A flow-through imaging system for automated measurement of ichthyoplankton
Microscopic imaging and morphometric measurement of fish embryos and larvae is essential in environmental monitoring of fish populations and to evaluate larvae development in aquaculture. Traditional microscopy methods require time-consuming, repetitive work by human experts.We present a method for...
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ftdoajarticles:oai:doaj.org/article:2b02b33e416e44da863b62991e81c6f0 2023-05-15T15:27:32+02:00 A flow-through imaging system for automated measurement of ichthyoplankton David R. Williamson Trond Nordtug Frode Leirvik Bjarne Kvæstad Bjørn Henrik Hansen Martin Ludvigsen Emlyn John Davies 2022-01-01T00:00:00Z https://doi.org/10.1016/j.mex.2022.101773 https://doaj.org/article/2b02b33e416e44da863b62991e81c6f0 EN eng Elsevier http://www.sciencedirect.com/science/article/pii/S2215016122001534 https://doaj.org/toc/2215-0161 2215-0161 doi:10.1016/j.mex.2022.101773 https://doaj.org/article/2b02b33e416e44da863b62991e81c6f0 MethodsX, Vol 9, Iss , Pp 101773- (2022) Microscopy Flow cytometry Computer vision Machine learning Automated biometry Atlantic cod Science Q article 2022 ftdoajarticles https://doi.org/10.1016/j.mex.2022.101773 2022-12-30T19:36:25Z Microscopic imaging and morphometric measurement of fish embryos and larvae is essential in environmental monitoring of fish populations and to evaluate larvae development in aquaculture. Traditional microscopy methods require time-consuming, repetitive work by human experts.We present a method for fast imaging and analysis of millimetre-scale ichthyoplankton suspended in seawater. Our system can be easily built from common and off-the-shelf components and uses open-source software for image capture and analysis. Our system obtains images of similar quality to traditional microscopy, and biological measurements comparable to those by human experts, with minimal human interaction. This saves time and effort, while increasing the size of data sets obtained.We demonstrate our approach with cod eggs and larvae, and present results showing biologically relevant endpoints including egg diameter, larval standard length, yolk volume and eye diameter, with comparison to similar measurements reported in the literature.• High throughput, microscope-scale imaging of fish eggs and larvae• Automated measurement of biologically relevant endpoints• Easily built from off-the-shelf components and open-source software Article in Journal/Newspaper atlantic cod Directory of Open Access Journals: DOAJ Articles MethodsX 9 101773 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
Microscopy Flow cytometry Computer vision Machine learning Automated biometry Atlantic cod Science Q |
spellingShingle |
Microscopy Flow cytometry Computer vision Machine learning Automated biometry Atlantic cod Science Q David R. Williamson Trond Nordtug Frode Leirvik Bjarne Kvæstad Bjørn Henrik Hansen Martin Ludvigsen Emlyn John Davies A flow-through imaging system for automated measurement of ichthyoplankton |
topic_facet |
Microscopy Flow cytometry Computer vision Machine learning Automated biometry Atlantic cod Science Q |
description |
Microscopic imaging and morphometric measurement of fish embryos and larvae is essential in environmental monitoring of fish populations and to evaluate larvae development in aquaculture. Traditional microscopy methods require time-consuming, repetitive work by human experts.We present a method for fast imaging and analysis of millimetre-scale ichthyoplankton suspended in seawater. Our system can be easily built from common and off-the-shelf components and uses open-source software for image capture and analysis. Our system obtains images of similar quality to traditional microscopy, and biological measurements comparable to those by human experts, with minimal human interaction. This saves time and effort, while increasing the size of data sets obtained.We demonstrate our approach with cod eggs and larvae, and present results showing biologically relevant endpoints including egg diameter, larval standard length, yolk volume and eye diameter, with comparison to similar measurements reported in the literature.• High throughput, microscope-scale imaging of fish eggs and larvae• Automated measurement of biologically relevant endpoints• Easily built from off-the-shelf components and open-source software |
format |
Article in Journal/Newspaper |
author |
David R. Williamson Trond Nordtug Frode Leirvik Bjarne Kvæstad Bjørn Henrik Hansen Martin Ludvigsen Emlyn John Davies |
author_facet |
David R. Williamson Trond Nordtug Frode Leirvik Bjarne Kvæstad Bjørn Henrik Hansen Martin Ludvigsen Emlyn John Davies |
author_sort |
David R. Williamson |
title |
A flow-through imaging system for automated measurement of ichthyoplankton |
title_short |
A flow-through imaging system for automated measurement of ichthyoplankton |
title_full |
A flow-through imaging system for automated measurement of ichthyoplankton |
title_fullStr |
A flow-through imaging system for automated measurement of ichthyoplankton |
title_full_unstemmed |
A flow-through imaging system for automated measurement of ichthyoplankton |
title_sort |
flow-through imaging system for automated measurement of ichthyoplankton |
publisher |
Elsevier |
publishDate |
2022 |
url |
https://doi.org/10.1016/j.mex.2022.101773 https://doaj.org/article/2b02b33e416e44da863b62991e81c6f0 |
genre |
atlantic cod |
genre_facet |
atlantic cod |
op_source |
MethodsX, Vol 9, Iss , Pp 101773- (2022) |
op_relation |
http://www.sciencedirect.com/science/article/pii/S2215016122001534 https://doaj.org/toc/2215-0161 2215-0161 doi:10.1016/j.mex.2022.101773 https://doaj.org/article/2b02b33e416e44da863b62991e81c6f0 |
op_doi |
https://doi.org/10.1016/j.mex.2022.101773 |
container_title |
MethodsX |
container_volume |
9 |
container_start_page |
101773 |
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1766357963619958784 |