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Mass Spectrometry Based Comparative Proteomics Using One Dimensional and Two Dimensional SDS-PAGE of Rat Atria Induced with Obstructive Sleep Apnea

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Advancements of Mass Spectrometry in Biomedical Research

Part of the book series: Advances in Experimental Medicine and Biology ((AEMB,volume 1140))

Abstract

Proteomics involves large-scale comprehensive study of specific proteomes which have been widely used in the field of biomarker discovery, drug development, disease diagnosis and therapy. Comprehensive proteomics involve two or more proteomics approaches that are confirmatory, complementary, and/or synergistic. Obstructive sleep apnea (OSA) is a sleep disorder which causes respiratory cessation (due to upper airway collapse). Here we describe a comprehensive MS based label-free quantitative proteomic analysis of the OSA induced rat atria homogenates and matched controls by using 1 dimensional SDS PAGE (1-D PAGE) and 2 dimensional SDS PAGE (2-D PAGE) separation of the proteins, enzymatic digestion and analysis by nanoliquid chromatography tandem-mass spectrometry (LC-MS/MS). The outcomes from the 1D-PAGE and 2D-PAGE studies not only identified dysregulated proteins due to OSA, but also confirmed and complemented each other.

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Abbreviations

1-D PAGE:

1 dimensional SDS PAGE

2-D PAGE:

2 dimensional SDS PAGE

ACN:

Acetonitrile

AHI:

Apnea-hypopnea index

BCA:

Bicinchoninic acid

DTT:

Dithiothreitol

ECG:

Electrocardiogram

HSP:

Heat shock protein

IAA:

Iodoacetamide

IEF:

Isoelectric focusing

LC-MS/MS:

Liquid chromatography mass spectrometry

MS:

Mass spectrometry

OSA:

Obstructive sleep apnea

pI:

Isoelectric points

PLGS:

ProteinLynx Global Server

SDS-PAGE:

Sodium dodecyl sulfate-polyacrylamide gel electrophoresis

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Acknowledgments

The Authors thank Dr. Babu Suryadevara and Clarkson University’s Center for Advanced Materials Processing (CAMP) for the initial funding on the OSA project. We would also like to thanks Kendrick Laboratories, Inc. for the 2D-PAGE analysis.

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Authors and Affiliations

  1. Biochemistry and Proteomics Group, Department of Chemistry and Biomolecular Science, Potsdam, NY, USA

    Devika Channaveerappa & Costel C. Darie

  2. Department of Physiology and Biophysics, Jacobs School of Medicine and Biomedical Sciences, SUNY Buffalo, Buffalo, NY, USA

    Brian K. Panama

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  1. Devika Channaveerappa
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  2. Brian K. Panama
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  3. Costel C. Darie
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Correspondence to Devika Channaveerappa or Costel C. Darie .

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  1. Biochemistry and Proteomics Group, Department of Chemistry and Biomolecular Science, Clarkson University, Potsdam, NY, USA

    Alisa G. Woods

  2. Biochemistry and Proteomics Group, Department of Chemistry and Biomolecular Science, Clarkson University, Potsdam, NY, USA

    Costel C. Darie

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Channaveerappa, D., Panama, B.K., Darie, C.C. (2019). Mass Spectrometry Based Comparative Proteomics Using One Dimensional and Two Dimensional SDS-PAGE of Rat Atria Induced with Obstructive Sleep Apnea. In: Woods, A., Darie, C. (eds) Advancements of Mass Spectrometry in Biomedical Research. Advances in Experimental Medicine and Biology, vol 1140. Springer, Cham. https://doi.org/10.1007/978-3-030-15950-4_32

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