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Three-dimensional densitometry imaging of diatom cells using STIM tomography

Habchi, C; Nguyen, D. T.; Deves, G; Incerti, S; Lemelle, Laurence; Le Van Vang, P; Moretto, Ph; Ortega, R; Seznec, H; Sakellariou, Arthur; Sergeant, C; Simionovici , Alexandre; Ynsa, M.D.; Gontier , E; Heiss , M; Pouthier , T; Boudou , A; Rebillat, F

Description

Scanning transmission ion microscopy tomography (STIM-T) was carried out on diatom cells with the aim of displaying their 3D structure and performing density measurements on their silica skeleton. Two software packages were compared for data reduction: TomoRebuild, based on a simple filtered backprojection algorithm, and DISRA, an iterative program. Silicon carbide microfibres of known density were also analysed as reference specimens. Similar results were obtained with both algorithms,...[Show more]

dc.contributor.authorHabchi, C
dc.contributor.authorNguyen, D. T.
dc.contributor.authorDeves, G
dc.contributor.authorIncerti, S
dc.contributor.authorLemelle, Laurence
dc.contributor.authorLe Van Vang, P
dc.contributor.authorMoretto, Ph
dc.contributor.authorOrtega, R
dc.contributor.authorSeznec, H
dc.contributor.authorSakellariou, Arthur
dc.contributor.authorSergeant, C
dc.contributor.authorSimionovici , Alexandre
dc.contributor.authorYnsa, M.D.
dc.contributor.authorGontier , E
dc.contributor.authorHeiss , M
dc.contributor.authorPouthier , T
dc.contributor.authorBoudou , A
dc.contributor.authorRebillat, F
dc.date.accessioned2015-12-10T21:54:43Z
dc.identifier.issn0168-583X
dc.identifier.urihttp://hdl.handle.net/1885/39054
dc.description.abstractScanning transmission ion microscopy tomography (STIM-T) was carried out on diatom cells with the aim of displaying their 3D structure and performing density measurements on their silica skeleton. Two software packages were compared for data reduction: TomoRebuild, based on a simple filtered backprojection algorithm, and DISRA, an iterative program. Silicon carbide microfibres of known density were also analysed as reference specimens. Similar results were obtained with both algorithms, demonstrating the ability of STIM-T to provide density measurements at the cell level without requiring any standard calibration samples. This unique feature stresses the interest of STIM-T to accurately normalise X ray emission micro-tomography data from synchrotron radiation (SXRF: synchrotron radiation X-ray fluorescence) or ion beam sources (PIXE: particle induced X-ray emission). Possible enhancements of the DISRA code are discussed in order to facilitate its use for the reconstruction of future PIXE/STIM tomography data. A "nanoprobe" coupled to a Singletron® accelerator, allowing a spatial resolution of a few tens of nanometers, is going to be built in the coming months at the Centre d'Etudes Nucléaires de Bordeaux Gradignan (CENBG). This new facility will bring promising applications in imaging and analysis at the sub-cellular level.
dc.publisherElsevier
dc.sourceNuclear Instruments and Methods in Physics Research: Section B
dc.subjectKeywords: Cells; Computerized tomography; Data reduction; Densitometers; Synchrotron radiation; 3D imaging; Diatom cell; Micro-tomography; Nuclear microprobe; Scanning transmission ion microscopy; Image analysis 3D imaging; Computed tomography; Diatom cell; Micro-tomography; Non-destructive characterisation; Nuclear microprobe; Scanning transmission ion microscopy
dc.titleThree-dimensional densitometry imaging of diatom cells using STIM tomography
dc.typeJournal article
local.description.notesImported from ARIES
local.identifier.citationvolume249
dc.date.issued2006
local.identifier.absfor020406 - Surfaces and Structural Properties of Condensed Matter
local.identifier.ariespublicationu9210271xPUB170
local.type.statusPublished Version
local.contributor.affiliationHabchi, C, Centre d Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationNguyen, D. T., Centre d Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationDeves, G, Centre d Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationIncerti, S, Chimie Nucleaire Analytique et Bioenvironnementale
local.contributor.affiliationLemelle, Laurence, Ecole Normale Superieure de Lyon
local.contributor.affiliationLe Van Vang, P, Centre d'Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationMoretto, Ph, Centre d'Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationOrtega, R, Chimie Nucleaire Analytique et Bioenvironnementale
local.contributor.affiliationSeznec, H, Centre d'Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationSakellariou, Arthur, College of Physical and Mathematical Sciences, ANU
local.contributor.affiliationSergeant, C, Chimie Nucleaire Analytique et Bioenvironnementale
local.contributor.affiliationSimionovici , Alexandre, Ecole Normale Superieure de Lyon
local.contributor.affiliationYnsa, M.D., Centre d'Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationGontier , E, Centre d'Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationHeiss , M, Centre d'Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationPouthier , T, Centre d'Etudes Nucleaires de Bordeaux Gradignan
local.contributor.affiliationBoudou , A, Laboratoire d'Ecophysiologie et d'Ecotoxicologie des Systemes Aquatiques
local.contributor.affiliationRebillat, F, CNRS
local.description.embargo2037-12-31
local.bibliographicCitation.startpage653
local.bibliographicCitation.lastpage659
local.identifier.doi10.1016/j.nimb.2006.03.074
dc.date.updated2015-12-09T07:28:12Z
local.identifier.scopusID2-s2.0-33745943625
CollectionsANU Research Publications

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