Combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germination
This study investigated the effects of ultrasonication treatment on the germination rate of brown rice. Brown rice grains were subjected to ultrasound (40 kHz/30 min) and then incubated for 36 h at 37 °C to germinate the seeds. Ultrasonic treatment increased the germination rate of brown rice by up...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2022-12-01
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| Series: | Ultrasonics Sonochemistry |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S1350417722003352 |
| _version_ | 1811310947173662720 |
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| author | Guangchen Zhang Jiaxin Xu Yiqiao Wang Xue Sun Shaosong Huang Lihua Huang Youhong Liu He Liu Jian Sun |
| author_facet | Guangchen Zhang Jiaxin Xu Yiqiao Wang Xue Sun Shaosong Huang Lihua Huang Youhong Liu He Liu Jian Sun |
| author_sort | Guangchen Zhang |
| collection | DOAJ |
| description | This study investigated the effects of ultrasonication treatment on the germination rate of brown rice. Brown rice grains were subjected to ultrasound (40 kHz/30 min) and then incubated for 36 h at 37 °C to germinate the seeds. Ultrasonic treatment increased the germination rate of brown rice by up to ∼28 % at 30 h. Transcriptomic and metabolomic analyses were performed to explore the mechanisms underlying the effect of ultrasonic treatment on the brown rice germination rate. Comparing the treated and control check samples, 867 differentially expressed genes (DEGs) were identified, including 638 upregulated and 229 downregulated), as well as 498 differentially accumulated metabolites (DAMs), including 422 up accumulated and 76 down accumulated. Multi-omics analysis revealed that the germination rate of brown rice was promoted by increased concentrations of low-molecular metabolites (carbohydrates and carbohydrate conjugates, fatty acids, amino acids, peptides, and analogues), and transcription factors (ARR-B, NAC, bHLH and AP2/EREBP families) as well as increased carbon metabolism. These findings provide new insights into the mechanisms of action of ultrasound in improving the brown rice germination rate and candidate DEGs and DAMs responsible for germination have been identified. |
| first_indexed | 2024-04-13T10:09:12Z |
| format | Article |
| id | doaj.art-f9adf373cdb3493fa410cd2038c3de7d |
| institution | Directory Open Access Journal |
| issn | 1350-4177 |
| language | English |
| last_indexed | 2024-04-13T10:09:12Z |
| publishDate | 2022-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Ultrasonics Sonochemistry |
| spelling | doaj.art-f9adf373cdb3493fa410cd2038c3de7d2022-12-22T02:51:00ZengElsevierUltrasonics Sonochemistry1350-41772022-12-0191106239Combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germinationGuangchen Zhang0Jiaxin Xu1Yiqiao Wang2Xue Sun3Shaosong Huang4Lihua Huang5Youhong Liu6He Liu7Jian Sun8College of Food Science and Technology, Bohai University, Jinzhou, Liaoning, ChinaCollege of Food Science and Technology, Bohai University, Jinzhou, Liaoning, ChinaRice Research Institute, Shenyang Agricultural University, Shenyang, Liaoning, ChinaCollege of Food Science and Technology, Bohai University, Jinzhou, Liaoning, ChinaRice Research Institute, Shenyang Agricultural University, Shenyang, Liaoning, ChinaCollege of Food Science and Technology, Bohai University, Jinzhou, Liaoning, ChinaInstitute of Crop Cultivation and Tillage, Heilongjiang Academy of Agricultural Sciences/Northeast Branch of National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Harbin, ChinaCollege of Food Science and Technology, Bohai University, Jinzhou, Liaoning, China; Corresponding authors at: College of Food Science and Technology, Bohai University. 19 Keji Road, Songshan New Region, Jinzhou, Liaoning 121013, China (H. Liu). Rice Research Institute, Shenyang Agricultural University. 120 Dongling Road, Shenhe District, Shenyang, Liaoning 110866, China (J. Sun).Rice Research Institute, Shenyang Agricultural University, Shenyang, Liaoning, China; Collaborative Innovation Center for Genetic Improvement and High Quality and Efficiency Production of Northeast Japonica Rice in China, Shenyang Agricultural University, Shenyang, Liaoning, China; Corresponding authors at: College of Food Science and Technology, Bohai University. 19 Keji Road, Songshan New Region, Jinzhou, Liaoning 121013, China (H. Liu). Rice Research Institute, Shenyang Agricultural University. 120 Dongling Road, Shenhe District, Shenyang, Liaoning 110866, China (J. Sun).This study investigated the effects of ultrasonication treatment on the germination rate of brown rice. Brown rice grains were subjected to ultrasound (40 kHz/30 min) and then incubated for 36 h at 37 °C to germinate the seeds. Ultrasonic treatment increased the germination rate of brown rice by up to ∼28 % at 30 h. Transcriptomic and metabolomic analyses were performed to explore the mechanisms underlying the effect of ultrasonic treatment on the brown rice germination rate. Comparing the treated and control check samples, 867 differentially expressed genes (DEGs) were identified, including 638 upregulated and 229 downregulated), as well as 498 differentially accumulated metabolites (DAMs), including 422 up accumulated and 76 down accumulated. Multi-omics analysis revealed that the germination rate of brown rice was promoted by increased concentrations of low-molecular metabolites (carbohydrates and carbohydrate conjugates, fatty acids, amino acids, peptides, and analogues), and transcription factors (ARR-B, NAC, bHLH and AP2/EREBP families) as well as increased carbon metabolism. These findings provide new insights into the mechanisms of action of ultrasound in improving the brown rice germination rate and candidate DEGs and DAMs responsible for germination have been identified.http://www.sciencedirect.com/science/article/pii/S1350417722003352Brown riceGermination rateTranscriptome sequencingMetabolome analysisEnergy metabolism |
| spellingShingle | Guangchen Zhang Jiaxin Xu Yiqiao Wang Xue Sun Shaosong Huang Lihua Huang Youhong Liu He Liu Jian Sun Combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germination Ultrasonics Sonochemistry Brown rice Germination rate Transcriptome sequencing Metabolome analysis Energy metabolism |
| title | Combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germination |
| title_full | Combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germination |
| title_fullStr | Combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germination |
| title_full_unstemmed | Combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germination |
| title_short | Combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germination |
| title_sort | combined transcriptome and metabolome analyses reveal the mechanisms of ultrasonication improvement of brown rice germination |
| topic | Brown rice Germination rate Transcriptome sequencing Metabolome analysis Energy metabolism |
| url | http://www.sciencedirect.com/science/article/pii/S1350417722003352 |
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