Transcriptome and metabolome analyses reveal new insights into chlorophyll, photosynthesis, metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosis
Abstract Background Ratoon sugarcane is susceptible to chlorosis, characterized by chlorophyll loss, poor growth, and a multitude of nutritional deficiency mainly occurring at young stage. Chlorosis would significantly reduce the cane production. The molecular mechanism underlying this phenomenon re...
| Main Authors: | , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2022-04-01
|
| Series: | BMC Plant Biology |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12870-022-03588-8 |
| _version_ | 1818263969390919680 |
|---|---|
| author | Ting Luo Zhongfeng Zhou Yuchi Deng Yegeng Fan Lihang Qiu Rongfa Chen Haifeng Yan Huiwen Zhou Prakash Lakshmanan Jianming Wu Qi Chen |
| author_facet | Ting Luo Zhongfeng Zhou Yuchi Deng Yegeng Fan Lihang Qiu Rongfa Chen Haifeng Yan Huiwen Zhou Prakash Lakshmanan Jianming Wu Qi Chen |
| author_sort | Ting Luo |
| collection | DOAJ |
| description | Abstract Background Ratoon sugarcane is susceptible to chlorosis, characterized by chlorophyll loss, poor growth, and a multitude of nutritional deficiency mainly occurring at young stage. Chlorosis would significantly reduce the cane production. The molecular mechanism underlying this phenomenon remains unknown. We analyzed the transcriptome and metabolome of chlorotic and non-chlorotic sugarcane leaves of the same age from the same field to gain molecular insights into this phenomenon. Results The agronomic traits, such as plant height and the number of leaf, stalk node, and tillers declined in chlorotic sugarcane. Chlorotic leaves had substantially lower chlorophyll content than green leaves. A total of 11,776 differentially expressed genes (DEGs) were discovered in transcriptome analysis. In the KEGG enriched chlorophyll metabolism pathway, sixteen DEGs were found, eleven of which were down-regulated. Two photosynthesis pathways were also enriched with 32 genes downregulated and four genes up-regulated. Among the 81 enriched GO biological processes, there were four categories related to metal ion homeostasis and three related to metal ion transport. Approximately 400 metabolites were identified in metabolome analysis. The thirteen differentially expressed metabolites (DEMs) were all found down-regulated. The phenylpropanoid biosynthesis pathway was enriched in DEGs and DEMs, indicating a potentially vital role for phenylpropanoids in chlorosis. Conclusions Chlorophyll production, metal ion metabolism, photosynthesis, and some metabolites in the phenylpropanoid biosynthesis pathway were considerably altered in chlorotic ratoon sugarcane leaves. Our finding revealed the relation between chlorosis and these pathways, which will help expand our mechanistic understanding of ratoon sugarcane chlorosis. |
| first_indexed | 2024-12-12T19:27:28Z |
| format | Article |
| id | doaj.art-72d118def92d4648b385bf26cb0fced4 |
| institution | Directory Open Access Journal |
| issn | 1471-2229 |
| language | English |
| last_indexed | 2024-12-12T19:27:28Z |
| publishDate | 2022-04-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj.art-72d118def92d4648b385bf26cb0fced42022-12-22T00:14:29ZengBMCBMC Plant Biology1471-22292022-04-0122111510.1186/s12870-022-03588-8Transcriptome and metabolome analyses reveal new insights into chlorophyll, photosynthesis, metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosisTing Luo0Zhongfeng Zhou1Yuchi Deng2Yegeng Fan3Lihang Qiu4Rongfa Chen5Haifeng Yan6Huiwen Zhou7Prakash Lakshmanan8Jianming Wu9Qi Chen10Sugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesSugarcane Research Institute, Guangxi Academy of Agricultural SciencesNanning New Technology Entrepreneur CenterAbstract Background Ratoon sugarcane is susceptible to chlorosis, characterized by chlorophyll loss, poor growth, and a multitude of nutritional deficiency mainly occurring at young stage. Chlorosis would significantly reduce the cane production. The molecular mechanism underlying this phenomenon remains unknown. We analyzed the transcriptome and metabolome of chlorotic and non-chlorotic sugarcane leaves of the same age from the same field to gain molecular insights into this phenomenon. Results The agronomic traits, such as plant height and the number of leaf, stalk node, and tillers declined in chlorotic sugarcane. Chlorotic leaves had substantially lower chlorophyll content than green leaves. A total of 11,776 differentially expressed genes (DEGs) were discovered in transcriptome analysis. In the KEGG enriched chlorophyll metabolism pathway, sixteen DEGs were found, eleven of which were down-regulated. Two photosynthesis pathways were also enriched with 32 genes downregulated and four genes up-regulated. Among the 81 enriched GO biological processes, there were four categories related to metal ion homeostasis and three related to metal ion transport. Approximately 400 metabolites were identified in metabolome analysis. The thirteen differentially expressed metabolites (DEMs) were all found down-regulated. The phenylpropanoid biosynthesis pathway was enriched in DEGs and DEMs, indicating a potentially vital role for phenylpropanoids in chlorosis. Conclusions Chlorophyll production, metal ion metabolism, photosynthesis, and some metabolites in the phenylpropanoid biosynthesis pathway were considerably altered in chlorotic ratoon sugarcane leaves. Our finding revealed the relation between chlorosis and these pathways, which will help expand our mechanistic understanding of ratoon sugarcane chlorosis.https://doi.org/10.1186/s12870-022-03588-8Ratoon sugarcane chlorosisChlorophyll metabolismPhotosynthesisMetal ion metabolismPhenylpropanoids biosynthesis |
| spellingShingle | Ting Luo Zhongfeng Zhou Yuchi Deng Yegeng Fan Lihang Qiu Rongfa Chen Haifeng Yan Huiwen Zhou Prakash Lakshmanan Jianming Wu Qi Chen Transcriptome and metabolome analyses reveal new insights into chlorophyll, photosynthesis, metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosis BMC Plant Biology Ratoon sugarcane chlorosis Chlorophyll metabolism Photosynthesis Metal ion metabolism Phenylpropanoids biosynthesis |
| title | Transcriptome and metabolome analyses reveal new insights into chlorophyll, photosynthesis, metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosis |
| title_full | Transcriptome and metabolome analyses reveal new insights into chlorophyll, photosynthesis, metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosis |
| title_fullStr | Transcriptome and metabolome analyses reveal new insights into chlorophyll, photosynthesis, metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosis |
| title_full_unstemmed | Transcriptome and metabolome analyses reveal new insights into chlorophyll, photosynthesis, metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosis |
| title_short | Transcriptome and metabolome analyses reveal new insights into chlorophyll, photosynthesis, metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosis |
| title_sort | transcriptome and metabolome analyses reveal new insights into chlorophyll photosynthesis metal ion and phenylpropanoids related pathways during sugarcane ratoon chlorosis |
| topic | Ratoon sugarcane chlorosis Chlorophyll metabolism Photosynthesis Metal ion metabolism Phenylpropanoids biosynthesis |
| url | https://doi.org/10.1186/s12870-022-03588-8 |
| work_keys_str_mv | AT tingluo transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT zhongfengzhou transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT yuchideng transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT yegengfan transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT lihangqiu transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT rongfachen transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT haifengyan transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT huiwenzhou transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT prakashlakshmanan transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT jianmingwu transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis AT qichen transcriptomeandmetabolomeanalysesrevealnewinsightsintochlorophyllphotosynthesismetalionandphenylpropanoidsrelatedpathwaysduringsugarcaneratoonchlorosis |