3D membrane segmentation and quantification of intact thick cells using cryo soft X-ray transmission microscopy : A pilot study
Cárdenes, Rubén (Universitat Pompeu Fabra)
Zhang, Chong (Universitat Pompeu Fabra)
Klementieva, Oxana (Lund University, Sweden)
Werner, Stephan (Institute Soft Matters and Functional Materials, Berlin, Germany)
Guttmann, Peter (Institute Soft Matters and Functional Materials, Berlin, Germany)
Pratsch, Christoph (Institute Soft Matters and Functional Materials, Berlin, Germany)
Cladera i Cerdà, Josep (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular)
Bijnens, Bart H. (Universitat Pompeu Fabra)

Data:	2017
Resum:	Structural analysis of biological membranes is important for understanding cell and sub-cellular organelle function as well as their interaction with the surrounding environment. Imaging of whole cells in three dimension at high spatial resolution remains a significant challenge, particularly for thick cells. Cryo-transmission soft X-ray microscopy (cryo-TXM) has recently gained popularity to image, in 3D, intact thick cells (∼10 μm) with details of sub-cellular architecture and organization in near-native state. This paper reports a new tool to segment and quantify structural changes of biological membranes in 3D from cryo-TXM images by tracking an initial 2D contour along the third axis of the microscope, through a multi-scale ridge detection followed by an active contours-based model, with a subsequent refinement along the other two axes. A quantitative metric that assesses the grayscale profiles perpendicular to the membrane surfaces is introduced and shown to be linearly related to the membrane thickness. Our methodology has been validated on synthetic phantoms using realistic microscope properties and structure dimensions, as well as on real cryo-TXM data. Results demonstrate the validity of our algorithms for cryo-TXM data analysis.
Ajuts:	Ministerio de Economía y Competitividad MDM-2015-0502 Ministerio de Economía y Competitividad TIN2014-52923-R Instituto de Salud Carlos III PI11/01709 Agència de Gestió d'Ajuts Universitaris i de Recerca BE-DGR2012BE100308 European Commission 278486 European Commission 283570
Drets:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Llengua:	Anglès
Document:	Article ; recerca ; Versió publicada
Publicat a:	PloS one, Vol. 12 (april 2017) , ISSN 1932-6203

DOI: 10.1371/journal.pone.0174324
PMID: 28376110

22 p, 12.4 MB

El registre apareix a les col·leccions:
Articles > Articles de recerca
Articles > Articles publicats