as well as corresponding wild-type plants (Nipponbare). Transcriptome revealed 520 and 566 rice differentially expressed genes (DEGs) in the Cas9/Nip and ABE/Nip comparisons, respectively. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis showed that most DEGs participated in metabolism of terpenoids and polyketones, plant–pathogen interactions, and plant signal transduction. It mainly belongs to environmental adaptation. Proteomics revealed 298 and 54 rice differentially expressed proteins (DEPs) in the Cas9/Nip and ABE/Nip comparisons, respectively. KEGG pathway enrichment analysis showed that most DEPs participated in the biosynthesis of secondary metabolite and metabolic pathways.According to integrated transcriptomes and proteomics analysis, the results showed that no newly generated genes were identified as new transcripts of these differentially expressed genes, and gene edit tools had little effect on rice transcription levels and no new proteins were generated in the gene-edited rice.https://www.tandfonline.com/doi/10.1080/21645698.2023.2229927Gene editproteometranscriptomeunintended effects |
| spellingShingle | Liu Xiao-Jing Xing Bao Wang Meng-Yu Li Xiao-Man Wang Xu-Jing Wang Zhi-Xing No obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysis GM Crops & Food Gene edit proteome transcriptome unintended effects |
| title | No obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysis |
| title_full | No obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysis |
| title_fullStr | No obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysis |
| title_full_unstemmed | No obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysis |
| title_short | No obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysis |
| title_sort | no obvious unintended effects was found in gene editing rice through transcriptional and proteomic analysis |
| topic | Gene edit proteome transcriptome unintended effects |
| url | https://www.tandfonline.com/doi/10.1080/21645698.2023.2229927 |
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