scholarly journals Label-Free Quantitative Phosphoproteomics of the Fission Yeast Schizosaccharomyces pombe Using Strong Anion Exchange- and Porous Graphitic Carbon-Based Fractionation Strategies

2021 ◽  
Vol 22 (4) ◽  
pp. 1747
Author(s):  
Barbara Sivakova ◽  
Jan Jurcik ◽  
Veronika Lukacova ◽  
Tomas Selicky ◽  
Ingrid Cipakova ◽  
...  
Keyword(s):  
Schizosaccharomyces Pombe ◽  
Fission Yeast ◽  
Anion Exchange ◽  
Porous Graphitic Carbon ◽  
Graphitic Carbon ◽  
Label Free ◽  
Complex Samples ◽  
Phosphorylation Of Proteins ◽  
Strong Anion Exchange ◽  
Significant Addition

The phosphorylation of proteins modulates various functions of proteins and plays an important role in the regulation of cell signaling. In recent years, label-free quantitative (LFQ) phosphoproteomics has become a powerful tool to analyze the phosphorylation of proteins within complex samples. Despite the great progress, the studies of protein phosphorylation are still limited in throughput, robustness, and reproducibility, hampering analyses that involve multiple perturbations, such as those needed to follow the dynamics of phosphoproteomes. To address these challenges, we introduce here the LFQ phosphoproteomics workflow that is based on Fe-IMAC phosphopeptide enrichment followed by strong anion exchange (SAX) and porous graphitic carbon (PGC) fractionation strategies. We applied this workflow to analyze the whole-cell phosphoproteome of the fission yeast Schizosaccharomyces pombe. Using this strategy, we identified 8353 phosphosites from which 1274 were newly identified. This provides a significant addition to the S. pombe phosphoproteome. The results of our study highlight that combining of PGC and SAX fractionation strategies substantially increases the robustness and specificity of LFQ phosphoproteomics. Overall, the presented LFQ phosphoproteomics workflow opens the door for studies that would get better insight into the complexity of the protein kinase functions of the fission yeast S. pombe.

scholarly journals Solution-Processable Porous Graphitic Carbon from Bottom-Up Synthesis and Low-Temperature Graphitization

2021 ◽  
Author(s):  
Sai Che ◽  
Lei Fang ◽  
Sarbajit Banerjee ◽  
Mohammed Al-Hashimi ◽  
Zi-Hao Guo ◽  
...  
Keyword(s):  
High Temperature ◽  
Low Temperature ◽  
Porous Graphitic Carbon ◽  
Graphitic Carbon ◽  
Bottom Up ◽  
Solution Processable

It is urgently desired yet challenging to synthesize porous graphitic carbon (PGC) in a bottom-up manner while circumventing the need for high-temperature pyrolysis. Here we present an effective and scalable...

Single-step synthesis of oxygen-doped hollow porous graphitic carbon nitride for photocatalytic ciprofloxacin decomposition

2021 ◽  
pp. 130502
Author(s):  
Chitiphon Chuaicham ◽  
Karthikeyan Sekar ◽  
Yihuang Xiong ◽  
Vellaichamy Balakumar ◽  
Yanisa Mittraphab ◽  
...  
Keyword(s):  
Carbon Nitride ◽  
Single Step ◽  
Porous Graphitic Carbon ◽  
Graphitic Carbon ◽  
Graphitic Carbon Nitride

A simple tactic synthesis of hollow porous graphitic carbon nitride with significantly enriched photocatalytic performance

2021 ◽  
Author(s):  
Vellaichamy Balakumar ◽  
Manivannan Ramalingam ◽  
Chitiphon Chuaicham ◽  
KARTHIKEYAN SEKAR ◽  
K. Sasaki
Keyword(s):  
Crystal Structure ◽  
Surface Area ◽  
Carbon Nitride ◽  
Photocatalytic Performance ◽  
Porous Graphitic Carbon ◽  
Graphitic Carbon ◽  
Graphitic Carbon Nitride ◽  
Modified Surface

Hollow porous graphitic carbon nitride (porous CN) was synthesized via a simple tactic method, and the resulting porous CN showed an effectively modified surface area, crystal structure and enhanced photocatalytic...

scholarly journals Label-Free Mass Spectrometry-Based Quantification of Linker Histone H1 Variants in Clinical Samples

2020 ◽  
Vol 21 (19) ◽  
pp. 7330
Author(s):  
Roberta Noberini ◽  
Cristina Morales Torres ◽  
Evelyn Oliva Savoia ◽  
Stefania Brandini ◽  
Maria Giovanna Jodice ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Histone H1 ◽  
Histone Variants ◽  
Linker Histone ◽  
Clinical Samples ◽  
Label Free ◽  
Complex Samples ◽  
Linker Histone H1 ◽  
Ideal Tool ◽  
Free Quantification

Epigenetic aberrations have been recognized as important contributors to cancer onset and development, and increasing evidence suggests that linker histone H1 variants may serve as biomarkers useful for patient stratification, as well as play an important role as drivers in cancer. Although traditionally histone H1 levels have been studied using antibody-based methods and RNA expression, these approaches suffer from limitations. Mass spectrometry (MS)-based proteomics represents the ideal tool to accurately quantify relative changes in protein abundance within complex samples. In this study, we used a label-free quantification approach to simultaneously analyze all somatic histone H1 variants in clinical samples and verified its applicability to laser micro-dissected tissue areas containing as low as 1000 cells. We then applied it to breast cancer patient samples, identifying differences in linker histone variants patters in primary triple-negative breast tumors with and without relapse after chemotherapy. This study highlights how label-free quantitation by MS is a valuable option to accurately quantitate histone H1 levels in different types of clinical samples, including very low-abundance patient tissues.

scholarly journals Upstream – News in Genomics

2002 ◽  
Vol 3 (3) ◽  
pp. 221-225
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Ovarian Cancer ◽  
Oryza Sativa ◽  
Schizosaccharomyces Pombe ◽  
Fission Yeast ◽  
Proteomic Analysis ◽  
Large Scale ◽  
Protein Complexes ◽  
The Other ◽  
Blood Samples

In recent months a bumper crop of genomes has been completed, including the fission yeast (Schizosaccharomyces pombe) and rice (Oryza sativa). Two large-scale studies ofSaccharomyces cerevisiaeprotein complexes provided a picture of the eukaryotic proteome as a network of complexes. Amongst the other stories of interest was a demonstration that proteomic analysis of blood samples can be used to detect ovarian cancer, perhaps even as early as stage I.

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