The sheep (Ovis aries) muscle proteome: Decoding the mechanisms of tolerance to Seasonal Weight Loss using label-free proteomics

2017 ◽  
Vol 161 ◽  
pp. 57-67 ◽  
Author(s):  
Ana M. Ferreira ◽  
Jonas Grossmann ◽  
Claudia Fortes ◽  
Tanya Kilminster ◽  
Tim Scanlon ◽  
...  
2020 ◽  
Vol 318 (6) ◽  
pp. E1022-E1037
Author(s):  
Lian Liu ◽  
Daniel A. Broszczak ◽  
James A. Broadbent ◽  
Daniel P. Singh ◽  
Roland Steck ◽  
...  

Proteomics offers the opportunity to identify and quantify many proteins and to explore how they correlate and interact with each other in biological networks. This study aimed to characterize changes in the muscle proteome during the destruction, repair, and early-remodeling phases after impact trauma in male Wistar rats. Muscle tissue was collected from uninjured control rats and rats that were euthanized between 6 h and 14 days after impact injury. Muscle tissue was analyzed using unbiased, data-independent acquisition LC-MS/MS. We identified 770 reviewed proteins in the muscle tissue, 296 of which were differentially abundant between the control and injury groups ( P ≤ 0.05). Around 50 proteins showed large differences (≥10-fold) or a distinct pattern of abundance after injury. These included proteins that have not been identified previously in injured muscle, such as ferritin light chain 1, fibrinogen γ-chain, fibrinogen β-chain, osteolectin, murinoglobulin-1, T-kininogen 2, calcium-regulated heat-stable protein 1, macrophage-capping protein, retinoid-inducible serine carboxypeptidase, ADP-ribosylation factor 4, Thy-1 membrane glycoprotein, and ADP-ribosylation factor-like protein 1. Some proteins increased between 6 h and 14 days, whereas other proteins increased in a more delayed pattern at 7 days after injury. Bioinformatic analysis revealed that various biological processes, including regulation of blood coagulation, fibrinolysis, regulation of wound healing, tissue regeneration, acute inflammatory response, and negative regulation of the immune effector process, were enriched in injured muscle tissue. This study advances the understanding of early muscle healing after muscle injury and lays a foundation for future mechanistic studies on interventions to treat muscle injury.


TECHNOLOGY ◽  
2017 ◽  
Vol 05 (03) ◽  
pp. 139-184 ◽  
Author(s):  
Gautham Vivek Sridharan ◽  
Matthew D’Alessandro ◽  
Shyam Sundhar Bale ◽  
Vicky Bhagat ◽  
Hugo Gagnon ◽  
...  

Morbidly obese patients often elect for Roux-en-Y gastric bypass (RYGB), a form of bariatric surgery that triggers a remarkable 30% reduction in excess body weight and reversal of insulin resistance for those who are type II diabetic. A more complete understanding of the underlying molecular mechanisms that drive the complex metabolic reprogramming post-RYGB could lead to innovative non-invasive therapeutics that mimic the beneficial effects of the surgery, namely weight loss, achievement of glycemic control, or reversal of non-alcoholic steatohepatitis (NASH). To facilitate these discoveries, we hereby demonstrate the first multi-omic interrogation of a rodent RYGB model to reveal tissue-specific pathway modules implicated in the control of body weight regulation and energy homeostasis. In this study, we focus on and evaluate liver metabolism three months following RYGB in rats using both SWATH proteomics, a burgeoning label free approach using high resolution mass spectrometry to quantify protein levels in biological samples, as well as MRM metabolomics. The SWATH analysis enabled the quantification of 1378 proteins in liver tissue extracts, of which we report the significant down-regulation of Thrsp and Acot13 in RYGB as putative targets of lipid metabolism for weight loss. Furthermore, we develop a computational graph-based metabolic network module detection algorithm for the discovery of non-canonical pathways, or sub-networks, enriched with significantly elevated or depleted metabolites and proteins in RYGB-treated rat livers. The analysis revealed a network connection between the depleted protein Baat and the depleted metabolite taurine, corroborating the clinical observation that taurine-conjugated bile acid levels are perturbed post-RYGB.


PLoS ONE ◽  
2016 ◽  
Vol 11 (2) ◽  
pp. e0146367 ◽  
Author(s):  
André M. Almeida ◽  
Rui G. Palhinhas ◽  
Tanya Kilminster ◽  
Timothy Scanlon ◽  
Sofia van Harten ◽  
...  

2016 ◽  
Vol 94 (suppl_5) ◽  
pp. 414-415
Author(s):  
A. M. Almeida ◽  
L. E. Hernandez-Castellano ◽  
A. M. Ferreira ◽  
P. Nanni ◽  
J. Grossmann ◽  
...  

2016 ◽  
Vol 145 ◽  
pp. 60-69 ◽  
Author(s):  
Lorenzo E. Hernández-Castellano ◽  
Ana M. Ferreira ◽  
Paolo Nanni ◽  
Jonas Grossmann ◽  
Anastasio Argüello ◽  
...  

2020 ◽  
Author(s):  
Nikolas Hundt

Abstract Single-molecule imaging has mostly been restricted to the use of fluorescence labelling as a contrast mechanism due to its superior ability to visualise molecules of interest on top of an overwhelming background of other molecules. Recently, interferometric scattering (iSCAT) microscopy has demonstrated the detection and imaging of single biomolecules based on light scattering without the need for fluorescent labels. Significant improvements in measurement sensitivity combined with a dependence of scattering signal on object size have led to the development of mass photometry, a technique that measures the mass of individual molecules and thereby determines mass distributions of biomolecule samples in solution. The experimental simplicity of mass photometry makes it a powerful tool to analyse biomolecular equilibria quantitatively with low sample consumption within minutes. When used for label-free imaging of reconstituted or cellular systems, the strict size-dependence of the iSCAT signal enables quantitative measurements of processes at size scales reaching from single-molecule observations during complex assembly up to mesoscopic dynamics of cellular components and extracellular protrusions. In this review, I would like to introduce the principles of this emerging imaging technology and discuss examples that show how mass-sensitive iSCAT can be used as a strong complement to other routine techniques in biochemistry.


Ob Gyn News ◽  
2008 ◽  
Vol 43 (4) ◽  
pp. 20
Author(s):  
MICHELE G. SULLIVAN

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