Ultra-fast proteomics with Scanning SWATH.

Arabidopsis / metabolism Biomarkers / metabolism COVID-19 / blood Cell Line Humans Peptides / analysis Proteome / analysis Proteomics / methods Saccharomyces cerevisiae / metabolism Saccharomyces cerevisiae Proteins / metabolism Severity of Illness Index Tandem Mass Spectrometry

Journal

Nature biotechnology
ISSN: 1546-1696
Titre abrégé: Nat Biotechnol
Pays: United States
ID NLM: 9604648

Informations de publication

Date de publication:
07 2021
Historique:
received: 26 10 2020
accepted: 18 02 2021
pubmed: 27 3 2021
medline: 21 7 2021
entrez: 26 3 2021
Statut: ppublish

Résumé

Accurate quantification of the proteome remains challenging for large sample series and longitudinal experiments. We report a data-independent acquisition method, Scanning SWATH, that accelerates mass spectrometric (MS) duty cycles, yielding quantitative proteomes in combination with short gradients and high-flow (800 µl min

Identifiants

DOI: 10.1038/s41587-021-00860-4 PMID: 33767396 PMC: PMC7611254
pubmed: 33767396
doi: 10.1038/s41587-021-00860-4
pii: 10.1038/s41587-021-00860-4
pmc: PMC7611254
mid: EMS121430
doi:

Substances chimiques

Biomarkers 0
Peptides 0
Proteome 0
Saccharomyces cerevisiae Proteins 0

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

846-854

Subventions

Organisme : Medical Research Council
ID : MR/V028448/1
Pays : United Kingdom
Organisme : Medical Research Council
ID : FC001134
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_PC_20060
Pays : United Kingdom
Organisme : Cancer Research UK
ID : FC001134
Pays : United Kingdom
Organisme : Wellcome Trust
ID : 200829/Z/16/Z
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_PC_17179
Pays : United Kingdom
Organisme : Wellcome Trust
ID : FC001134
Pays : United Kingdom

Commentaires et corrections

Type : CommentIn

Informations de copyright

© 2021. The Author(s), under exclusive licence to Springer Nature America, Inc. part of Springer Nature.

Références

J Fungi (Basel). 2019 Jun 17;5(2):
pubmed: 31212923
Anal Chem. 2020 Sep 15;92(18):12185-12192
pubmed: 32840101
Nat Methods. 2018 May;15(5):371-378
pubmed: 29608554
Nat Methods. 2020 Dec;17(12):1229-1236
pubmed: 33257825
Methods Mol Biol. 2019;2044:129-154
pubmed: 31432411
J Proteome Res. 2018 Jan 5;17(1):420-428
pubmed: 29083196
Mol Cell Proteomics. 2016 Jan;15(1):57-72
pubmed: 26512119
J Proteome Res. 2018 May 4;17(5):1983-1992
pubmed: 29641209
Nature. 2020 Jun;582(7813):592-596
pubmed: 32555458
Trends Endocrinol Metab. 2011 Jan;22(1):9-15
pubmed: 21067941
Nature. 2014 May 29;509(7502):582-7
pubmed: 24870543
Mol Omics. 2019 Oct 7;15(5):348-360
pubmed: 31465043
Nat Methods. 2017 Sep;14(9):903-908
pubmed: 28783153
Mol Syst Biol. 2019 Dec;15(12):e9021
pubmed: 31885202
Wiley Interdiscip Rev Syst Biol Med. 2013 Jan-Feb;5(1):73-82
pubmed: 23184638
Cell Syst. 2018 Sep 26;7(3):269-283.e6
pubmed: 30195436
Clin Chem. 2017 Jan;63(1):245-247
pubmed: 27864386
J Sep Sci. 2007 Sep;30(14):2190-7
pubmed: 17683046
J Proteome Res. 2018 Feb 2;17(2):780-793
pubmed: 29251506
Mol Syst Biol. 2017 Sep 26;13(9):942
pubmed: 28951502
Infection. 2020 Aug;48(4):619-626
pubmed: 32535877
OMICS. 2012 May;16(5):284-7
pubmed: 22455463
J Chromatogr Sci. 2013 Aug;51(7):694-703
pubmed: 23585638
Nat Rev Microbiol. 2020 Jun;18(6):319-331
pubmed: 32047294
Mol Syst Biol. 2020 Jan;16(1):e9111
pubmed: 32129943
Mol Cell Proteomics. 2018 Nov;17(11):2284-2296
pubmed: 30104208
Anal Chem. 2018 Oct 2;90(19):11503-11508
pubmed: 30179449
Proteomes. 2016;4(4):
pubmed: 27882306
Nat Rev Drug Discov. 2017 Jan;16(1):19-34
pubmed: 27910877
Microbiol Rev. 1978 Mar;42(1):45-66
pubmed: 379572
Mol Cell Proteomics. 2017 May;16(5):936-948
pubmed: 28302922
Proteomics. 2015 Sep;15(18):3193-208
pubmed: 26097198
Oncogene. 2003 Oct 20;22(47):7431-57
pubmed: 14576850
Mol Cell Proteomics. 2012 Jun;11(6):O111.016717
pubmed: 22261725
Thyroid. 2021 Jan;31(1):8-11
pubmed: 32600165
Nucleic Acids Res. 2019 Jan 8;47(D1):D506-D515
pubmed: 30395287
Mol Syst Biol. 2018 Aug 13;14(8):e8126
pubmed: 30104418
Bioinformatics. 2016 Sep 15;32(18):2847-9
pubmed: 27207943
Nat Commun. 2020 Jan 9;11(1):157
pubmed: 31919466
Sci Rep. 2018 Mar 12;8(1):4346
pubmed: 29531254
Anal Chem. 2018 Aug 7;90(15):8905-8911
pubmed: 29984981
Mol Cell Proteomics. 2019 Jun;18(6):1242-1254
pubmed: 30948622
J Proteome Res. 2020 Nov 6;19(11):4219-4232
pubmed: 32657586
J Am Soc Mass Spectrom. 2020 Oct 7;31(10):2013-2024
pubmed: 32880453
Nat Rev Microbiol. 2008 Jul;6(7):541-52
pubmed: 18552864
Nucleic Acids Res. 2019 Jan 8;47(D1):D442-D450
pubmed: 30395289
Mol Cell Proteomics. 2015 Mar;14(3):739-49
pubmed: 25561506
Int J Environ Res Public Health. 2020 Sep 11;17(18):
pubmed: 32932954
Arterioscler Thromb Vasc Biol. 2019 Dec;39(12):e253-e272
pubmed: 31578081
Drug Resist Updat. 2012 Aug;15(4):183-210
pubmed: 22921318
Anal Chem. 2018 Aug 7;90(15):9529-9537
pubmed: 29969236
Mini Rev Med Chem. 2016;16(7):555-78
pubmed: 26776224
Antimicrob Agents Chemother. 2014;58(2):1055-62
pubmed: 24277040
Nat Methods. 2018 Jun;15(6):440-448
pubmed: 29735998
F1000Res. 2013 Dec 13;2:272
pubmed: 24741437
Br J Dermatol. 2013 May;168(5):984-9
pubmed: 23614561
Nat Methods. 2010 Sep;7(9):681-5
pubmed: 20805795
Annu Rev Biochem. 2011;80:273-99
pubmed: 21548781
Nat Methods. 2020 Jan;17(1):41-44
pubmed: 31768060
Bioanalysis. 2015;7(14):1799-815
pubmed: 26270786
Biochem Soc Trans. 2019 Apr 30;47(2):541-557
pubmed: 30837322
Mol Cell Proteomics. 2014 Sep;13(9):2513-26
pubmed: 24942700
Cell Syst. 2020 Jul 22;11(1):11-24.e4
pubmed: 32619549
Pharmacol Res. 2020 Aug;158:104904
pubmed: 32430286
Nat Methods. 2009 May;6(5):359-62
pubmed: 19377485
Mol Cell Proteomics. 2017 Dec;16(12):2296-2309
pubmed: 29070702
Nat Med. 2020 Jan;26(1):83-90
pubmed: 31932806
Curr Infect Dis Rep. 2016 Dec;18(12):41
pubmed: 27761779
Nucleic Acids Res. 2018 Jan 4;46(D1):D661-D667
pubmed: 29136241
J Proteome Res. 2018 Feb 2;17(2):770-779
pubmed: 28901143
Mol Cell Proteomics. 2020 Apr;19(4):716-729
pubmed: 32051234
Nature. 2016 Sep 14;537(7620):347-55
pubmed: 27629641
Lipids Health Dis. 2012 Jul 23;11:92
pubmed: 22824324
Sci Rep. 2019 Jul 1;9(1):9427
pubmed: 31263122
Cell. 2020 Jul 9;182(1):59-72.e15
pubmed: 32492406
J Proteome Res. 2021 Apr 2;20(4):1972-1980
pubmed: 33325715
Nat Microbiol. 2016 Feb 01;1:15030
pubmed: 27572163
Mol Cell Proteomics. 2014 Jan;13(1):339-47
pubmed: 24143002
NPJ Syst Biol Appl. 2018 May 29;4:19
pubmed: 29872542
Cell Syst. 2021 Jan 20;12(1):23-40.e7
pubmed: 33096026
Thromb Haemost. 1981 Feb 23;45(1):51-4
pubmed: 6166063
Virulence. 2017 Feb 17;8(2):135-137
pubmed: 28095189

Auteurs

Christoph B Messner (CB)

Molecular Biology of Metabolism Laboratory, The Francis Crick Institute, London, UK.
Department of Biochemistry, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.

Vadim Demichev (V)

Molecular Biology of Metabolism Laboratory, The Francis Crick Institute, London, UK.
Department of Biochemistry, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.
Department of Biochemistry, Cambridge Centre for Proteomics, University of Cambridge, Cambridge, UK.
ORCID: 0000-0002-2424-9412

Nic Bloomfield (N)

SCIEX, Concord, Ontario, Canada.

Jason S L Yu (JSL)

Molecular Biology of Metabolism Laboratory, The Francis Crick Institute, London, UK.

Matthew White (M)

Molecular Biology of Metabolism Laboratory, The Francis Crick Institute, London, UK.

Marco Kreidl (M)

Molecular Biology of Metabolism Laboratory, The Francis Crick Institute, London, UK.

Anna-Sophia Egger (AS)

Molecular Biology of Metabolism Laboratory, The Francis Crick Institute, London, UK.

Anja Freiwald (A)

Department of Biochemistry, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.
Core Facility - High Throughput Mass Spectrometry, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.

Gordana Ivosev (G)

SCIEX, Concord, Ontario, Canada.

Fras Wasim (F)

SCIEX, Concord, Ontario, Canada.

Aleksej Zelezniak (A)

Molecular Biology of Metabolism Laboratory, The Francis Crick Institute, London, UK.
Department of Biology and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden.

Linda Jürgens (L)

Department of Infectious Diseases and Respiratory Medicine, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.

Norbert Suttorp (N)

Department of Infectious Diseases and Respiratory Medicine, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.

Leif Erik Sander (LE)

Department of Infectious Diseases and Respiratory Medicine, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.
ORCID: 0000-0002-0476-9947

Florian Kurth (F)

Department of Infectious Diseases and Respiratory Medicine, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.
Department of Tropical Medicine, Bernhard Nocht Institute for Tropical Medicine & I. Department of Medicine, University Medical Center Hamburg-Eppendorf, Hamburg, Germany.
ORCID: 0000-0002-3807-473X

Kathryn S Lilley (KS)

Department of Biochemistry, Cambridge Centre for Proteomics, University of Cambridge, Cambridge, UK.
ORCID: 0000-0003-0594-6543

Michael Mülleder (M)

Core Facility - High Throughput Mass Spectrometry, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany.

Stephen Tate (S)

SCIEX, Concord, Ontario, Canada.

Markus Ralser (M)

Molecular Biology of Metabolism Laboratory, The Francis Crick Institute, London, UK. markus.ralser@crick.ac.uk.
Department of Biochemistry, Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Berlin, Germany. markus.ralser@crick.ac.uk.
ORCID: 0000-0001-9535-7413

Articles similaires

[Redispensing of expensive oral anticancer medicines: a practical application].

Lisanne N van Merendonk, Kübra Akgöl, Bastiaan Nuijen
1.00
Humans Antineoplastic Agents Administration, Oral Drug Costs Counterfeit Drugs

Smoking Cessation and Incident Cardiovascular Disease.

Jun Hwan Cho, Seung Yong Shin, Hoseob Kim et al.
1.00
Humans Male Smoking Cessation Cardiovascular Diseases Female

Evaluation of Low-Value Services Across Major Medicare Advantage Insurers and Traditional Medicare.

Ciara Duggan, Adam L Beckman, Ishani Ganguli et al.
1.00
Humans United States Aged Cross-Sectional Studies Medicare Part C

Effectiveness of Virtual Yoga for Chronic Low Back Pain: A Randomized Clinical Trial.

Hallie Tankha, Devyn Gaskins, Amanda Shallcross et al.
1.00
Humans Yoga Low Back Pain Female Male

Classifications MeSH

questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Brassicaceae › Arabidopsis › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Facteurs biologiques › Marqueurs biologiques › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Maladies de l'appareil respiratoire › Infections de l'appareil respiratoire › Pneumopathie infectieuse › Pneumopathie virale › COVID-19 › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Cellules › Cellules cultivées › Lignée cellulaire › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Eucaryotes › Animaux › Chordés › Vertébrés › Mammifères › Eutheria › Primates › Haplorhini › Catarrhini › Hominidae › Humains › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Acides aminés, peptides et protéines › Peptides › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Acides aminés, peptides et protéines › Protéines › Protéome › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Disciplines des sciences naturelles › Chimie › Biochimie › Protéomique › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Eucaryotes › Champignons › Levures › Saccharomyces › Saccharomyces cerevisiae › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Acides aminés, peptides et protéines › Protéines › Protéines fongiques › Protéines de Saccharomyces cerevisiae › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Environnement et santé publique › Santé publique › Méthodes épidémiologiques › Collecte de données › Enquêtes et questionnaires › Enquêtes de santé › Indicateurs d'état de santé › Acuité des besoins du patient › Indice de gravité de la maladie › Ultra-fast proteomics with Scanning SWATH.
questionsmedicales.fr › Techniques d'investigation › Techniques de chimie analytique › Spectrométrie de masse › Spectrométrie de masse en tandem › Ultra-fast proteomics with Scanning SWATH.