Comparative Proteomics of Root Apex and Root Elongation Zones Provides Insights into Molecular Mechanisms for Drought Stress and Recovery Adjustment in Switchgrass
Switchgrass plants were grown in a Sandwich tube system to induce gradual drought stress by withholding watering. After 29 days, the leaf photosynthetic rate decreased significantly, compared to the control plants which were watered regularly. The drought-treated plants recovered to the same leaf wa...
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| Format: | Article |
| Language: | English |
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MDPI AG
2020-02-01
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| Series: | Proteomes |
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| Online Access: | https://www.mdpi.com/2227-7382/8/1/3 |
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| author | Zhujia Ye Sasikiran Reddy Sangireddy Chih-Li Yu Dafeng Hui Kevin Howe Tara Fish Theodore W. Thannhauser Suping Zhou |
| author_facet | Zhujia Ye Sasikiran Reddy Sangireddy Chih-Li Yu Dafeng Hui Kevin Howe Tara Fish Theodore W. Thannhauser Suping Zhou |
| author_sort | Zhujia Ye |
| collection | DOAJ |
| description | Switchgrass plants were grown in a Sandwich tube system to induce gradual drought stress by withholding watering. After 29 days, the leaf photosynthetic rate decreased significantly, compared to the control plants which were watered regularly. The drought-treated plants recovered to the same leaf water content after three days of re-watering. The root tip (1cm basal fragment, designated as RT1 hereafter) and the elongation/maturation zone (the next upper 1 cm tissue, designated as RT2 hereafter) tissues were collected at the 29th day of drought stress treatment, (named SDT for severe drought treated), after one (D1W) and three days (D3W) of re-watering. The tandem mass tags mass spectrometry-based quantitative proteomics analysis was performed to identify the proteomes, and drought-induced differentially accumulated proteins (DAPs). From RT1 tissues, 6156, 7687, and 7699 proteins were quantified, and 296, 535, and 384 DAPs were identified in the SDT, D1W, and D3W samples, respectively. From RT2 tissues, 7382, 7255, and 6883 proteins were quantified, and 393, 587, and 321 proteins DAPs were identified in the SDT, D1W, and D3W samples. Between RT1 and RT2 tissues, very few DAPs overlapped at SDT, but the number of such proteins increased during the recovery phase. A large number of hydrophilic proteins and stress-responsive proteins were induced during SDT and remained at a higher level during the recovery stages. A large number of DAPs in RT1 tissues maintained the same expression pattern throughout drought treatment and the recovery phases. The DAPs in RT1 tissues were classified in cell proliferation, mitotic cell division, and chromatin modification, and those in RT2 were placed in cell wall remodeling and cell expansion processes. This study provided information pertaining to root zone-specific proteome changes during drought and recover phases, which will allow us to select proteins (genes) as better defined targets for developing drought tolerant plants. The mass spectrometry proteomics data are available via ProteomeXchange with identifier PXD017441. |
| first_indexed | 2024-04-12T05:45:58Z |
| format | Article |
| id | doaj.art-175f47e8aa064decb8d898295a09e51e |
| institution | Directory Open Access Journal |
| issn | 2227-7382 |
| language | English |
| last_indexed | 2024-04-12T05:45:58Z |
| publishDate | 2020-02-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Proteomes |
| spelling | doaj.art-175f47e8aa064decb8d898295a09e51e2022-12-22T03:45:27ZengMDPI AGProteomes2227-73822020-02-0181310.3390/proteomes8010003proteomes8010003Comparative Proteomics of Root Apex and Root Elongation Zones Provides Insights into Molecular Mechanisms for Drought Stress and Recovery Adjustment in SwitchgrassZhujia Ye0Sasikiran Reddy Sangireddy1Chih-Li Yu2Dafeng Hui3Kevin Howe4Tara Fish5Theodore W. Thannhauser6Suping Zhou7Department of Agricultural and Environmental Sciences, College of Agriculture, Tennessee State University, 3500 John Merritt Blvd, Nashville, TN 37209, USADepartment of Agricultural and Environmental Sciences, College of Agriculture, Tennessee State University, 3500 John Merritt Blvd, Nashville, TN 37209, USADepartment of Biological Sciences, Tennessee State University, 3500 John Merritt Blvd, Nashville, TN 37209, USADepartment of Biological Sciences, Tennessee State University, 3500 John Merritt Blvd, Nashville, TN 37209, USAFunctional & Comparative Proteomics Center, USDA-ARS, Ithaca, NY 14853, USAFunctional & Comparative Proteomics Center, USDA-ARS, Ithaca, NY 14853, USAFunctional & Comparative Proteomics Center, USDA-ARS, Ithaca, NY 14853, USADepartment of Agricultural and Environmental Sciences, College of Agriculture, Tennessee State University, 3500 John Merritt Blvd, Nashville, TN 37209, USASwitchgrass plants were grown in a Sandwich tube system to induce gradual drought stress by withholding watering. After 29 days, the leaf photosynthetic rate decreased significantly, compared to the control plants which were watered regularly. The drought-treated plants recovered to the same leaf water content after three days of re-watering. The root tip (1cm basal fragment, designated as RT1 hereafter) and the elongation/maturation zone (the next upper 1 cm tissue, designated as RT2 hereafter) tissues were collected at the 29th day of drought stress treatment, (named SDT for severe drought treated), after one (D1W) and three days (D3W) of re-watering. The tandem mass tags mass spectrometry-based quantitative proteomics analysis was performed to identify the proteomes, and drought-induced differentially accumulated proteins (DAPs). From RT1 tissues, 6156, 7687, and 7699 proteins were quantified, and 296, 535, and 384 DAPs were identified in the SDT, D1W, and D3W samples, respectively. From RT2 tissues, 7382, 7255, and 6883 proteins were quantified, and 393, 587, and 321 proteins DAPs were identified in the SDT, D1W, and D3W samples. Between RT1 and RT2 tissues, very few DAPs overlapped at SDT, but the number of such proteins increased during the recovery phase. A large number of hydrophilic proteins and stress-responsive proteins were induced during SDT and remained at a higher level during the recovery stages. A large number of DAPs in RT1 tissues maintained the same expression pattern throughout drought treatment and the recovery phases. The DAPs in RT1 tissues were classified in cell proliferation, mitotic cell division, and chromatin modification, and those in RT2 were placed in cell wall remodeling and cell expansion processes. This study provided information pertaining to root zone-specific proteome changes during drought and recover phases, which will allow us to select proteins (genes) as better defined targets for developing drought tolerant plants. The mass spectrometry proteomics data are available via ProteomeXchange with identifier PXD017441.https://www.mdpi.com/2227-7382/8/1/3root-tip zone-specific quantitative proteomicsdroughtcell proliferationcell wall remodelinghydrophilic proteinsstress proteinsphytohormones |
| spellingShingle | Zhujia Ye Sasikiran Reddy Sangireddy Chih-Li Yu Dafeng Hui Kevin Howe Tara Fish Theodore W. Thannhauser Suping Zhou Comparative Proteomics of Root Apex and Root Elongation Zones Provides Insights into Molecular Mechanisms for Drought Stress and Recovery Adjustment in Switchgrass Proteomes root-tip zone-specific quantitative proteomics drought cell proliferation cell wall remodeling hydrophilic proteins stress proteins phytohormones |
| title | Comparative Proteomics of Root Apex and Root Elongation Zones Provides Insights into Molecular Mechanisms for Drought Stress and Recovery Adjustment in Switchgrass |
| title_full | Comparative Proteomics of Root Apex and Root Elongation Zones Provides Insights into Molecular Mechanisms for Drought Stress and Recovery Adjustment in Switchgrass |
| title_fullStr | Comparative Proteomics of Root Apex and Root Elongation Zones Provides Insights into Molecular Mechanisms for Drought Stress and Recovery Adjustment in Switchgrass |
| title_full_unstemmed | Comparative Proteomics of Root Apex and Root Elongation Zones Provides Insights into Molecular Mechanisms for Drought Stress and Recovery Adjustment in Switchgrass |
| title_short | Comparative Proteomics of Root Apex and Root Elongation Zones Provides Insights into Molecular Mechanisms for Drought Stress and Recovery Adjustment in Switchgrass |
| title_sort | comparative proteomics of root apex and root elongation zones provides insights into molecular mechanisms for drought stress and recovery adjustment in switchgrass |
| topic | root-tip zone-specific quantitative proteomics drought cell proliferation cell wall remodeling hydrophilic proteins stress proteins phytohormones |
| url | https://www.mdpi.com/2227-7382/8/1/3 |
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