Bridging Indigenous and science-based knowledge in coastal and marine research, monitoring, and management in Canada

Background: Drawing upon multiple types of knowledge (e.g., Indigenous knowledge, local knowledge, science-based knowledge) strengthens the evidence-base for policy advice, decision making, and environmental management. While the benefits of incorporating multiple types of knowledge in environmental research and management are many, doing so has remained a challenge. This systematic map examined the extent, range, and nature of the published literature (i.e., commercially published and grey) that seeks to respectively bridge Indigenous and science-based knowledge in coastal and marine research and management in Canada. Methods: This systematic map applied standardized search terms across four databases focused on commercially published literature, carefully selected specialist websites, and two web-based search engines. In addition, reference sections of relevant review articles were cross-checked to identify articles that may not have been found using the search strategy. Search results were screened in two sequential stages; (1) at title and abstract; and (2) at full text following a published protocol. All case studies included were coded using a standard questionnaire. A narrative synthesis approach was used to identify trends in the evidence, knowledge gaps, and knowledge clusters. Results: A total of 62 articles that spanned 71 Canadian case studies were included in the systematic map. Studies across the coastal and marine regions of Inuit Nunangat accounted for the majority of the studies. Whether the focus is on management and decision making or research and monitoring, the predominant ecological scale was at the species level, accounting for over two-thirds of the included studies. There were 24 distinct coastal and marine species of central focus across the studies. Nunavut had the greatest taxonomic coverage as studies conducted to date cover 13 different genera. The predominant methodology employed for combining and/or including Indigenous knowledge was case study design, which accounted for over half of the studies. Other methodologies employed for combining and/or including different ways of knowing included: (i) community-based participatory research; (ii) mixed methods; (iii) ethnography; and (iv) simulation modelling. There are a suite of methods utilized for documenting and translating Indigenous knowledge and an equally diverse tool box of methods used in the collection of scientific data. Over half of the case studies involved Indigenous knowledge systems of the Inuit, while another significant proportion involved Indigenous knowledge systems of First Nations, reflecting 21 unique nations. We found that demographics of knowledge holders were generally not reported in the articles reviewed. Conclusions: The results of this systematic m

Partial orders and logical concept analysis to explore patterns extracted by data mining

International audienceData mining techniques are used in order to discover emerging knowledge (patterns) in databases. The problem of such techniques is that there are, in general, too many resulting patterns for a user to explore them all by hand. Some methods try to reduce the number of patterns without a priori pruning. The number of patterns remains, nevertheless, high. Other approaches, based on a total ranking, propose to show to the user the top-k patterns with respect to a measure. Those methods do not take into account the user's knowledge and the dependencies that exist between patterns. In this paper, we propose a new way for the user to explore extracted patterns. The method is based on navigation in a partial order over the set of all patterns in the Logical Concept Analysis framework. It accommodates several kinds of patterns and the dependencies between patterns are taken into account thanks to partial orders. It allows the user to use his/her background knowledge to navigate through the partial order, without a priori pruning. We illustrate how our method can be applied on two different tasks (software engineering and natural language processing) and two different kinds of patterns (association rules and sequential patterns)

Odorous childhoods and scent(ed) worlds of learning: A sensory history of health and outdoor education initiatives in Western Europe (1900s-1960s)

This paper develops a sensory history of health and outdoor education initiatives which featured (non-)formal schooling, analyzing these as belonging to (a) scent(ed) and more generally sense(d) world(s) of learning. Working with photographs as sensory objects of affect, and using as examples Belgian and Luxembourg open-air schools and associated sanitary and social welfare provisions, the paper explores issues so far under-researched in sensuous scholarship internationally: those of precise educational purposes, methods, processes and effects of sensory engagement, particularly pertaining to “smell”. Sensory practices and experiences and uses of senses generally are thereby traced in/as “situated, embodied” movements inextricably “enmeshed” with symbolism. The paper argues that while the educational goals underpinning the initiatives investigated and the approaches and practices characterizing these have changed, some (un)intended effects still have an impact today, for instance through Forest School as given shape in the United Kingdom. The concept of “odorous”, or rather “sensuous childhoods”, is proposed to denote ways that particular target groups have come to be imagined as in need of explicitly sensorial health and outdoor education

Genome-wide association study identifies two susceptibility loci for osteosarcoma

Osteosarcoma is the most common primary bone malignancy of adolescents and young adults. To better understand the genetic etiology of osteosarcoma, we performed a multistage genome-wide association study consisting of 941 individuals with osteosarcoma (cases) and 3,291 cancer-free adult controls of European ancestry. Two loci achieved genome-wide significance: a locus in the GRM4 gene at 6p21.3 (encoding glutamate receptor metabotropic 4; rs1906953; P = 8.1 × 10⁻⁹) and a locus in the gene desert at 2p25.2 (rs7591996 and rs10208273; P = 1.0 × 10⁻⁸ and 2.9 × 10⁻⁷, respectively). These two loci warrant further exploration to uncover the biological mechanisms underlying susceptibility to osteosarcoma

Partitioning the Heritability of Tourette Syndrome and Obsessive Compulsive Disorder Reveals Differences in Genetic Architecture

The direct estimation of heritability from genome-wide common variant data as implemented in the program Genome-wide Complex Trait Analysis (GCTA) has provided a means to quantify heritability attributable to all interrogated variants. We have quantified the variance in liability to disease explained

Multi-trait genome-wide association study identifies new loci associated with optic disc parameters

A new avenue of mining published genome-wide association studies includes the joint analysis of related traits. The power of this approach depends on the genetic correlation of traits, which reflects the number of pleiotropic loci, i.e. genetic loci influencing multiple traits. Here, we applied new meta-analyses of optic nerve head (ONH) related traits implicated in primary open-angle glaucoma (POAG); intraocular pressure and central corneal thickness using Haplotype reference consortium imputations. We performed a multi-trait analysis of ONH parameters cup area, disc area and vertical cup-disc ratio. We uncover new variants; rs11158547 in PPP1R36-PLEKHG3 and rs1028727 near SERPINE3 at genome-wide significance that replicate in independent Asian cohorts imputed to 1000 Genomes. At this point, validation of these variants in POAG cohorts is hampered by the high degree of heterogeneity. Our results show that multi-trait analysis is a valid approach to identify novel pleiotropic variants for ONH

Detectable clonal mosaicism and its relationship to aging and cancer

In an analysis of 31,717 cancer cases and 26,136 cancer-free controls from 13 genome-wide association studies, we observed large chromosomal abnormalities in a subset of clones in DNA obtained from blood or buccal samples. We observed mosaic abnormalities, either aneuploidy or copy-neutral loss of heterozygosity, of >2 Mb in size in autosomes of 517 individuals (0.89%), with abnormal cell proportions of between 7% and 95%. In cancer-free individuals, frequency increased with age, from 0.23% under 50 years to 1.91% between 75 and 79 years (P = 4.8 × 10(-8)). Mosaic abnormalities were more frequent in individuals with solid tumors (0.97% versus 0.74% in cancer-free individuals; odds ratio (OR) = 1.25; P = 0.016), with stronger association with cases who had DNA collected before diagnosis or treatment (OR = 1.45; P = 0.0005). Detectable mosaicism was also more common in individuals for whom DNA was collected at least 1 year before diagnosis with leukemia compared to cancer-free individuals (OR = 35.4; P = 3.8 × 10(-11)). These findings underscore the time-dependent nature of somatic events in the etiology of cancer and potentially other late-onset diseases