Literature DB >> 33494504

Misincorporation Proteomics Technologies: A Review.

Joel R Steele1,2, Carly J Italiano2, Connor R Phillips2, Jake P Violi1,2, Lisa Pu2, Kenneth J Rodgers2, Matthew P Padula1.   

Abstract

Proteinopathies are diseases caused by factors that affect proteoform conformation. As such, a prevalent hypothesis is that the misincorporation of noncanonical amino acids into a proteoform results in detrimental structures. However, this hypothesis is missing proteomic evidence, specifically the detection of a noncanonical amino acid in a peptide sequence. This review aims to outline the current state of technology that can be used to investigate mistranslations and misincorporations whilst framing the pursuit as Misincorporation Proteomics (MiP). The current availability of technologies explored herein is mass spectrometry, sample enrichment/preparation, data analysis techniques, and the hyphenation of approaches. While many of these technologies show potential, our review reveals a need for further development and refinement of approaches is still required.

Entities:  

Keywords:  misincorporation; non protein amino acids; post translational modifications

Year:  2021        PMID: 33494504      PMCID: PMC7924376          DOI: 10.3390/proteomes9010002

Source DB:  PubMed          Journal:  Proteomes        ISSN: 2227-7382


  118 in total

1.  Analysis of the inhibition of growth produced by canavanine in Escherichia coli.

Authors:  J H SCHWARTZ; W K MAAS
Journal:  J Bacteriol       Date:  1960-06       Impact factor: 3.490

2.  L-DOPA is incorporated into brain proteins of patients treated for Parkinson's disease, inducing toxicity in human neuroblastoma cells in vitro.

Authors:  Sandra W Chan; Rachael A Dunlop; Anthony Rowe; Kay L Double; Kenneth J Rodgers
Journal:  Exp Neurol       Date:  2011-10-01       Impact factor: 5.330

3.  The MaxQuant computational platform for mass spectrometry-based shotgun proteomics.

Authors:  Stefka Tyanova; Tikira Temu; Juergen Cox
Journal:  Nat Protoc       Date:  2016-10-27       Impact factor: 13.491

Review 4.  Gentle Introduction to the Statistical Foundations of False Discovery Rate in Quantitative Proteomics.

Authors:  Thomas Burger
Journal:  J Proteome Res       Date:  2017-11-14       Impact factor: 4.466

5.  Enhanced Global Post-translational Modification Discovery with MetaMorpheus.

Authors:  Stefan K Solntsev; Michael R Shortreed; Brian L Frey; Lloyd M Smith
Journal:  J Proteome Res       Date:  2018-04-02       Impact factor: 4.466

6.  BoxCar acquisition method enables single-shot proteomics at a depth of 10,000 proteins in 100 minutes.

Authors:  Florian Meier; Philipp E Geyer; Sebastian Virreira Winter; Juergen Cox; Matthias Mann
Journal:  Nat Methods       Date:  2018-05-07       Impact factor: 28.547

7.  Translational incorporation of L-3,4-dihydroxyphenylalanine into proteins.

Authors:  Kiyoshi Ozawa; Madeleine J Headlam; Dmitri Mouradov; Stephen J Watt; Jennifer L Beck; Kenneth J Rodgers; Roger T Dean; Thomas Huber; Gottfried Otting; Nicholas E Dixon
Journal:  FEBS J       Date:  2005-06       Impact factor: 5.542

8.  Cell death and mitochondrial dysfunction induced by the dietary non-proteinogenic amino acid L-azetidine-2-carboxylic acid (Aze).

Authors:  Kate Samardzic; Kenneth J Rodgers
Journal:  Amino Acids       Date:  2019-07-13       Impact factor: 3.520

9.  Cytotoxicity and mitochondrial dysfunction caused by the dietary supplement l-norvaline.

Authors:  Kate Samardzic; Kenneth J Rodgers
Journal:  Toxicol In Vitro       Date:  2019-01-29       Impact factor: 3.500

10.  MSFragger: ultrafast and comprehensive peptide identification in mass spectrometry-based proteomics.

Authors:  Andy T Kong; Felipe V Leprevost; Dmitry M Avtonomov; Dattatreya Mellacheruvu; Alexey I Nesvizhskii
Journal:  Nat Methods       Date:  2017-04-10       Impact factor: 28.547

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  3 in total

1.  Correction: Steele et al. Misincorporation Proteomics Technologies: A Review. Proteomes 2021, 9, 2.

Authors:  Joel R Steele; Carly J Italiano; Connor R Phillips; Jake P Violi; Lisa Pu; Kenneth J Rodgers; Matthew P Padula
Journal:  Proteomes       Date:  2022-06-16

2.  Azetidine-2-Carboxylic Acid-Induced Oligodendrogliopathy: Relevance to the Pathogenesis of Multiple Sclerosis.

Authors:  Raymond A Sobel; Megan Albertelli; Julian R Hinojoza; Mary Jane Eaton; Kevin V Grimes; Edward Rubenstein
Journal:  J Neuropathol Exp Neurol       Date:  2022-05-20       Impact factor: 3.148

3.  A Novel Method for Creating a Synthetic L-DOPA Proteome and In Vitro Evidence of Incorporation.

Authors:  Joel Ricky Steele; Natalie Strange; Kenneth J Rodgers; Matthew P Padula
Journal:  Proteomes       Date:  2021-05-24
  3 in total

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