Transcriptome analysis of rice root responses to potassium deficiency
<p>Abstract</p> <p>Background</p> <p>Potassium (K<sup>+</sup>) is an important nutrient ion in plant cells and plays crucial roles in many plant physiological and developmental processes. In the natural environment, K<sup>+</sup> deficiency is a...
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| Format: | Article |
| Language: | English |
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BMC
2012-09-01
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| Series: | BMC Plant Biology |
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| Online Access: | http://www.biomedcentral.com/1471-2229/12/161 |
| _version_ | 1818662872263163904 |
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| author | Ma Tian-Li Wu Wei-Hua Wang Yi |
| author_facet | Ma Tian-Li Wu Wei-Hua Wang Yi |
| author_sort | Ma Tian-Li |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Potassium (K<sup>+</sup>) is an important nutrient ion in plant cells and plays crucial roles in many plant physiological and developmental processes. In the natural environment, K<sup>+</sup> deficiency is a common abiotic stress that inhibits plant growth and reduces crop productivity. Several microarray studies have been conducted on genome-wide gene expression profiles of rice during its responses to various stresses. However, little is known about the transcriptional changes in rice genes under low-K<sup>+</sup> conditions.</p> <p>Results</p> <p>We analyzed the transcriptomic profiles of rice roots in response to low-K<sup>+</sup> stress. The roots of rice seedlings with or without low-K<sup>+</sup> treatment were harvested after 6 h, and 3 and 5 d, and used for microarray analysis. The microarray data showed that many genes (2,896) were up-regulated or down-regulated more than 1.2-fold during low-K<sup>+</sup> treatment. GO analysis indicated that the genes showing transcriptional changes were mainly in the following categories: metabolic process, membrane, cation binding, kinase activity, transport, and so on. We conducted a comparative analysis of transcriptomic changes between <it>Arabidopsis</it> and rice under low-K<sup>+</sup> stress. Generally, the genes showing changes in transcription in rice and <it>Arabidopsis</it> in response to low-K<sup>+</sup> stress displayed similar GO distribution patterns. However, there were more genes related to stress responses and development in <it>Arabidopsis</it> than in rice. Many auxin-related genes responded to K<sup>+</sup> deficiency in rice, whereas jasmonic acid-related enzymes may play more important roles in K<sup>+</sup> nutrient signaling in <it>Arabidopsis</it>.</p> <p>Conclusions</p> <p>According to the microarray data, fewer rice genes showed transcriptional changes in response to K<sup>+</sup> deficiency than to phosphorus (P) or nitrogen (N) deficiency. Thus, transcriptional regulation is probably more important in responses to low-P and -N stress than to low-K<sup>+</sup> stress. However, many genes in some categories (protein kinase and ion transporter families) were markedly up-regulated, suggesting that they play important roles during K<sup>+</sup> deficiency. Comparative analysis of transcriptomic changes between <it>Arabidopsis</it> and rice showed that monocots and dicots share many similar mechanisms in response to K<sup>+</sup> deficiency, despite some differences. Further research is required to clarify the differences in transcriptional regulation between monocots and dicots.</p> |
| first_indexed | 2024-12-17T05:07:51Z |
| format | Article |
| id | doaj.art-540dd2d406bb4b43822a2c665513ea10 |
| institution | Directory Open Access Journal |
| issn | 1471-2229 |
| language | English |
| last_indexed | 2024-12-17T05:07:51Z |
| publishDate | 2012-09-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj.art-540dd2d406bb4b43822a2c665513ea102022-12-21T22:02:21ZengBMCBMC Plant Biology1471-22292012-09-0112116110.1186/1471-2229-12-161Transcriptome analysis of rice root responses to potassium deficiencyMa Tian-LiWu Wei-HuaWang Yi<p>Abstract</p> <p>Background</p> <p>Potassium (K<sup>+</sup>) is an important nutrient ion in plant cells and plays crucial roles in many plant physiological and developmental processes. In the natural environment, K<sup>+</sup> deficiency is a common abiotic stress that inhibits plant growth and reduces crop productivity. Several microarray studies have been conducted on genome-wide gene expression profiles of rice during its responses to various stresses. However, little is known about the transcriptional changes in rice genes under low-K<sup>+</sup> conditions.</p> <p>Results</p> <p>We analyzed the transcriptomic profiles of rice roots in response to low-K<sup>+</sup> stress. The roots of rice seedlings with or without low-K<sup>+</sup> treatment were harvested after 6 h, and 3 and 5 d, and used for microarray analysis. The microarray data showed that many genes (2,896) were up-regulated or down-regulated more than 1.2-fold during low-K<sup>+</sup> treatment. GO analysis indicated that the genes showing transcriptional changes were mainly in the following categories: metabolic process, membrane, cation binding, kinase activity, transport, and so on. We conducted a comparative analysis of transcriptomic changes between <it>Arabidopsis</it> and rice under low-K<sup>+</sup> stress. Generally, the genes showing changes in transcription in rice and <it>Arabidopsis</it> in response to low-K<sup>+</sup> stress displayed similar GO distribution patterns. However, there were more genes related to stress responses and development in <it>Arabidopsis</it> than in rice. Many auxin-related genes responded to K<sup>+</sup> deficiency in rice, whereas jasmonic acid-related enzymes may play more important roles in K<sup>+</sup> nutrient signaling in <it>Arabidopsis</it>.</p> <p>Conclusions</p> <p>According to the microarray data, fewer rice genes showed transcriptional changes in response to K<sup>+</sup> deficiency than to phosphorus (P) or nitrogen (N) deficiency. Thus, transcriptional regulation is probably more important in responses to low-P and -N stress than to low-K<sup>+</sup> stress. However, many genes in some categories (protein kinase and ion transporter families) were markedly up-regulated, suggesting that they play important roles during K<sup>+</sup> deficiency. Comparative analysis of transcriptomic changes between <it>Arabidopsis</it> and rice showed that monocots and dicots share many similar mechanisms in response to K<sup>+</sup> deficiency, despite some differences. Further research is required to clarify the differences in transcriptional regulation between monocots and dicots.</p>http://www.biomedcentral.com/1471-2229/12/161RiceK<sup>+</sup> deficiencymicroarraytranscriptome |
| spellingShingle | Ma Tian-Li Wu Wei-Hua Wang Yi Transcriptome analysis of rice root responses to potassium deficiency BMC Plant Biology Rice K<sup>+</sup> deficiency microarray transcriptome |
| title | Transcriptome analysis of rice root responses to potassium deficiency |
| title_full | Transcriptome analysis of rice root responses to potassium deficiency |
| title_fullStr | Transcriptome analysis of rice root responses to potassium deficiency |
| title_full_unstemmed | Transcriptome analysis of rice root responses to potassium deficiency |
| title_short | Transcriptome analysis of rice root responses to potassium deficiency |
| title_sort | transcriptome analysis of rice root responses to potassium deficiency |
| topic | Rice K<sup>+</sup> deficiency microarray transcriptome |
| url | http://www.biomedcentral.com/1471-2229/12/161 |
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