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          Institute: MPI für medizinische Forschung     Collection: Jahrbuch 2012     Display Documents



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ID: 638096.0, MPI für medizinische Forschung / Jahrbuch 2012
3D Reconstruction and Standardization of the Rat Vibrissal Cortex for Precise Registration of Single Neuron Morphology
Translation of Title:3D Reconstruction and Standardization of the Rat Vibrissal Cortex for Precise Registration of Single Neuron Morphology
Authors:Egger, Robert; Narayanan, Rajeevan T.; Helmstaedter, Moritz; de Kock, Christiaan P. J.; Oberlaender, Marcel
Language:English
Date of Publication (YYYY-MM-DD):2012-12-01
Title of Journal:PLoS Computational Biology
Journal Abbrev.:PLos Computational Biology
Volume:8
Issue / Number:12
Start Page:1
End Page:18
Sequence Number of Article:e1002837
Review Status:Peer-review
Audience:Experts Only
Intended Educational Use:No
Abstract / Description:The three−dimensional (3D) structure of neural circuits is commonly studied by reconstructing individual or small groups of neurons in separate preparations. Investigation of structural organization principles or quantification of dendritic and axonal innervation thus requires integration of many reconstructed morphologies into a common reference frame. Here we present a standardized 3D model of the rat vibrissal cortex and introduce an automated registration tool that allows for precise placement of single neuron reconstructions. We (1) developed an automated image processing pipeline to reconstruct 3D anatomical landmarks, i.e., the barrels in Layer 4, the pia and white matter surfaces and the blood vessel pattern from high−resolution images, (2) quantified these landmarks in 12 different rats, (3) generated an average 3D model of the vibrissal cortex and (4) used rigid transformations and stepwise linear scaling to register 94 neuron morphologies, reconstructed from in vivo stainings, to the standardized cortex model. We find that anatomical landmarks vary substantially across the vibrissal cortex within an individual rat. In contrast, the 3D layout of the entire vibrissal cortex remains remarkably preserved across animals. This allows for precise registration of individual neuron reconstructions with approximately 30 µm accuracy. Our approach could be used to reconstruct and standardize other anatomically defined brain areas and may ultimately lead to a precise digital reference atlas of the rat brain
External Publication Status:published
Document Type:Article
Version Comment:Automatic journal name synchronization
Communicated by:Wulf Kaiser
Affiliations:MPI für medizinische Forschung/Abteilung Zellphysiologie
MPI für medizinische Forschung/Abteilung Biomedizinische Optik
MPI für medizinische Forschung/Abteilung Zellphysiologie/Kortikale Schaltkreise
MPI für medizinische Forschung/Abteilung Zellphysiologie/Quantitative Neurobiologie
MPI für medizinische Forschung/Abteilung Biomedizinische Optik/Gruppe Moritz Helmstaedter
Identifiers:LOCALID:7852
URI:http%3A%2F%2Fwww.ploscompbiol.org%2Farticle%2Ffetc...
URI:http%3A%2F%2Fwww.ploscompbiol.org%2Farticle%2Finfo...
URI:http%3A%2F%2Fwww.ncbi.nlm.nih.gov%2Fpubmed%2F23284...
DOI:10.1371%2Fjournal.pcbi.1002837
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