Show simple item record

dc.contributor.authorTills, Oen
dc.contributor.authorSpicer, JIen
dc.contributor.authorGrimmer, Aen
dc.contributor.authorMarini, Sen
dc.contributor.authorJie, VWen
dc.contributor.authorTully, Een
dc.contributor.authorRundle, SDen
dc.date.accessioned2019-01-22T18:41:02Z
dc.date.available2019-01-22T18:41:02Z
dc.date.issued2018-12en
dc.identifier.urihttp://hdl.handle.net/10026.1/13214
dc.description.abstract

Phenomics has the potential to facilitate significant advances in biology but requires the development of high-throughput technologies capable of generating and analysing high-dimensional data. There are significant challenges associated with building such technologies, not least those required for investigating dynamic processes such as embryonic development, during which high rates of temporal, spatial, and functional change are inherently difficult to capture. Here, we present EmbryoPhenomics, an accessible high-throughput platform for phenomics in aquatic embryos comprising an Open-source Video Microscope (OpenVIM) that produces high-resolution videos of multiple embryos under tightly controlled environmental conditions. These videos are then analysed by the Python package Embryo Computer Vision (EmbryoCV), which extracts phenomic data for morphological, physiological, behavioural, and proxy traits during the process of embryonic development. We demonstrate the broad-scale applicability of EmbryoPhenomics in a series of experiments assessing chronic, acute, and multistressor responses to environmental change (temperature and salinity) in >30 million images of >600 embryos of two species with markedly different patterns of development-the pond snail Radix balthica and the marine amphipod Orchestia gammarellus. The challenge of phenomics is significant but so too are the rewards, and it is particularly relevant to the urgent task of assessing complex organismal responses to current rates of environmental change. EmbryoPhenomics can acquire and process data capturing functional, temporal, and spatial responses in the earliest, most dynamic life stages and is potentially game changing for those interested in studying development and phenomics more widely.

en
dc.format.extente3000074 - ?en
dc.languageengen
dc.language.isoengen
dc.subjectAnimalsen
dc.subjectBiological Variation, Populationen
dc.subjectEmbryonic Developmenten
dc.subjectHigh-Throughput Screening Assaysen
dc.subjectHumansen
dc.subjectMicroscopy, Videoen
dc.subjectPhenotypeen
dc.titleA high-throughput and open-source platform for embryo phenomics.en
dc.typeJournal Article
plymouth.author-urlhttps://www.ncbi.nlm.nih.gov/pubmed/30543636en
plymouth.issue12en
plymouth.volume16en
plymouth.publication-statusPublished onlineen
plymouth.journalPLoS Biolen
dc.identifier.doi10.1371/journal.pbio.3000074en
plymouth.organisational-group/Plymouth
plymouth.organisational-group/Plymouth/Admin Group - REF
plymouth.organisational-group/Plymouth/Admin Group - REF/REF Admin Group - FoSE
plymouth.organisational-group/Plymouth/Faculty of Science and Engineering
plymouth.organisational-group/Plymouth/Faculty of Science and Engineering/School of Biological and Marine Sciences
plymouth.organisational-group/Plymouth/REF 2021 Researchers by UoA
plymouth.organisational-group/Plymouth/REF 2021 Researchers by UoA/UoA07 Earth Systems and Environmental Sciences
plymouth.organisational-group/Plymouth/Research Groups
plymouth.organisational-group/Plymouth/Research Groups/Marine Institute
plymouth.organisational-group/Plymouth/Users by role
plymouth.organisational-group/Plymouth/Users by role/Academics
dc.publisher.placeUnited Statesen
dc.identifier.eissn1545-7885en
dc.rights.embargoperiodNot knownen
rioxxterms.versionofrecord10.1371/journal.pbio.3000074en
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserveden
rioxxterms.typeJournal Article/Reviewen
plymouth.funderDevelopment of an automated analytical system for measurement of whole-organism environmental sensitivity of aquatic embryos::NERCen


Files in this item

Thumbnail
Thumbnail

This item appears in the following Collection(s)

Show simple item record


All items in PEARL are protected by copyright law.
Author manuscripts deposited to comply with open access mandates are made available in accordance with publisher policies. Please cite only the published version using the details provided on the item record or document. In the absence of an open licence (e.g. Creative Commons), permissions for further reuse of content should be sought from the publisher or author.
Theme by 
@mire NV