PMID- 38503780
OWN - NLM
STAT- MEDLINE
DCOM- 20240321
LR  - 20240413
IS  - 2041-1723 (Electronic)
IS  - 2041-1723 (Linking)
VI  - 15
IP  - 1
DP  - 2024 Mar 20
TI  - One-Tip enables comprehensive proteome coverage in minimal cells and single 
      zygotes.
PG  - 2474
LID - 10.1038/s41467-024-46777-9 [doi]
LID - 2474
AB  - Mass spectrometry (MS)-based proteomics workflows typically involve complex, 
      multi-step processes, presenting challenges with sample losses, reproducibility, 
      requiring substantial time and financial investments, and specialized skills. 
      Here we introduce One-Tip, a proteomics methodology that seamlessly integrates 
      efficient, one-pot sample preparation with precise, narrow-window 
      data-independent acquisition (nDIA) analysis. One-Tip substantially simplifies 
      sample processing, enabling the reproducible identification of >9000 proteins 
      from ~1000 HeLa cells. The versatility of One-Tip is highlighted by nDIA 
      identification of ~6000 proteins in single cells from early mouse embryos. 
      Additionally, the study incorporates the Uno Single Cell Dispenser, 
      demonstrating the capability of One-Tip in single-cell proteomics with >3000 
      proteins identified per HeLa cell. We also extend One-Tip workflow to analysis of 
      extracellular vesicles (EVs) extracted from blood plasma, demonstrating its high 
      sensitivity by identifying >3000 proteins from 16 ng EV preparation. One-Tip 
      expands capabilities of proteomics, offering greater depth and throughput across 
      a range of sample types.
CI  - (c) 2024. The Author(s).
FAU - Ye, Zilu
AU  - Ye Z
AUID- ORCID: 0000-0001-8829-6579
AD  - State Key Laboratory of Common Mechanism Research for Major Diseases, Suzhou 
      Institute of Systems Medicine, Chinese Academy of Medical Sciences & Peking Union 
      Medical College, Suzhou, China. yzl@ism.pumc.edu.cn.
AD  - Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, 
      Copenhagen, Denmark. yzl@ism.pumc.edu.cn.
FAU - Sabatier, Pierre
AU  - Sabatier P
AUID- ORCID: 0000-0002-2734-1791
AD  - Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, 
      Copenhagen, Denmark.
AD  - Department of Surgical Sciences, Uppsala University, Uppsala, Sweden.
FAU - Martin-Gonzalez, Javier
AU  - Martin-Gonzalez J
AUID- ORCID: 0000-0002-7075-6028
AD  - Core Facility for Transgenic Mice, Department of Experimental Medicine, 
      University of Copenhagen, Copenhagen, Denmark.
FAU - Eguchi, Akihiro
AU  - Eguchi A
AUID- ORCID: 0000-0003-2284-9091
AD  - Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, 
      Copenhagen, Denmark.
FAU - Lechner, Maico
AU  - Lechner M
AUID- ORCID: 0009-0006-7471-6003
AD  - Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, 
      Copenhagen, Denmark.
FAU - Ostergaard, Ole
AU  - Ostergaard O
AUID- ORCID: 0000-0003-3160-8548
AD  - Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, 
      Copenhagen, Denmark.
FAU - Xie, Jingsheng
AU  - Xie J
AD  - State Key Laboratory of Common Mechanism Research for Major Diseases, Suzhou 
      Institute of Systems Medicine, Chinese Academy of Medical Sciences & Peking Union 
      Medical College, Suzhou, China.
FAU - Guo, Yuan
AU  - Guo Y
AD  - Tecan Group Ltd., Mannedorf, Switzerland.
FAU - Schultz, Lesley
AU  - Schultz L
AD  - Tecan Group Ltd., Mannedorf, Switzerland.
FAU - Truffer, Rafaela
AU  - Truffer R
AD  - Tecan Group Ltd., Mannedorf, Switzerland.
FAU - Bekker-Jensen, Dorte B
AU  - Bekker-Jensen DB
AD  - Evosep Biosystems, Odense, Denmark.
FAU - Bache, Nicolai
AU  - Bache N
AD  - Evosep Biosystems, Odense, Denmark.
FAU - Olsen, Jesper V
AU  - Olsen JV
AUID- ORCID: 0000-0002-4747-4938
AD  - Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, 
      Copenhagen, Denmark. jesper.olsen@cpr.ku.dk.
LA  - eng
GR  - 810057-HighResCells/EC | Horizon 2020 Framework Programme (EU Framework Programme 
      for Research and Innovation H2020)/
GR  - ERA-PerMed-JTC2022-OVA-PDM/Innovationsfonden (Innovation Fund Denmark)/
GR  - NNF14CC0001/Novo Nordisk Fonden (Novo Nordisk Foundation)/
PT  - Journal Article
DEP - 20240320
PL  - England
TA  - Nat Commun
JT  - Nature communications
JID - 101528555
RN  - 0 (Proteome)
SB  - IM
EIN - Nat Commun. 2024 Apr 10;15(1):3099. PMID: 38600136
MH  - Humans
MH  - Animals
MH  - Mice
MH  - *Proteome/analysis
MH  - HeLa Cells
MH  - *Zygote/chemistry
MH  - Reproducibility of Results
MH  - Mass Spectrometry/methods
PMC - PMC10951212
COIS- Yuan Guo, Lesley Schultz and Rafaela Truffer are employees of Tecan, the vendor 
      of the Uno Single Cell Dispenser. Dorte B. Bekker-Jensen, Nicolai Bache are 
      employees of Evosep Biosystems, manufacturer of the Evosep instrumentation and 
      Evotip used in this work. Other authors declare no competing interests.
EDAT- 2024/03/20 06:45
MHDA- 2024/03/21 12:48
PMCR- 2024/03/20
CRDT- 2024/03/20 00:18
PHST- 2023/09/16 00:00 [received]
PHST- 2024/03/11 00:00 [accepted]
PHST- 2024/03/21 12:48 [medline]
PHST- 2024/03/20 06:45 [pubmed]
PHST- 2024/03/20 00:18 [entrez]
PHST- 2024/03/20 00:00 [pmc-release]
AID - 10.1038/s41467-024-46777-9 [pii]
AID - 46777 [pii]
AID - 10.1038/s41467-024-46777-9 [doi]
PST - epublish
SO  - Nat Commun. 2024 Mar 20;15(1):2474. doi: 10.1038/s41467-024-46777-9.