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Maia, Filipe
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Publications (10 of 61) Show all publications
Ho, P. J., Daurer, B. J., Hantke, M., Bielecki, J., Al Haddad, A., Bucher, M., . . . Bostedt, C. (2020). The role of transient resonances for ultra-fast imaging of single sucrose nanoclusters. Nature Communications, 11, Article ID 167.
Open this publication in new window or tab >>The role of transient resonances for ultra-fast imaging of single sucrose nanoclusters
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2020 (English)In: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 11, article id 167Article in journal (Refereed) Published
Abstract [en]

Intense x-ray free-electron laser (XFEL) pulses hold great promise for imaging function in nanoscale and biological systems with atomic resolution. So far, however, the spatial resolution obtained from single shot experiments lags averaging static experiments. Here we report on a combined computational and experimental study about ultrafast diffractive imaging of sucrose clusters which are benchmark organic samples. Our theoretical model matches the experimental data from the water window to the keV x-ray regime. The large-scale dynamic scattering calculations reveal that transient phenomena driven by non-linear x-ray interaction are decisive for ultrafast imaging applications. Our study illuminates the complex interplay of the imaging process with the rapidly changing transient electronic structures in XFEL experiments and shows how computational models allow optimization of the parameters for ultrafast imaging experiments. X-ray free electron lasers provide high photon flux to explore single particle diffraction imaging of biological samples. Here the authors present dynamic electronic structure calculations and benchmark them to single-particle XFEL diffraction data of sucrose clusters to predict optimal single-shot imaging conditions.

Place, publisher, year, edition, pages
NATURE PUBLISHING GROUP, 2020
National Category
Atom and Molecular Physics and Optics
Identifiers
urn:nbn:se:uu:diva-406723 (URN)10.1038/s41467-019-13905-9 (DOI)000510942100001 ()31919346 (PubMedID)
Funder
Swedish Research CouncilKnut and Alice Wallenberg FoundationEU, European Research CouncilSwedish Foundation for Strategic Research The Swedish Foundation for International Cooperation in Research and Higher Education (STINT)Wellcome trust, 204732/Z/16/Z
Available from: 2020-03-19 Created: 2020-03-19 Last updated: 2020-03-19Bibliographically approved
Bielecki, J., Hantke, M. F., Daurer, B. J., Reddy, H. K. N., Hasse, D., Larsson, D. S. D., . . . Maia, F. R. N. (2019). Electrospray sample injection for single-particle imaging with x-ray lasers. Science Advances, 5(5), Article ID eaav8801.
Open this publication in new window or tab >>Electrospray sample injection for single-particle imaging with x-ray lasers
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2019 (English)In: Science Advances, E-ISSN 2375-2548, Vol. 5, no 5, article id eaav8801Article in journal (Refereed) Published
National Category
Biophysics
Identifiers
urn:nbn:se:uu:diva-387970 (URN)10.1126/sciadv.aav8801 (DOI)000470125000080 ()31058226 (PubMedID)
Available from: 2019-05-03 Created: 2019-06-27 Last updated: 2019-06-27Bibliographically approved
Yefanov, O., Oberthuer, D., Bean, R., Wiedorn, M. O., Knoska, J., Pena, G., . . . Barty, A. (2019). Evaluation of serial crystallographic structure determination within megahertz pulse trains. STRUCTURAL DYNAMICS-US, 6(6), Article ID 064702.
Open this publication in new window or tab >>Evaluation of serial crystallographic structure determination within megahertz pulse trains
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2019 (English)In: STRUCTURAL DYNAMICS-US, ISSN 2329-7778, Vol. 6, no 6, article id 064702Article in journal (Refereed) Published
Abstract [en]

The new European X-ray Free-Electron Laser (European XFEL) is the first X-ray free-electron laser capable of delivering intense X-ray pulses with a megahertz interpulse spacing in a wavelength range suitable for atomic resolution structure determination. An outstanding but crucial question is whether the use of a pulse repetition rate nearly four orders of magnitude higher than previously possible results in unwanted structural changes due to either radiation damage or systematic effects on data quality. Here, separate structures from the first and subsequent pulses in the European XFEL pulse train were determined, showing that there is essentially no difference between structures determined from different pulses under currently available operating conditions at the European XFEL.

Place, publisher, year, edition, pages
AMER INST PHYSICS, 2019
National Category
Physical Chemistry Accelerator Physics and Instrumentation
Identifiers
urn:nbn:se:uu:diva-402856 (URN)10.1063/1.5124387 (DOI)000505574600006 ()31832488 (PubMedID)
Funder
EU, Horizon 2020, 637295EU, European Research Council, 609920EU, FP7, Seventh Framework ProgrammeSwedish Research CouncilSwedish Foundation for Strategic Research The Swedish Foundation for International Cooperation in Research and Higher Education (STINT)
Available from: 2020-01-22 Created: 2020-01-22 Last updated: 2020-01-22Bibliographically approved
Pietrini, A., Bielecki, J., Timneanu, N., Hantke, M. F., Andreasson, J., Loh, N. D., . . . Nettelblad, C. (2018). A statistical approach to detect protein complexes at X-ray free electron laser facilities. Communications Physics, 1, 92:1-11, Article ID 92.
Open this publication in new window or tab >>A statistical approach to detect protein complexes at X-ray free electron laser facilities
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2018 (English)In: Communications Physics, E-ISSN 2399-3650, Vol. 1, p. 92:1-11, article id 92Article in journal (Refereed) Published
National Category
Biophysics
Identifiers
urn:nbn:se:uu:diva-369876 (URN)10.1038/s42005-018-0092-6 (DOI)000452676300003 ()
Projects
eSSENCE
Available from: 2018-12-07 Created: 2018-12-17 Last updated: 2019-05-06Bibliographically approved
Lundholm, I. V., Sellberg, J. A., Ekeberg, T., Hantke, M. F., Okamoto, K., van der Schot, G., . . . Maia, F. R. N. (2018). Considerations for three-dimensional image reconstruction from experimental data in coherent diffractive imaging. IUCrJ, 5, 531-541
Open this publication in new window or tab >>Considerations for three-dimensional image reconstruction from experimental data in coherent diffractive imaging
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2018 (English)In: IUCrJ, ISSN 0972-6918, E-ISSN 2052-2525, Vol. 5, p. 531-541Article in journal (Refereed) Published
National Category
Biophysics
Identifiers
urn:nbn:se:uu:diva-360034 (URN)10.1107/S2052252518010047 (DOI)000444010100003 ()
Projects
eSSENCE
Available from: 2018-09-01 Created: 2018-09-09 Last updated: 2019-07-01Bibliographically approved
Gorkhover, T., Ulmer, A., Ferguson, K., Bucher, M., Maia, F. R. N., Bielecki, J., . . . Bostedt, C. (2018). Femtosecond X-ray Fourier holography imaging of free-flying nanoparticles [Letter to the editor]. Nature Photonics, 12, 150-153
Open this publication in new window or tab >>Femtosecond X-ray Fourier holography imaging of free-flying nanoparticles
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2018 (English)In: Nature Photonics, ISSN 1749-4885, E-ISSN 1749-4893, Vol. 12, p. 150-153Article in journal, Letter (Refereed) Published
National Category
Biophysics
Identifiers
urn:nbn:se:uu:diva-345590 (URN)10.1038/s41566-018-0110-y (DOI)000426153800014 ()
Projects
eSSENCE
Available from: 2018-02-26 Created: 2018-03-09 Last updated: 2019-07-01Bibliographically approved
Reddy, H. K. N., Yoon, C. H., Aquila, A., Awel, S., Ayyer, K., Barty, A., . . . Xavier Paulraj, L. (2017). Coherent soft X-ray diffraction imaging of Coliphage PR772 at the Linac coherent light source. Scientific Data, 4, Article ID 170079.
Open this publication in new window or tab >>Coherent soft X-ray diffraction imaging of Coliphage PR772 at the Linac coherent light source
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2017 (English)In: Scientific Data, E-ISSN 2052-4463, Vol. 4, article id 170079Article in journal (Refereed) Published
National Category
Biophysics
Identifiers
urn:nbn:se:uu:diva-328536 (URN)10.1038/sdata.2017.79 (DOI)000404232100001 ()28654088 (PubMedID)
Projects
eSSENCE
Available from: 2017-06-27 Created: 2017-08-25 Last updated: 2019-08-25Bibliographically approved
Kurta, R. P., Donatelli, J. J., Yoon, C. H., Berntsen, P., Bielecki, J., Daurer, B. J., . . . Mancuso, A. P. (2017). Correlations in scattered X-ray laser pulses reveal nanoscale structural features of viruses. Physical Review Letters, 119(15), 158102:1-7, Article ID 158102.
Open this publication in new window or tab >>Correlations in scattered X-ray laser pulses reveal nanoscale structural features of viruses
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2017 (English)In: Physical Review Letters, ISSN 0031-9007, E-ISSN 1079-7114, Vol. 119, no 15, p. 158102:1-7, article id 158102Article in journal (Refereed) Published
National Category
Biophysics
Identifiers
urn:nbn:se:uu:diva-331406 (URN)10.1103/PhysRevLett.119.158102 (DOI)000412840600011 ()
Projects
eSSENCE
Available from: 2017-10-12 Created: 2017-10-13 Last updated: 2019-07-01Bibliographically approved
Sala, S., Daurer, B. J., Hantke, M. F., Ekeberg, T., Loh, N. D., Maia, F. R. N. & Thibault, P. (2017). Ptychographic imaging for the characterization of X-ray free-electron laser beams. In: Rau, C (Ed.), X-RAY MICROSCOPY CONFERENCE 2016 (XRM 2016): . Paper presented at 13th International X-Ray Microscopy Conference (XRM), AUG 15-19, 2016, Diamond Light Source, Oxford, ENGLAND. , Article ID 012032.
Open this publication in new window or tab >>Ptychographic imaging for the characterization of X-ray free-electron laser beams
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2017 (English)In: X-RAY MICROSCOPY CONFERENCE 2016 (XRM 2016) / [ed] Rau, C, 2017, article id 012032Conference paper, Published paper (Refereed)
Abstract [en]

We present some preliminary results from a study aimed at the characterization of the wavefront of X-ray free electron laser (XFEL) beams in the same operation conditions as for single particle imaging (or flash X-ray imaging) experiments. The varying illumination produced by wavefront fluctuations between several pulses leads to a partially coherent average beam which can be decomposed into several coherent modes using ptychographic reconstruction algorithms. Such a decomposition can give insight into pulse-to-pulse variations of the wavefront. We discuss data collected at the Linac Coherent Light Source (LCLS) and FERMI.

Series
Journal of Physics Conference Series, ISSN 1742-6588 ; 849
National Category
Medical Image Processing
Identifiers
urn:nbn:se:uu:diva-346768 (URN)10.1088/1742-6596/849/1/012032 (DOI)000412800900032 ()
Conference
13th International X-Ray Microscopy Conference (XRM), AUG 15-19, 2016, Diamond Light Source, Oxford, ENGLAND
Available from: 2018-03-26 Created: 2018-03-26 Last updated: 2018-03-26Bibliographically approved
Okamoto, K., Miyazaki, N., Song, C., Maia, F., Reddy, H. K. .., Abergel, C., . . . Murata, K. (2017). Structural variability and complexity of the giant Pithovirus sibericum particle revealed by high-voltage electron cryo-tomography and energy-filtered electron cryo-microscopy. Scientific Reports, 7, Article ID 13291.
Open this publication in new window or tab >>Structural variability and complexity of the giant Pithovirus sibericum particle revealed by high-voltage electron cryo-tomography and energy-filtered electron cryo-microscopy
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2017 (English)In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 7, article id 13291Article in journal (Refereed) Published
Abstract [en]

The Pithoviridae giant virus family exhibits the largest viral particle known so far, a prolate spheroid up to 2.5 mu m in length and 0.9 mu m in diameter. These particles show significant variations in size. Little is known about the structure of the intact virion due to technical limitations with conventional electron cryo-microscopy (cryo-EM) when imaging thick specimens. Here we present the intact structure of the giant Pithovirus sibericum particle at near native conditions using high-voltage electron cryo-tomography (cryo-ET) and energy-filtered cryo-EM. We detected a previously undescribed low-density outer layer covering the tegument and a periodical structuring of the fibres in the striated apical cork. Energy-filtered Zernike phase-contrast cryo-EM images show distinct substructures inside the particles, implicating an internal compartmentalisation. The density of the interior volume of Pithovirus particles is three quarters lower than that of the Mimivirus. However, it is remarkably high given that the 600 kbp Pithovirus genome is only half the size of the Mimivirus genome and is packaged in a volume up to 100 times larger. These observations suggest that the interior is densely packed with macromolecules in addition to the genomic nucleic acid.

Place, publisher, year, edition, pages
NATURE PUBLISHING GROUP, 2017
National Category
Biophysics
Identifiers
urn:nbn:se:uu:diva-340134 (URN)10.1038/s41598-017-13390-4 (DOI)000413048000102 ()29038566 (PubMedID)
Funder
Swedish Research Council, 62820081109Swedish Research Council, 822-2010-6157Swedish Research Council, 822-2012-5260Swedish Research Council, 828-2012-108Knut and Alice Wallenberg Foundation, KAW-2011.081EU, European Research Council, ERC-291602
Available from: 2018-01-29 Created: 2018-01-29 Last updated: 2018-01-29Bibliographically approved
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