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Farooq A, Khan I, Shehzad J, Hasan M, Mustafa G. Proteomic insights to decipher nanoparticle uptake, translocation, and intercellular mechanisms in plants. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:18313-18339. [PMID: 38347361 DOI: 10.1007/s11356-024-32121-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Accepted: 01/17/2024] [Indexed: 03/09/2024]
Abstract
Advent of proteomic techniques has made it possible to identify a broad spectrum of proteins in living systems. Studying the impact of nanoparticle (NP)-mediated plant protein responses is an emerging field. NPs are continuously being released into the environment and directly or indirectly affect plant's biochemistry. Exposure of plants to NPs, especially crops, poses a significant risk to the food chain, leading to changes in underlying metabolic processes. Once absorbed by plants, NPs interact with cellular proteins, thereby inducing changes in plant protein patterns. Based on the reactivity, properties, and translocation of nanoparticles, NPs can interfere with proteins involved in various cellular processes in plants such as energy regulation, redox metabolism, and cytotoxicity. Such interactions of NPs at the subcellular level enhance ROS scavenging activity, especially under stress conditions. Although higher concentrations of NPs induce ROS production and hinder oxidative mechanisms under stress conditions, NPs also mediate metabolic changes from fermentation to normal cellular processes. Although there has been lots of work conducted to understand the different effects of NPs on plants, the knowledge of proteomic responses of plants toward NPs is still very limited. This review has focused on the multi-omic analysis of NP interaction mechanisms with crop plants mainly centering on the proteomic perspective in response to both stress and non-stressed conditions. Furthermore, NP-specific interaction mechanisms with the biological pathways are discussed in detail.
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Affiliation(s)
- Atikah Farooq
- Department of Plant Sciences, Faculty of Biological Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan
| | - Ilham Khan
- Department of Plant Sciences, Faculty of Biological Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan
| | - Junaid Shehzad
- Department of Plant Sciences, Faculty of Biological Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan
| | - Murtaza Hasan
- Department of Biotechnology, The Institute of Biochemistry, Biotechnology and Bioinformatics, The Islamia University of Bahawalpur, Punjab, 63100, Pakistan
- Faculty of Medicine, Dalian University of Technology, Dalian, 116024, People's Republic of China
| | - Ghazala Mustafa
- Department of Plant Sciences, Faculty of Biological Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan.
- Chemical Biology Center, Lishui Institute of Agriculture and Forestry Sciences, Lishui, 323000, China.
- State Agricultural Ministry Laboratory of Horticultural Crop Growth and Development, Ministry of Agriculture, Department of Horticulture, Zhejiang University, Hangzhou, 310058, China.
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Gel-based proteomics in disease research: Is it still valuable? BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2018; 1867:9-16. [PMID: 30392562 DOI: 10.1016/j.bbapap.2018.08.001] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2018] [Revised: 06/30/2018] [Accepted: 08/09/2018] [Indexed: 12/17/2022]
Abstract
Gel electrophoresis had been the primary method in proteomics. In the early era of proteomics, gel electrophoresis was a dominant technique of sample preparation for mass spectrometry analysis. Particularly, two-dimensional electrophoresis provided high-resolution proteome separation, and was regarded as the standard methodology for the separation of wide-range proteomes. However, gel electrophoresis turned downwards due to the progress of other separations including liquid chromatography and ionization techniques, resulting gel-free proteomics finally becoming dominant players at present. There are numerous advantages in gel-free approach in aspects of current trends of disease research. Interestingly, gel-free approaches are still advanced, it seems that gel electrophoresis will not be disappeared. The unique features of gel electrophoresis can be complementary for gel-free and it is suitable for the new wave of top-down functional proteomics.
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Rai V, Karthikaichamy A, Das D, Noronha S, Wangikar PP, Srivastava S. Multi-omics Frontiers in Algal Research: Techniques and Progress to Explore Biofuels in the Postgenomics World. OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY 2016; 20:387-99. [DOI: 10.1089/omi.2016.0065] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Vineeta Rai
- Department of Biosciences and Bioengineering, Proteomics Laboratory, Indian Institute of Technology Bombay, Mumbai, India
| | | | - Debasish Das
- Department of Biosciences and Bioengineering, Indian Institute of Technology, Guwahati, India
- DBT PAN IIT Centre for Bioenergy, Indian Institute of Technology, Bombay, Mumbai, India
| | - Santosh Noronha
- DBT PAN IIT Centre for Bioenergy, Indian Institute of Technology, Bombay, Mumbai, India
- Wadhwani Research Center for Bioengineering, Indian Institute of Technology Bombay, Mumbai, India
- Department of Chemical Engineering, Indian Institute of Technology Bombay, Mumbai, India
| | - Pramod P. Wangikar
- DBT PAN IIT Centre for Bioenergy, Indian Institute of Technology, Bombay, Mumbai, India
- Wadhwani Research Center for Bioengineering, Indian Institute of Technology Bombay, Mumbai, India
- Department of Chemical Engineering, Indian Institute of Technology Bombay, Mumbai, India
| | - Sanjeeva Srivastava
- Department of Biosciences and Bioengineering, Proteomics Laboratory, Indian Institute of Technology Bombay, Mumbai, India
- DBT PAN IIT Centre for Bioenergy, Indian Institute of Technology, Bombay, Mumbai, India
- Wadhwani Research Center for Bioengineering, Indian Institute of Technology Bombay, Mumbai, India
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Zhou A, Zhou T, Yu D, Shen Y, Shen J, Zhu Z, Jin L, Zhang H, Wang Y. Pre-staining of glycoprotein in SDS-PAGE by the synthesis of a new hydrazide derivative. Proteomics 2015; 15:3623-8. [DOI: 10.1002/pmic.201400567] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2014] [Revised: 07/07/2015] [Accepted: 07/27/2015] [Indexed: 01/14/2023]
Affiliation(s)
- Ayi Zhou
- School of Pharmaceutical Sciences; Key Laboratory of Biotechnology Pharmaceutical Engineering; Wenzhou Medical University; Wenzhou Zhejiang P. R. China
| | - Tieli Zhou
- Clinical Laboratory Center; The First Affiliated Hospital of Wenzhou Medical University; Wenzhou Zhejiang P. R. China
| | - Dongdong Yu
- School of Pharmaceutical Sciences; Key Laboratory of Biotechnology Pharmaceutical Engineering; Wenzhou Medical University; Wenzhou Zhejiang P. R. China
| | - Yingjie Shen
- School of Pharmaceutical Sciences; Key Laboratory of Biotechnology Pharmaceutical Engineering; Wenzhou Medical University; Wenzhou Zhejiang P. R. China
| | - Jiayi Shen
- School of Pharmaceutical Sciences; Key Laboratory of Biotechnology Pharmaceutical Engineering; Wenzhou Medical University; Wenzhou Zhejiang P. R. China
| | - Zhongxin Zhu
- School of Pharmaceutical Sciences; Key Laboratory of Biotechnology Pharmaceutical Engineering; Wenzhou Medical University; Wenzhou Zhejiang P. R. China
- Wenzhou Undersun Biotechnology Co., Ltd; Wenzhou Zhejiang P. R. China
| | - Litai Jin
- School of Pharmaceutical Sciences; Key Laboratory of Biotechnology Pharmaceutical Engineering; Wenzhou Medical University; Wenzhou Zhejiang P. R. China
- Wenzhou Undersun Biotechnology Co., Ltd; Wenzhou Zhejiang P. R. China
| | - Huajie Zhang
- School of Pharmaceutical Sciences; Key Laboratory of Biotechnology Pharmaceutical Engineering; Wenzhou Medical University; Wenzhou Zhejiang P. R. China
| | - Yang Wang
- Institute of neuroscience; Department of histology and embryology; Wenzhou Medical University; Wenzhou Zhejiang P. R. China
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Anguraj Vadivel AK. Gel-based proteomics in plants: time to move on from the tradition. FRONTIERS IN PLANT SCIENCE 2015; 6:369. [PMID: 26136753 PMCID: PMC4470439 DOI: 10.3389/fpls.2015.00369] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2014] [Accepted: 05/09/2015] [Indexed: 05/26/2023]
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