Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry

Alexander Leitner; Alexandre M.J.J. Bonvin; Christoph H. Borchers; Robert J. Chalkley; Julia Chamot-Rooke; Colin W. Combe; Jürgen Cox; Meng Qiu Dong; Lutz Fischer; Michael Götze; Fabio C. Gozzo; Albert J.R. Heck; Michael R. Hoopmann; Lan Huang; Yasushi Ishihama; Andrew R. Jones; Nir Kalisman; Oliver Kohlbacher; Karl Mechtler; Robert L. Moritz; Eugen Netz; Petr Novak; Evgeniy Petrotchenko; Andrej Sali; Richard A. Scheltema; Carla Schmidt; David Schriemer; Andrea Sinz; Frank Sobott; Florian Stengel; Konstantinos Thalassinos; Henning Urlaub; Rosa Viner; Juan A. Vizcaíno; Marc R. Wilkins; Juri Rappsilber

doi:10.1016/j.str.2020.09.011

Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry

Alexander Leitner^*, Alexandre M.J.J. Bonvin, Christoph H. Borchers, Robert J. Chalkley, Julia Chamot-Rooke, Colin W. Combe, Jürgen Cox, Meng Qiu Dong, Lutz Fischer, Michael Götze, Fabio C. Gozzo, Albert J.R. Heck, Michael R. Hoopmann, Lan Huang, Yasushi Ishihama, Andrew R. Jones, Nir Kalisman, Oliver Kohlbacher, Karl Mechtler, Robert L. MoritzEugen Netz, Petr Novak, Evgeniy Petrotchenko, Andrej Sali, Richard A. Scheltema, Carla Schmidt, David Schriemer, Andrea Sinz, Frank Sobott, Florian Stengel, Konstantinos Thalassinos, Henning Urlaub, Rosa Viner, Juan A. Vizcaíno, Marc R. Wilkins, Juri Rappsilber^*

^*Corresponding author for this work

Department of Biological Chemistry

Research output: Contribution to journal › Article › peer-review

29 Scopus citations

Abstract

Cross-linking mass spectrometry (MS) has substantially matured as a method over the past 2 decades through parallel development in multiple labs, demonstrating its applicability to protein structure determination, conformation analysis, and mapping protein interactions in complex mixtures. Cross-linking MS has become a much-appreciated and routinely applied tool, especially in structural biology. Therefore, it is timely that the community commits to the development of methodological and reporting standards. This white paper builds on an open process comprising a number of events at community conferences since 2015 and identifies aspects of Cross-linking MS for which guidelines should be developed as part of a Cross-linking MS standards initiative.

Original language	American English
Pages (from-to)	1259-1268
Number of pages	10
Journal	Structure
Volume	28
Issue number	11
DOIs	https://doi.org/10.1016/j.str.2020.09.011
State	Published - 3 Nov 2020

Bibliographical note

Funding Information:
We thank the participants of the meetings mentioned throughout the text for their many different contributions. Although we made an effort to include all labs that may feel a belonging to the field of Cross-linking MS, we apologize to all those that we missed. Developing standards in Cross-linking MS is to be viewed as an inclusive activity, so please feel warmly invited to join our efforts. This work was supported by the Wellcome Trust through a Senior Research Fellowship to J.R. ( 103139 ) and the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation, project 329673113 ). Funded by the DFG under Germany's Excellence Strategy, EXC 2008/1- 390540038 . The Wellcome Centre for Cell Biology is supported by core funding from the Wellcome Trust ( 203149 ).

Publisher Copyright:
© 2020

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10.1016/j.str.2020.09.011

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Leitner, A., Bonvin, A. M. J. J., Borchers, C. H., Chalkley, R. J., Chamot-Rooke, J., Combe, C. W., Cox, J., Dong, M. Q., Fischer, L., Götze, M., Gozzo, F. C., Heck, A. J. R., Hoopmann, M. R., Huang, L., Ishihama, Y., Jones, A. R., Kalisman, N., Kohlbacher, O., Mechtler, K., ... Rappsilber, J. (2020). Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry. Structure, 28(11), 1259-1268. https://doi.org/10.1016/j.str.2020.09.011

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title = "Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry",

abstract = "Cross-linking mass spectrometry (MS) has substantially matured as a method over the past 2 decades through parallel development in multiple labs, demonstrating its applicability to protein structure determination, conformation analysis, and mapping protein interactions in complex mixtures. Cross-linking MS has become a much-appreciated and routinely applied tool, especially in structural biology. Therefore, it is timely that the community commits to the development of methodological and reporting standards. This white paper builds on an open process comprising a number of events at community conferences since 2015 and identifies aspects of Cross-linking MS for which guidelines should be developed as part of a Cross-linking MS standards initiative.",

author = "Alexander Leitner and Bonvin, {Alexandre M.J.J.} and Borchers, {Christoph H.} and Chalkley, {Robert J.} and Julia Chamot-Rooke and Combe, {Colin W.} and J{\"u}rgen Cox and Dong, {Meng Qiu} and Lutz Fischer and Michael G{\"o}tze and Gozzo, {Fabio C.} and Heck, {Albert J.R.} and Hoopmann, {Michael R.} and Lan Huang and Yasushi Ishihama and Jones, {Andrew R.} and Nir Kalisman and Oliver Kohlbacher and Karl Mechtler and Moritz, {Robert L.} and Eugen Netz and Petr Novak and Evgeniy Petrotchenko and Andrej Sali and Scheltema, {Richard A.} and Carla Schmidt and David Schriemer and Andrea Sinz and Frank Sobott and Florian Stengel and Konstantinos Thalassinos and Henning Urlaub and Rosa Viner and Vizca{\'i}no, {Juan A.} and Wilkins, {Marc R.} and Juri Rappsilber",

note = "Funding Information: We thank the participants of the meetings mentioned throughout the text for their many different contributions. Although we made an effort to include all labs that may feel a belonging to the field of Cross-linking MS, we apologize to all those that we missed. Developing standards in Cross-linking MS is to be viewed as an inclusive activity, so please feel warmly invited to join our efforts. This work was supported by the Wellcome Trust through a Senior Research Fellowship to J.R. ( 103139 ) and the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation, project 329673113 ). Funded by the DFG under Germany's Excellence Strategy, EXC 2008/1- 390540038 . The Wellcome Centre for Cell Biology is supported by core funding from the Wellcome Trust ( 203149 ). Publisher Copyright: {\textcopyright} 2020",

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Leitner, A, Bonvin, AMJJ, Borchers, CH, Chalkley, RJ, Chamot-Rooke, J, Combe, CW, Cox, J, Dong, MQ, Fischer, L, Götze, M, Gozzo, FC, Heck, AJR, Hoopmann, MR, Huang, L, Ishihama, Y, Jones, AR, Kalisman, N, Kohlbacher, O, Mechtler, K, Moritz, RL, Netz, E, Novak, P, Petrotchenko, E, Sali, A, Scheltema, RA, Schmidt, C, Schriemer, D, Sinz, A, Sobott, F, Stengel, F, Thalassinos, K, Urlaub, H, Viner, R, Vizcaíno, JA, Wilkins, MR & Rappsilber, J 2020, 'Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry', Structure, vol. 28, no. 11, pp. 1259-1268. https://doi.org/10.1016/j.str.2020.09.011

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Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry

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