Dataset Information

A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses.

ABSTRACT: Video and image data are regularly used in the field of benthic ecology to document biodiversity. However, their use is subject to a number of challenges, principally the identification of taxa within the images without associated physical specimens. The challenge of applying traditional taxonomic keys to the identification of fauna from images has led to the development of personal, group, or institution level reference image catalogues of operational taxonomic units (OTUs) or morphospecies. Lack of standardisation among these reference catalogues has led to problems with observer bias and the inability to combine datasets across studies. In addition, lack of a common reference standard is stifling efforts in the application of artificial intelligence to taxon identification. Using the North Atlantic deep sea as a case study, we propose a database structure to facilitate standardisation of morphospecies image catalogues between research groups and support future use in multiple front-end applications. We also propose a framework for coordination of international efforts to develop reference guides for the identification of marine species from images. The proposed structure maps to the Darwin Core standard to allow integration with existing databases. We suggest a management framework where high-level taxonomic groups are curated by a regional team, consisting of both end users and taxonomic experts. We identify a mechanism by which overall quality of data within a common reference guide could be raised over the next decade. Finally, we discuss the role of a common reference standard in advancing marine ecology and supporting sustainable use of this ecosystem.

SUBMITTER: Howell KL

PROVIDER: S-EPMC6938304 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature

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A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses.

Howell Kerry L KL Davies Jaime S JS Allcock A Louise AL Braga-Henriques Andreia A Buhl-Mortensen Pål P Carreiro-Silva Marina M Dominguez-Carrió Carlos C Durden Jennifer M JM Foster Nicola L NL Game Chloe A CA Hitchin Becky B Horton Tammy T Hosking Brett B Jones Daniel O B DOB Mah Christopher C Laguionie Marchais Claire C Menot Lenaick L Morato Telmo T Pearman Tabitha R R TRR Piechaud Nils N Ross Rebecca E RE Ruhl Henry A HA Saeedi Hanieh H Stefanoudis Paris V PV Taranto Gerald H GH Thompson Michael B MB Taylor James R JR Tyler Paul P Vad Johanne J Victorero Lissette L Vieira Rui P RP Woodall Lucy C LC Xavier Joana R JR Wagner Daniel D

PloS one 20191231 12

Video and image data are regularly used in the field of benthic ecology to document biodiversity. However, their use is subject to a number of challenges, principally the identification of taxa within the images without associated physical specimens. The challenge of applying traditional taxonomic keys to the identification of fauna from images has led to the development of personal, group, or institution level reference image catalogues of operational taxonomic units (OTUs) or morphospecies. La ...[more]

PMID: 31891586

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Project description:Lumbar instability has long been thought of as the failure of lumbar vertebrae to maintain their normal patterns of displacement. However, it is unknown what these patterns consist of. Research using quantitative fluoroscopy (QF) has shown that continuous lumbar intervertebral patterns of rotational displacement can be reliably measured during standing flexion and return motion using standardised protocols and can be used to assess patients with suspected lumbar spine motion disorders. However, normative values are needed to make individualised comparisons. One hundred and thirty-one healthy asymptomatic participants were recruited and performed guided flexion and return motion by following the rotating arm of an upright motion frame. Fluoroscopic image acquisition at 15fps was performed and individual intervertebral levels from L2-3 to L5-S1 were tracked and analysed during separate outward flexion and return phases. Results were presented as proportional intervertebral motion representing these phases using continuous means and 95%CIs, followed by verification of the differences between levels using Statistical Parametric Mapping (SPM). A secondary analysis of 8 control participants matched to 8 patients with chronic, non-specific low back pain (CNSLBP) was performed for comparison. One hundred and twenty-seven asymptomatic participants' data were analysed. Their ages ranged from 18 to 70 years (mean 38.6) with mean body mass index 23.8 kg/m2 48.8% were female. Both the flexion and return phases for each level evidenced continuous change in mean proportional motion share, with narrow confidence intervals, highly significant differences and discrete motion paths between levels as confirmed by SPM. Patients in the secondary analysis evidenced significantly less L5-S1 motion than controls (p < 0.05). A reference database of spinal displacement patterns during lumbar (L2-S1) intersegmental flexion and return motion using a standardised motion protocol using fluoroscopy is presented. Spinal displacement patterns in asymptomatic individuals were found to be distinctive and consistent for each intervertebral level, and to continuously change during bending and return. This database may be used to allow continuous intervertebral kinematics to drive dynamic models of joint and muscular forces as well as reference values against which to make patient-specific comparisons in suspected cases of lumbar spine motion disorders.

Dataset Information

A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses.

Publications

A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses.

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