Abstract
The success of a proteomic experiment largely depends on the quality and quantity of the protein extract. Currently, various protocols are available for extraction of proteins from different types of samples; however, further optimization is required for every new sample type. Hence, a common protein extraction protocol is desirable. In the present study, soluble proteins were extracted from six diverse samples using TRIzol without any additional clean-up step and subjected to 2-DE and 2D-DIGE analysis for global protein expression profiling. Image analysis using IMP7 and DeCyder showed good coverage, reproducibility and quality of the gel. MS analysis of 24 spots from all the six samples showed good score and coverage for the identified proteins. Additionally, this method facilitated the concurrent isolation of RNA from the same cell lysates with high integrity and quality, suitable for transcriptomic analysis. Thus, we demonstrate the use of a common protein extraction protocol involving TRIzol reagent for 2-DE, 2D-DIGE and MS analysis using six diverse samples and show its suitability for concomitant transcriptomic studies.
Keywords: 2-DE, 2D-DIGE, breast cancer, B. subtilis, glioblastoma cell line, mass spectrometry, protein extraction, S. coelicolor, TRIzol, yeast.
Current Proteomics
Title:A Simple Protein Extraction Method for Proteomic Analysis of Diverse Biological Specimens
Volume: 10 Issue: 4
Author(s): Panga Jaipal Reddy, Aishwarya Anand Rao, Darpan Malhotra, Samridhi Sharma, Ravinder Kumar, Rekha Jain, Kishore Gollapalli, Namita Pendharkar, Srikanth Rapole and Sanjeeva Srivastava
Affiliation:
Keywords: 2-DE, 2D-DIGE, breast cancer, B. subtilis, glioblastoma cell line, mass spectrometry, protein extraction, S. coelicolor, TRIzol, yeast.
Abstract: The success of a proteomic experiment largely depends on the quality and quantity of the protein extract. Currently, various protocols are available for extraction of proteins from different types of samples; however, further optimization is required for every new sample type. Hence, a common protein extraction protocol is desirable. In the present study, soluble proteins were extracted from six diverse samples using TRIzol without any additional clean-up step and subjected to 2-DE and 2D-DIGE analysis for global protein expression profiling. Image analysis using IMP7 and DeCyder showed good coverage, reproducibility and quality of the gel. MS analysis of 24 spots from all the six samples showed good score and coverage for the identified proteins. Additionally, this method facilitated the concurrent isolation of RNA from the same cell lysates with high integrity and quality, suitable for transcriptomic analysis. Thus, we demonstrate the use of a common protein extraction protocol involving TRIzol reagent for 2-DE, 2D-DIGE and MS analysis using six diverse samples and show its suitability for concomitant transcriptomic studies.
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Cite this article as:
Reddy Jaipal Panga, Rao Anand Aishwarya, Malhotra Darpan, Sharma Samridhi, Kumar Ravinder, Jain Rekha, Gollapalli Kishore, Pendharkar Namita, Rapole Srikanth and Srivastava Sanjeeva, A Simple Protein Extraction Method for Proteomic Analysis of Diverse Biological Specimens, Current Proteomics 2013; 10 (4) . https://dx.doi.org/10.2174/15701646113106660004
DOI https://dx.doi.org/10.2174/15701646113106660004 |
Print ISSN 1570-1646 |
Publisher Name Bentham Science Publisher |
Online ISSN 1875-6247 |
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Mass spectrometry data acquisition and analysis for proteomics
The Thematic Issue on "Mass spectrometry data acquisition and analysis for proteomics" aims to explore the latest advancements and challenges in the field of proteomics through the lens of mass spectrometry. Proteomics, the large-scale study of proteins and their functions, plays a crucial role in understanding various biological processes and ...read more
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