(VIDEO) Characterizing the Exposome: Critical Analysis of Exposome-Wide Association Studies

Purpose: The exposome is a conceptual framework of all exposures encountered by an individual in his or her lifetime. Studying the exposome is thereby a monumental feat that may require extensive research, conceptualization, and proof-of-concept analyses. Researchers have begun studying the exposome by developing exposome- and environment-wide association studies (EWAS). Since EWAS is such a novel technique, this critical analysis of existing EWAS in the literature sought to determine whether the studies utilized common research methods, how the data were analyzed, and whether the analyses were similar. The analysis also sought to explore ways in which these studies could inform study of the exposome. Methods: The ProQuest Environmental Science Collection was queried for articles conducting exposome-wide association studies and environment-wide association studies. Only research articles were accepted for further analysis. These articles were examined following epidemiological study critical analysis guidelines. Results: Five research articles were returned through literature review. Methods analysis determined that the studies conducted similar regression analyses of extensive exposure variables with a single health outcome as the dependent variable. One study utilized an animal model and primarily studied metabolites, thereby supporting the concept that metabolomics may play a supporting role in study of the exposome. All studies utilized validation procedures and examined results using a false discovery rate. Conclusions: The EWAS articles examined in this critical analysis conducted extensive validation procedures to successfully demonstrate the statistical significance of large-scale linear and logistic regression. These procedures will likely make EWAS a valuable resource in future exposome studies

Biological Earth observation with animal sensors

Space-based tracking technology using low-cost miniature tags is now delivering data on fine-scale animal movement at near-global scale. Linked with remotely sensed environmental data, this offers a biological lens on habitat integrity and connectivity for conservation and human health; a global network of animal sentinels of environmen-tal change

Public COAPI Toolkit of Open Access Policy Resources

The Coalition of Open Access Policy Institutions (COAPI, https://sparcopen.org/coapi ) is committed to sharing information and resources to assist in the development and implementation of institutional Open Access (OA) policies. The COAPI Toolkit includes a diverse collection of resources that COAPI members have developed in the course of their OA policy initiatives. These resources are openly accessible and published here under Creative Commons Attribution 4.0 licenses, unless otherwise noted on the resources themselves

Retrotransposons Are the Major Contributors to the Expansion of the Drosophila ananassae Muller F Element

The discordance between genome size and the complexity of eukaryotes can partly be attributed to differences in repeat density. The Muller F element (∼5.2 Mb) is the smallest chromosome in Drosophila melanogaster, but it is substantially larger (>18.7 Mb) in D. ananassae. To identify the major contributors to the expansion of the F element and to assess their impact, we improved the genome sequence and annotated the genes in a 1.4-Mb region of the D. ananassae F element, and a 1.7-Mb region from the D element for comparison. We find that transposons (particularly LTR and LINE retrotransposons) are major contributors to this expansion (78.6%), while Wolbachia sequences integrated into the D. ananassae genome are minor contributors (0.02%). Both D. melanogaster and D. ananassae F-element genes exhibit distinct characteristics compared to D-element genes (e.g., larger coding spans, larger introns, more coding exons, and lower codon bias), but these differences are exaggerated in D. ananassae. Compared to D. melanogaster, the codon bias observed in D. ananassae F-element genes can primarily be attributed to mutational biases instead of selection. The 5′ ends of F-element genes in both species are enriched in dimethylation of lysine 4 on histone 3 (H3K4me2), while the coding spans are enriched in H3K9me2. Despite differences in repeat density and gene characteristics, D. ananassae F-element genes show a similar range of expression levels compared to genes in euchromatic domains. This study improves our understanding of how transposons can affect genome size and how genes can function within highly repetitive domains