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Trapped ion mobility spectrometry and PASEF enable in-depth lipidomics from minimal sample amounts

Author

Listed:
  • Catherine G. Vasilopoulou

    (Max Planck Institute of Biochemistry)

  • Karolina Sulek

    (NNF Center for Protein Research)

  • Andreas-David Brunner

    (Max Planck Institute of Biochemistry)

  • Ningombam Sanjib Meitei

    (PREMIER Biosoft)

  • Ulrike Schweiger-Hufnagel

    (Bruker Daltonik GmbH)

  • Sven W. Meyer

    (Bruker Daltonik GmbH)

  • Aiko Barsch

    (Bruker Daltonik GmbH)

  • Matthias Mann

    (Max Planck Institute of Biochemistry
    NNF Center for Protein Research)

  • Florian Meier

    (Max Planck Institute of Biochemistry)

Abstract

A comprehensive characterization of the lipidome from limited starting material remains very challenging. Here we report a high-sensitivity lipidomics workflow based on nanoflow liquid chromatography and trapped ion mobility spectrometry (TIMS). Taking advantage of parallel accumulation–serial fragmentation (PASEF), we fragment on average 15 precursors in each of 100 ms TIMS scans, while maintaining the full mobility resolution of co-eluting isomers. The acquisition speed of over 100 Hz allows us to obtain MS/MS spectra of the vast majority of isotope patterns. Analyzing 1 µL of human plasma, PASEF increases the number of identified lipids more than three times over standard TIMS-MS/MS, achieving attomole sensitivity. Building on high intra- and inter-laboratory precision and accuracy of TIMS collisional cross sections (CCS), we compile 1856 lipid CCS values from plasma, liver and cancer cells. Our study establishes PASEF in lipid analysis and paves the way for sensitive, ion mobility-enhanced lipidomics in four dimensions.

Suggested Citation

  • Catherine G. Vasilopoulou & Karolina Sulek & Andreas-David Brunner & Ningombam Sanjib Meitei & Ulrike Schweiger-Hufnagel & Sven W. Meyer & Aiko Barsch & Matthias Mann & Florian Meier, 2020. "Trapped ion mobility spectrometry and PASEF enable in-depth lipidomics from minimal sample amounts," Nature Communications, Nature, vol. 11(1), pages 1-11, December.
    • Handle: RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-019-14044-x
    DOI: 10.1038/s41467-019-14044-x
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    Cited by:

    1. Mingdu Luo & Yandong Yin & Zhiwei Zhou & Haosong Zhang & Xi Chen & Hongmiao Wang & Zheng-Jiang Zhu, 2023. "A mass spectrum-oriented computational method for ion mobility-resolved untargeted metabolomics," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    2. Naomi Hoenisch Gravel & Annika Nelde & Jens Bauer & Lena Mühlenbruch & Sarah M. Schroeder & Marian C. Neidert & Jonas Scheid & Steffen Lemke & Marissa L. Dubbelaar & Marcel Wacker & Anna Dengler & Rei, 2023. "TOFIMS mass spectrometry-based immunopeptidomics refines tumor antigen identification," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    3. Alexandra K. Davies & Julian E. Alecu & Marvin Ziegler & Catherine G. Vasilopoulou & Fabrizio Merciai & Hellen Jumo & Wardiya Afshar-Saber & Mustafa Sahin & Darius Ebrahimi-Fakhari & Georg H. H. Borne, 2022. "AP-4-mediated axonal transport controls endocannabinoid production in neurons," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    4. Raissa Lerner & Dhanwin Baker & Claudia Schwitter & Sarah Neuhaus & Tony Hauptmann & Julia M. Post & Stefan Kramer & Laura Bindila, 2023. "Four-dimensional trapped ion mobility spectrometry lipidomics for high throughput clinical profiling of human blood samples," Nature Communications, Nature, vol. 14(1), pages 1-20, December.

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