Terminomics Methodologies and the Completeness of Reductive Dimethylation: A Meta-Analysis of Publicly Available Datasets
Methods for analyzing the terminal sequences of proteins have been refined over the previous decade; however, few studies have evaluated the quality of the data that have been produced from those methodologies. While performing global N-terminal labelling on bacteria, we observed that the labelling...
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doaj-924cdfbdb381458f94fc7201d8eee0ac2020-11-24T21:52:47ZengMDPI AGProteomes2227-73822019-03-01721110.3390/proteomes7020011proteomes7020011Terminomics Methodologies and the Completeness of Reductive Dimethylation: A Meta-Analysis of Publicly Available DatasetsMariella Hurtado Silva0Iain J. Berry1Natalie Strange2Steven P. Djordjevic3Matthew P. Padula4Proteomics Core Facility and School of Life Sciences, Faculty of Science, University of Technology Sydney, Broadway NSW 2007, AustraliaProteomics Core Facility and School of Life Sciences, Faculty of Science, University of Technology Sydney, Broadway NSW 2007, AustraliaProteomics Core Facility and School of Life Sciences, Faculty of Science, University of Technology Sydney, Broadway NSW 2007, AustraliaThe ithree Institute, Faculty of Science, University of Technology Sydney, Broadway NSW 2007, AustraliaProteomics Core Facility and School of Life Sciences, Faculty of Science, University of Technology Sydney, Broadway NSW 2007, AustraliaMethods for analyzing the terminal sequences of proteins have been refined over the previous decade; however, few studies have evaluated the quality of the data that have been produced from those methodologies. While performing global N-terminal labelling on bacteria, we observed that the labelling was not complete and investigated whether this was a common occurrence. We assessed the completeness of labelling in a selection of existing, publicly available N-terminomics datasets and empirically determined that amine-based labelling chemistry does not achieve complete labelling and potentially has issues with labelling amine groups at sequence-specific residues. This finding led us to conduct a thorough review of the historical literature that showed that this is not an unexpected finding, with numerous publications reporting incomplete labelling. These findings have implications for the quantitation of N-terminal peptides and the biological interpretations of these data.https://www.mdpi.com/2227-7382/7/2/11terminomicsmass spectrometryamine labelling |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Mariella Hurtado Silva Iain J. Berry Natalie Strange Steven P. Djordjevic Matthew P. Padula |
spellingShingle |
Mariella Hurtado Silva Iain J. Berry Natalie Strange Steven P. Djordjevic Matthew P. Padula Terminomics Methodologies and the Completeness of Reductive Dimethylation: A Meta-Analysis of Publicly Available Datasets Proteomes terminomics mass spectrometry amine labelling |
author_facet |
Mariella Hurtado Silva Iain J. Berry Natalie Strange Steven P. Djordjevic Matthew P. Padula |
author_sort |
Mariella Hurtado Silva |
title |
Terminomics Methodologies and the Completeness of Reductive Dimethylation: A Meta-Analysis of Publicly Available Datasets |
title_short |
Terminomics Methodologies and the Completeness of Reductive Dimethylation: A Meta-Analysis of Publicly Available Datasets |
title_full |
Terminomics Methodologies and the Completeness of Reductive Dimethylation: A Meta-Analysis of Publicly Available Datasets |
title_fullStr |
Terminomics Methodologies and the Completeness of Reductive Dimethylation: A Meta-Analysis of Publicly Available Datasets |
title_full_unstemmed |
Terminomics Methodologies and the Completeness of Reductive Dimethylation: A Meta-Analysis of Publicly Available Datasets |
title_sort |
terminomics methodologies and the completeness of reductive dimethylation: a meta-analysis of publicly available datasets |
publisher |
MDPI AG |
series |
Proteomes |
issn |
2227-7382 |
publishDate |
2019-03-01 |
description |
Methods for analyzing the terminal sequences of proteins have been refined over the previous decade; however, few studies have evaluated the quality of the data that have been produced from those methodologies. While performing global N-terminal labelling on bacteria, we observed that the labelling was not complete and investigated whether this was a common occurrence. We assessed the completeness of labelling in a selection of existing, publicly available N-terminomics datasets and empirically determined that amine-based labelling chemistry does not achieve complete labelling and potentially has issues with labelling amine groups at sequence-specific residues. This finding led us to conduct a thorough review of the historical literature that showed that this is not an unexpected finding, with numerous publications reporting incomplete labelling. These findings have implications for the quantitation of N-terminal peptides and the biological interpretations of these data. |
topic |
terminomics mass spectrometry amine labelling |
url |
https://www.mdpi.com/2227-7382/7/2/11 |
work_keys_str_mv |
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