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Spin filter–based sample preparation for shotgun proteomics

Nature Methods volume 6, page 785 (2009)Cite this article

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To the Editor:

Wiśniewski et al. recently reported a sample preparation method for proteome analysis using spin filter microcentrifugation devices1. The procedure described is almost identical to a method we reported in 2005 (ref. 2). In our paper, we described the use of spin filters to remove sodium dodecyl sulfate (SDS) and other contaminants, followed by the reduction, alkylation and tryptic digestion of proteins on the filter and finally the isolation of peptides by centrifugation. We described the application of the spin filter preparation method to purified proteins, protein mixtures, cell lysates and subcellular fractions, which are the major elements of the method described by Wiśniewski et al.1. Our spin filter method already has seen considerable use: we are aware of at least 18 publications in which it was applied (Supplementary Note).

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References

  1. Wiśniewski, J.R., Zougman, A., Nagaraj, N. & Mann, M. Nat. Methods 6, 359–362 (2009).

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  2. Manza, L.L., Stamer, S.L., Ham, A.J., Codreanu, S.G. & Liebler, D.C. Proteomics 5, 1742–1745 (2005).

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Acknowledgements

This work was supported in part by the National Cancer Institute Clinical Proteomic Technologies Assessment for Cancer program grant 1U24CA126479. We thank K. Cheek for technical assistance and R. Slebos for valuable comments.

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Authors and Affiliations

  1. Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, Tennessee, USA

    Daniel C Liebler & Amy-Joan L Ham

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  1. Daniel C Liebler
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  2. Amy-Joan L Ham
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Correspondence to Daniel C Liebler.

Supplementary information

Supplementary Text and Figures

Supplementary Methods, Supplementary Note (PDF 214 kb)

Supplementary Data

Summary reports of identified peptides and proteins (ZIP 10886 kb)

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Liebler, D., Ham, AJ. Spin filter–based sample preparation for shotgun proteomics. Nat Methods 6, 785 (2009). https://doi.org/10.1038/nmeth1109-785a

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