Interactive 3D volume rendering in biomedical publications

Micron

Volumn 41, Issue 7, 2010, Pages 886.e1-886.e17

  Ruthensteiner, Bernhard ^a   Baeumler, Natalie ^a   Barnes, David G ^b  

^a ZOOLOGISCHE STAATSSAMMLUNG MÜNCHEN   (Germany)

^b SWINBURNE UNIVERSITY OF TECHNOLOGY   (Australia)

Author keywords

Confocal laser scanning microscopy; Electronic PDF publication; MicroCT; Morphology; Serial sections

Indexed keywords

COMPUTERIZED TOMOGRAPHY; CONFOCAL MICROSCOPY; MORPHOLOGY; PUBLISHING; SPECIMEN PREPARATION;

3-D PRESENTATIONS; 3D VOLUME RENDERINGS; CONFOCAL LASER SCANNING MICROSCOPY; ELECTRONIC PDF PUBLICATION; MICRO CT; MICROCOMPUTED TOMOGRAPHY; SERIAL SECTION; VISUALIZATION SOFTWARE;

VOLUME RENDERING;

MOLLUSCA;

EID: 77955924412     PISSN: 09684328     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.micron.2010.03.010     Document Type: Article

References (37)

1. Altenburger A., Wanninger A. Comparative larval myogenesis and adult myoanatomy of the rhynchonelliform (articulate) brachiopods Argyrotheca cordata, A. cistellula, and Terebratalia transversa. Front. Zool. 2009, 6. 10.1186/1742-9994-1746-3.
2. Baeumler N., Haszprunar G., Ruthensteiner B. 3D interactive microanatomy of Omalogyra atomus (Philippi, 1841) (Gastropoda, Heterobranchia, Omalogyridae). Zoosymposia 2008, 1:101-118.
3. Barnes D.G., Fluke C.J., Bourke P.D., Parry O.T. An advanced, three-dimensional plotting library for astronomy. Publications of the Astronomical Society of Australia 2006, 23:82-93.
4. Barnes D.G., Fluke C.J. Incorporating interactive 3-dimensional graphics in astronomy research papers. New Astron. 2008, 13:599-605.
5. Calhoun P.S., Kuszyk B.S., Heath D.G., Carley J.C., Fishman E.K. Three-dimensional volume rendering of spiral CT data: theory and method. Radiographics 1999, 19:745-764.
6. Claxton N.S., Fellers T.J., Davidson M.W. Laser Scanning Confocal Microscopy 2008, 37 pp, http://www.olympusconfocal.com/theory/LSCMIntro.pdf.
7. Dreben R., Carpenter L., Hanrahan P. Volume rendering. Comp. Graph. 1988, 22:65-74.
8. Evans C.C.E., Dickinson A.J.G., Croll R.P. Major muscle systems in the larval caenogastropod. Ilyanassa obsoleta, display different patterns of development. J. Morph. 2009, 270:1219-1231.
9. Fernandez C.Z., Vendrasco M.J., Runnegar B. Aesthete canal morphology in twelve species of chiton (Polyplacophora). Veliger 2007, 49:51-69.
10. Fishman E.K., Ney D.R., Heath D.G., Corl F.M., Horton K.M., Johnson P.T. Volume rendering versus maximum intensity projection in CT angiography: what works best. when, and why. Radiographics 2006, 26:905-922.
11. Fuchs H., Kedem Z.M., Uselton S.P. Optimal surface reconstruction for planar contours. Commun. ACM 1977, 20:693-702.
12. Gruhl A. Serotonergic and FMRFamidergic nervous systems in gymnolaemate bryozoan larvae. Zoomorphology 2009, 128:135-156.
13. Golding R.E., Ponder W.F., Byrne M. Three-dimensional reconstruction of the odontophoral cartilages of Caenogastropoda (Mollusca: Gastropoda) using micro-CT: morphology and phylogenetic significance. J. Morph. 2009, 270:558-587.
14. Heuer C.M., Loesel R. Three-dimensional reconstruction of mushroom body neuropils in the polychaete species Nereis diversicolor and Harmothoe areolata (Phyllodocida, Annelida). Zoomorphology 2009, 128:219-226.
15. Kaufman A., Mueller K. Overview of volume rendering. The Visualization Handbook 2005, 127-174. Academic Press, London. C. Hansen, C.R. Johnson (Eds.).
16. Kumar P., Ziegler A., Ziegler J., Uchanska-Ziegler B., Ziegler A. Grasping molecular structures through publication-integrated 3D models. Trends Biochem. Sci. 2008, 33:408-412.
17. Kuszyk B.S., Heath D.G., Bliss D.F., Fishman E.K. Skeletal 3-D CT: advantages of volume rendering over surface rendering. Skeletal Radiol. 1996, 25:207-214.
18. Maslakova S.A., von Döhren J. Larval development with transitory epidermis in Paranemertes peregrina and other hoplonemerteans. Biol. Bull. 2009, 216:273-292.
19. McNally J.G., Karpova T., Cooper J., Conchello J.A. Three-dimensional imaging by deconvolution microscopy. Methods 1999, 19:373-385.
20. Metscher B.D. MicroCT for comparative morphology: simple staining methods allow high-contrast 3D imaging of diverse non-mineralized animal tissues. BMC Physiol. 2009, 9:11. 10.1186/1472-6793-9-11.
21. Neues F., Epple M. X-ray micro computer tomography for the study of biomineralized endo- and exoskeletons of animals. Chem. Rev. 2008, 108:4734-4741.
22. Paddock, S.W., 1999. An introduction to confocal imaging. In: Paddock, S.W. (Ed.), Confocal Microscopy Methods and Protocols, vol. 122 in the series Methods in Molecular Biology. In: Walker, J.M. (series Ed.). Humana Press, Totowa, NJ, pp. 1-34.
23. Pietsch T.W., Johnson J.W., Arnold R.J. A New genus and species of the shallow-water anglerfish family Tetrabrachiidae (Teleostei: Lophiiformes: Antennarioidei) from Australia and Indonesia. Copeia 2009, 3:483-493.
24. Ribi W., Senden T.J., Sakellariou A., Limaye A., Zhang S. Imaging honey bee brain anatomy with micro-X-ray-computed tomography. J. Neurosci. Methods 2008, 171:93-97.
25. Ritman E.L. Micro-computed tomography-current status and developments. Annu. Rev. Biomed. Eng. 2004, 6:185-208.
26. Rodt T., Bartling S.O., Zajaczek J.E., Vafa M.A., Kapapa T., Majdani O., Krauss J.K., Zumkeller M., Matthies H., Becker H., Kaminsky J. Evaluation of surface and volume rendering in 3D-CT of facial fractures. Dentomaxillofac. Radiol. 2006, 35:227-231.
27. Ruffins S.W., Martin M., Keough L., Truong S., Fraser S.E., Jacobs R.E., Lansford R. Digital three-dimensional atlas of quail development using high-resolution MRI. TSW Dev. Embryol. 2007, 2:47-59.
28. Ruthensteiner B., Heß M. Embedding 3D models of biological specimens in PDF publications. Microsc. Res. Tech. 2008, 71:778-786.
29. Ruthensteiner B. Soft part 3D visualization by serial sectioning and computer reconstruction. Zoosymposia 2008, 1:63-100.
30. Schwaha T., Gith R., Walzl M.G. The nutritive region in the ovaries of astigmatic mites (Acari: Acaridida). Soil Org. 2008, 80:249-259.
31. Storck S.R. MicroComputed Tomography: Methodology and Applications 2009, CRC Press, Taylor & Francis Group, Boca Raton, FL.
32. Truong V.K., Rundell S., Lapovok R., Estrin Y., Wang J.Y., Berndt C.C., Barnes D.G., Fluke C.J., Crawford R.J., Ivanova E.P. Effect of ultrafine-grained titanium surfaces on adhesion of bacteria. Appl. Microbial Cell Phys. 2009, 83:925-937.
33. Tyzack J.K. Editorial-dragging (and zooming and rotating) publication of 3D molecular structures into the 21st century. Trends Biochem. Sci. 2008, 33:405-407.
34. Udupa J.K., Hung H.M., Chuang K.S. Surface and volume rendering in three-dimensional imaging: a comparison. J. Digit. Imaging 1991, 4:159-168.
35. Webb A.G. X-ray imaging and computed tomography. Introduction to Biomedical Imaging 2003, Wiley-IEEE Press, Hoboken, NJ, pp. 1-56.
36. Wirkner C.S., Richter S. Morphology of the haemolymph vascular system in Tanaidacea and Cumacea:-implications for the relationships of " core group" Peracarida (Malacostraca; Crustacea). Arthropod Struct. Dev. 2008, 37:141-154.
37. Wollesen T., Wanninger A., Klussmann-Kolb A. Neurogenesis of cephalic sensory organs of Aplysia californica. Cell Tissue Res. 2007, 330:361-379.