Digital correction of computed X-radiographs for coral densitometry
International audience The recent increase in sea surface temperature and ocean acidification raises major concerns about the evolution of the coral calcification rate. Digitized X-radiographs have been used for coral skeleton density measurements since the 1980s. The main limitation of coral densit...
Published in: | Journal of Experimental Marine Biology and Ecology |
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Main Authors: | , , |
Other Authors: | , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
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HAL CCSD
2012
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Online Access: | https://hal.sorbonne-universite.fr/hal-00794477 https://hal.sorbonne-universite.fr/hal-00794477/document https://hal.sorbonne-universite.fr/hal-00794477/file/Duprey_et_al_2012_JEMBE_author_edit.pdf https://doi.org/10.1016/j.jembe.2012.09.007 |
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Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) |
op_collection_id |
ftccsdartic |
language |
English |
topic |
Calcification rate Coral densitometry Coral skeleton Density Porites sp. Siderastrea siderea [SDU.STU.CL]Sciences of the Universe [physics]/Earth Sciences/Climatology [SDE.MCG]Environmental Sciences/Global Changes [PHYS.PHYS.PHYS-GEO-PH]Physics [physics]/Physics [physics]/Geophysics [physics.geo-ph] |
spellingShingle |
Calcification rate Coral densitometry Coral skeleton Density Porites sp. Siderastrea siderea [SDU.STU.CL]Sciences of the Universe [physics]/Earth Sciences/Climatology [SDE.MCG]Environmental Sciences/Global Changes [PHYS.PHYS.PHYS-GEO-PH]Physics [physics]/Physics [physics]/Geophysics [physics.geo-ph] Duprey, Nicolas Boucher, Hugues Jiménez, Carlos Digital correction of computed X-radiographs for coral densitometry |
topic_facet |
Calcification rate Coral densitometry Coral skeleton Density Porites sp. Siderastrea siderea [SDU.STU.CL]Sciences of the Universe [physics]/Earth Sciences/Climatology [SDE.MCG]Environmental Sciences/Global Changes [PHYS.PHYS.PHYS-GEO-PH]Physics [physics]/Physics [physics]/Geophysics [physics.geo-ph] |
description |
International audience The recent increase in sea surface temperature and ocean acidification raises major concerns about the evolution of the coral calcification rate. Digitized X-radiographs have been used for coral skeleton density measurements since the 1980s. The main limitation of coral densitometry from digitized X-radiographs is the X-ray intensity heterogeneity due to spherical spreading (inverse square law) and heel effect. Until now, extra X-ray images or aluminium standards have been used to correct X-radiographs. However, such corrective methods may be constraining when working with a high number of coral samples. Here, we present an inexpensive, straightforward, and accurate digital detrending (DD) method to correct the heterogeneities of the X-ray irradiation that affect X-radiographs. The X-radiograph is corrected against the irradiation imprint recorded by its own background using a kriging interpolation method, thus allowing reliable optical density measurements directly on the corrected X-ray image. This digital detrending (DD) method was validated using skeletal bulk density measurements and computerized tomography (CT). Coral densitometry using DD corrected X-radiographs does not require the destruction of the coral sample and provides high-resolution measurements. Since DD does not require extra aluminium standards to correct X-radiographs, this method optimizes the working space available on the X-ray image. Moreover, it corrects the entire X-radiograph, thus larger samples or numerous samples can be X-rayed at the same time. |
author2 |
Laboratoire d'Océanographie et du Climat : Expérimentations et Approches Numériques (LOCEAN) Institut de Recherche pour le Développement (IRD)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Muséum national d'Histoire naturelle (MNHN)-Institut Pierre-Simon-Laplace (IPSL (FR_636)) École normale supérieure - Paris (ENS Paris) Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Versailles Saint-Quentin-en-Yvelines (UVSQ)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut national des sciences de l'Univers (INSU - CNRS)-Université Paris Diderot - Paris 7 (UPD7)-École polytechnique (X)-Centre National d'Études Spatiales Toulouse (CNES)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS Paris) Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Versailles Saint-Quentin-en-Yvelines (UVSQ)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris Diderot - Paris 7 (UPD7)-École polytechnique (X)-Centre National d'Études Spatiales Toulouse (CNES)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS) Centro de Investigación en Ciencias del Mar y Limnología (CIMAR) Universidad Nacional de Costa Rica |
format |
Article in Journal/Newspaper |
author |
Duprey, Nicolas Boucher, Hugues Jiménez, Carlos |
author_facet |
Duprey, Nicolas Boucher, Hugues Jiménez, Carlos |
author_sort |
Duprey, Nicolas |
title |
Digital correction of computed X-radiographs for coral densitometry |
title_short |
Digital correction of computed X-radiographs for coral densitometry |
title_full |
Digital correction of computed X-radiographs for coral densitometry |
title_fullStr |
Digital correction of computed X-radiographs for coral densitometry |
title_full_unstemmed |
Digital correction of computed X-radiographs for coral densitometry |
title_sort |
digital correction of computed x-radiographs for coral densitometry |
publisher |
HAL CCSD |
publishDate |
2012 |
url |
https://hal.sorbonne-universite.fr/hal-00794477 https://hal.sorbonne-universite.fr/hal-00794477/document https://hal.sorbonne-universite.fr/hal-00794477/file/Duprey_et_al_2012_JEMBE_author_edit.pdf https://doi.org/10.1016/j.jembe.2012.09.007 |
genre |
Ocean acidification |
genre_facet |
Ocean acidification |
op_source |
ISSN: 0022-0981 Journal of Experimental Marine Biology and Ecology https://hal.sorbonne-universite.fr/hal-00794477 Journal of Experimental Marine Biology and Ecology, Elsevier, 2012, pp.84-92. ⟨10.1016/j.jembe.2012.09.007⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1016/j.jembe.2012.09.007 hal-00794477 https://hal.sorbonne-universite.fr/hal-00794477 https://hal.sorbonne-universite.fr/hal-00794477/document https://hal.sorbonne-universite.fr/hal-00794477/file/Duprey_et_al_2012_JEMBE_author_edit.pdf doi:10.1016/j.jembe.2012.09.007 |
op_rights |
info:eu-repo/semantics/OpenAccess |
op_doi |
https://doi.org/10.1016/j.jembe.2012.09.007 |
container_title |
Journal of Experimental Marine Biology and Ecology |
container_volume |
438 |
container_start_page |
84 |
op_container_end_page |
92 |
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1766158886467796992 |
spelling |
ftccsdartic:oai:HAL:hal-00794477v1 2023-05-15T17:51:40+02:00 Digital correction of computed X-radiographs for coral densitometry Duprey, Nicolas Boucher, Hugues Jiménez, Carlos Laboratoire d'Océanographie et du Climat : Expérimentations et Approches Numériques (LOCEAN) Institut de Recherche pour le Développement (IRD)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Muséum national d'Histoire naturelle (MNHN)-Institut Pierre-Simon-Laplace (IPSL (FR_636)) École normale supérieure - Paris (ENS Paris) Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Versailles Saint-Quentin-en-Yvelines (UVSQ)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut national des sciences de l'Univers (INSU - CNRS)-Université Paris Diderot - Paris 7 (UPD7)-École polytechnique (X)-Centre National d'Études Spatiales Toulouse (CNES)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS Paris) Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Versailles Saint-Quentin-en-Yvelines (UVSQ)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris Diderot - Paris 7 (UPD7)-École polytechnique (X)-Centre National d'Études Spatiales Toulouse (CNES)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS) Centro de Investigación en Ciencias del Mar y Limnología (CIMAR) Universidad Nacional de Costa Rica 2012-09-17 https://hal.sorbonne-universite.fr/hal-00794477 https://hal.sorbonne-universite.fr/hal-00794477/document https://hal.sorbonne-universite.fr/hal-00794477/file/Duprey_et_al_2012_JEMBE_author_edit.pdf https://doi.org/10.1016/j.jembe.2012.09.007 en eng HAL CCSD Elsevier info:eu-repo/semantics/altIdentifier/doi/10.1016/j.jembe.2012.09.007 hal-00794477 https://hal.sorbonne-universite.fr/hal-00794477 https://hal.sorbonne-universite.fr/hal-00794477/document https://hal.sorbonne-universite.fr/hal-00794477/file/Duprey_et_al_2012_JEMBE_author_edit.pdf doi:10.1016/j.jembe.2012.09.007 info:eu-repo/semantics/OpenAccess ISSN: 0022-0981 Journal of Experimental Marine Biology and Ecology https://hal.sorbonne-universite.fr/hal-00794477 Journal of Experimental Marine Biology and Ecology, Elsevier, 2012, pp.84-92. ⟨10.1016/j.jembe.2012.09.007⟩ Calcification rate Coral densitometry Coral skeleton Density Porites sp. Siderastrea siderea [SDU.STU.CL]Sciences of the Universe [physics]/Earth Sciences/Climatology [SDE.MCG]Environmental Sciences/Global Changes [PHYS.PHYS.PHYS-GEO-PH]Physics [physics]/Physics [physics]/Geophysics [physics.geo-ph] info:eu-repo/semantics/article Journal articles 2012 ftccsdartic https://doi.org/10.1016/j.jembe.2012.09.007 2021-11-21T03:52:15Z International audience The recent increase in sea surface temperature and ocean acidification raises major concerns about the evolution of the coral calcification rate. Digitized X-radiographs have been used for coral skeleton density measurements since the 1980s. The main limitation of coral densitometry from digitized X-radiographs is the X-ray intensity heterogeneity due to spherical spreading (inverse square law) and heel effect. Until now, extra X-ray images or aluminium standards have been used to correct X-radiographs. However, such corrective methods may be constraining when working with a high number of coral samples. Here, we present an inexpensive, straightforward, and accurate digital detrending (DD) method to correct the heterogeneities of the X-ray irradiation that affect X-radiographs. The X-radiograph is corrected against the irradiation imprint recorded by its own background using a kriging interpolation method, thus allowing reliable optical density measurements directly on the corrected X-ray image. This digital detrending (DD) method was validated using skeletal bulk density measurements and computerized tomography (CT). Coral densitometry using DD corrected X-radiographs does not require the destruction of the coral sample and provides high-resolution measurements. Since DD does not require extra aluminium standards to correct X-radiographs, this method optimizes the working space available on the X-ray image. Moreover, it corrects the entire X-radiograph, thus larger samples or numerous samples can be X-rayed at the same time. Article in Journal/Newspaper Ocean acidification Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) Journal of Experimental Marine Biology and Ecology 438 84 92 |