Proteomics

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Selected reaction monitoring based analysis of proteins in liver tissue of Labeo rohita

ABSTRACT: Bottom-up proteomics analysis relies on efficient protein digestion for performing mass spectrometric analysis. Optimisation of protein solubilisation and digestion strategies is a key step for obtaining reliable proteomic data. In this study, two different solubilisation buffers (SDS and Urea) and three digestion methods (FASP, S-Trap and in-solution,) were applied for the proteomic analysis of liver tissue of Labeo rohita. Label free quantification analysis was performed to analyse the similarities and differences in the results obtained in each method. Based on the discovery data, few proteins were selected for targeted data acquisition. These proteins were chosen on the basis of highest peptide spectral matches in different experimental conditions. The aim was to validate the trends in abundance of proteins in different experimental conditions.

ORGANISM(S): Labeo Rohita

SUBMITTER: Sanjeeva Srivastava  

PROVIDER: PXD028997 | panorama | Wed Mar 22 00:00:00 GMT 2023

REPOSITORIES: PanoramaPublic

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Publications

Ecological Monitoring and Omics: A Comprehensive Comparison of Workflows for Mass Spectrometry-Based Quantitative Proteomics of Fish (<i>Labeo rohita</i>) Liver Tissue.

Nissa Mehar Un MU   Pinto Nevil N   Varshnay Aanchal A   Goswami Mukunda M   Srivastava Sanjeeva S  

Omics : a journal of integrative biology 20220826 9

<b><i>Introduction:</i></b> The liver is highly sensitive to the environmental factors. Liver tissue, particularly from fish, is often used as a biological target in ecological monitoring, disease research, and stress response studies. <i>Labeo rohita</i> (rohu) is a fish with a significant role in the global aquaculture economy. <b><i>Methods:</i></b> Bottom-up proteomics relies on efficient sample preparation for performing mass spectrometric analysis of the liver tissue. Optimization of prote  ...[more]

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