Advances of Proteomics in Novel PTM Discovery: Applications in Cancer Therapy

Wang, Yang; Zhang, Jing; B, Li; He, Qing-Yu

doi:10.1002/smtd.201900041

Cited by 33 publications

(24 citation statements)

References 107 publications

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“…Protein post-translational modifications (PTMs), the covalent processing events that cleaving or adding a modifying group to an amino acid or more amino acids, are essential regulatory patterns of diverse biological processes and cellular events [1]. Increasing new PTMs have been reported due to the development of high-resolution mass spectrometry (MS), such as acetylation (Kac), succinylation (Ksucc), propionylation, butyrylation and crotonylation etc [2][3][4]. With bioinformatics tools, their biological processes regulation and metabolic pathways adjustment roles have been illustrated to some extent [2][3][4].…”

Section: Introductionmentioning

confidence: 99%

“…Increasing new PTMs have been reported due to the development of high-resolution mass spectrometry (MS), such as acetylation (Kac), succinylation (Ksucc), propionylation, butyrylation and crotonylation etc [2][3][4]. With bioinformatics tools, their biological processes regulation and metabolic pathways adjustment roles have been illustrated to some extent [2][3][4]. To data, more than 400 distinct PTMs have been reported in living various organisms [5].…”

Section: Introductionmentioning

confidence: 99%

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Systematic analysis of lysine 2-hydroxyisobutyrylation posttranslational modification in wheat leaves

Wang

et al. 2021

PLoS ONE

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Lysine 2-hydroxyisobutyrylation (Khib) is a recently discovered post-translational modification (PTM) showing diverse biological functions and effects in living organisms. However, the study of Khib in plant species is still relatively limited. Wheat (Triticum aestivum L.) is a global important cereal plant. In this study, the systematic Khib analysis was performed in wheat leave tissues. A total of 3004 Khib sites in 1104 proteins were repeatedly identified. Structure characterization of these Khib peptides revealed 12 conserved sequence motifs. Function classification and enrichment analysis indicated these Khib proteins showed a wide function and pathway distribution, of which ribosome activity, protein biosynthesis and photosynthesis were the preferred biological processes. Subcellular location predication indicated chloroplast was the dominant subcellular compartment where Khib was distributed. There may be some crosstalks among Khib, lysine acetylation and lysine succinylation modification because some proteins and sites were modified by all these three acylations. The present study demonstrated the critical role of Khib in wheat biological and physiology, which has expanded the scope of Khib in plant species. Our study is an available resource and reference of Khib function demonstration and structure characterization in cereal plant, as well as in plant kingdom.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Systematic analysis of lysine 2-hydroxyisobutyrylation posttranslational modification in wheat leaves

Wang

et al. 2021

PLoS ONE

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“…Recent study suggested that nuclear acid-based genomic data did not fully consist with proteomic data ( 5 ). Current proteomic analysis afforded a new paradigm for understanding cancer biology with functional context to interpret genomic data ( 6 ). Thus, it is critically important to profile specific biomarkers to distinguish COAD and READ for better understanding of these two diseases and supporting the tailoring of medical treatment.…”

Section: Introductionmentioning

confidence: 99%

Comparative Proteome Identifies Complement Component 3-Mediated Immune Response as Key Difference of Colon Adenocarcinoma and Rectal Adenocarcinoma

Liang

Zhong

et al. 2021

Front. Oncol.

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Colorectal cancer (CRC) is one of the most lethal diseases with high morbidity and mortality worldwide. Clinically, tumors located in colon and rectum have diverse prognosis and therapeutic outcome. Here, we performed data mining derived from 20 CRC patient samples to compare proteomic difference between colon adenocarcinoma (COAD) and rectal adenocarcinoma (READ). We found that differential expressed proteins (DEPs) upregulated in COAD were mainly enriched in immune response, moreover, higher immune scores were found in COAD than READ, as calculated by The Cancer Genome Atlas (TCGA) data. To identify the core protein of DEPs with high prognostic value for COAD, we performed topological overlap matrix (TOM) to investigate the hub proteins using 77 immune-relevant DEPs, and identified complement component 3 (C3) as the core protein in the immune-relevant DEPs matrix between the COAD and READ. Moreover, we found that C3 was up-regulated in COAD, and its expression was negatively associated with overall survival of COAD patients but not READ. In conclusion, we identified C3-mediated immune response as key feature to distinguish COAD and READ, and highlighted C3 as potential biomarker with high prognostic value for clinical application, which provided new clue for precise treatment of COAD.

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“…With the advanced mass spectrometric technology developed, new PTMs on CDK5 including glycosylation, phosphorylation, ubiquitin, sumoylation and acetylation were identified to play important roles in tumorigenesis [75][76][77]. These PTMs are found to be essential for modulating the activity of CDK5 during tumor occurrence and development.…”

Section: Various Types Of Ptms On Cdk5mentioning

confidence: 99%

Post-translational modifications of CDK5 and their biological roles in cancer

et al. 2021

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Post-translational modifications (PTMs) of Cyclin-dependent kinase 5 (CDK5) have emerged as important regulatory mechanisms that modulate cancer development in patients. Though CDK5 is an atypical member of the cyclin-dependent kinase family, its aberrant expression links to cell proliferation, DNA damage response, apoptosis, migration and angiogenesis in cancer. Current studies suggested that, new PTMs on CDK5, including S-nitrosylation, sumoylation, and acetylation, serve as molecular switches to control the kinase activity of CDK5 in the cell. However, a majority of these modifications and their biological significance in cancer remain uncharacterized. In this review, we discussed the role of PTMs on CDK5-mediated signaling cascade, and their possible mechanisms of action in malignant tumors, as well as the challenges and future perspectives in this field. On the basis of the newly identified regulatory signaling pathways of CDK5 related to PTMs, researchers have investigated the cancer therapeutic potential of chemical compounds, small-molecule inhibitors, and competitive peptides by targeting CDK5 and its PTMs. Results of these preclinical studies demonstrated that targeting PTMs of CDK5 yields promising antitumor effects and that clinical translation of these therapeutic strategies is warranted.

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Advances of Proteomics in Novel PTM Discovery: Applications in Cancer Therapy

Cited by 33 publications

References 107 publications

Systematic analysis of lysine 2-hydroxyisobutyrylation posttranslational modification in wheat leaves

Systematic analysis of lysine 2-hydroxyisobutyrylation posttranslational modification in wheat leaves

Comparative Proteome Identifies Complement Component 3-Mediated Immune Response as Key Difference of Colon Adenocarcinoma and Rectal Adenocarcinoma

Post-translational modifications of CDK5 and their biological roles in cancer

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