Dataset Information

Navigating the Murine Brain: Toward Best Practices for Determining and Documenting Neuroanatomical Locations in Experimental Studies.

ABSTRACT: In experimental neuroscientific research, anatomical location is a key attribute of experimental observations and critical for interpretation of results, replication of findings, and comparison of data across studies. With steadily rising numbers of publications reporting basic experimental results, there is an increasing need for integration and synthesis of data. Since comparison of data relies on consistently defined anatomical locations, it is a major concern that practices and precision in the reporting of location of observations from different types of experimental studies seem to vary considerably. To elucidate and possibly meet this challenge, we have evaluated and compared current practices for interpreting and documenting the anatomical location of measurements acquired from murine brains with different experimental methods. Our observations show substantial differences in approach, interpretation and reproducibility of anatomical locations among reports of different categories of experimental research, and strongly indicate that ambiguous reports of anatomical location can be attributed to missing descriptions. Based on these findings, we suggest a set of minimum requirements for documentation of anatomical location in experimental murine brain research. We furthermore demonstrate how these requirements have been applied in the EU Human Brain Project to optimize workflows for integration of heterogeneous data in common reference atlases. We propose broad adoption of some straightforward steps for improving the precision of location metadata and thereby facilitating interpretation, reuse and integration of data.

SUBMITTER: Bjerke IE

PROVIDER: S-EPMC6224483 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature

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Navigating the Murine Brain: Toward Best Practices for Determining and Documenting Neuroanatomical Locations in Experimental Studies.

Bjerke Ingvild E IE Øvsthus Martin M Andersson Krister A KA Blixhavn Camilla H CH Kleven Heidi H Yates Sharon C SC Puchades Maja A MA Bjaalie Jan G JG Leergaard Trygve B TB

Frontiers in neuroanatomy 20181102

In experimental neuroscientific research, anatomical location is a key attribute of experimental observations and critical for interpretation of results, replication of findings, and comparison of data across studies. With steadily rising numbers of publications reporting basic experimental results, there is an increasing need for integration and synthesis of data. Since comparison of data relies on consistently defined anatomical locations, it is a major concern that practices and precision in ...[more]

PMID: 30450039

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Project description:BackgroundBacteriuria, either asymptomatic (ASB) or symptomatic, urinary tract infection (UTI), is common in persons with spinal cord injury (SCI). Current Veterans Health Administration (VHA) guidelines recommend a screening urinalysis and urine culture for every veteran with SCI during annual evaluation, even when asymptomatic, which is contrary to other national guidelines. Our preliminary data suggest that a positive urine culture (even without signs or symptoms of infection) drives antibiotic use.ObjectiveThrough a series of innovative studies utilizing mixed methods, administrative databases, and focus groups, we will gain further knowledge about the attitudes driving current urine testing practices during the annual exam, as well as quantitative data on the clinical outcomes of these practices.MethodsAim 1 will identify patient, provider, and facility factors driving bacteriuria testing and subsequent antibiotic use after the SCI annual evaluation through qualitative interviews and quantitative surveys. Aim 2 will use national VHA databases to identify the predictors of urine testing and subsequent antibiotic use during the annual examination and compare the clinical outcomes of those who received antibiotics with those who did not. Aim 3 will use the information gathered from the previous 2 aims to develop the Test Smart, Treat Smart intervention, a combination of patient and provider education and resources that will help stakeholders have informed conversations about urine testing and antibiotic use; feasibility will be tested at a single site.ResultsThis protocol received institutional review board and VHA Research and Development approval in July 2017, and Veterans Affairs Health Services Research and Development funding started on November 2017. As of submission of this manuscript, 10/15 (67%) of the target goal of provider interviews were complete, and 77/100 (77%) of the goal of surveys. With regard to patients, 5/15 (33%) of the target goal of interviews were complete, and 20/100 (20%) of the target goal of surveys had been completed. Preliminary analyses are ongoing; the study team plans to present these results in April 2019. Database analyses for aim 2 will begin in January 2019.ConclusionsThe negative consequences of antibiotic overuse and antibiotic resistance are well-documented and have national and even global implications. This study will develop an intervention aimed to educate stakeholders on evidence-based management of ASB and UTI and guide antibiotic stewardship in this high-risk population. The next step will be to refine the intervention and test its feasibility and effectiveness at multiple sites as well as reform policy for management of this common but burdensome condition.International registered report identifier (irrid)DERR1-10.2196/12272.

Project description:Freshwater Salinization Syndrome (FSS) refers to the suite of physical, biological, and chemical impacts of salt ions on the degradation of natural, engineered, and social systems. Impacts of FSS on mobilization of chemical cocktails has been documented in streams and groundwater, but little research has focused on the effects of FSS on stormwater best management practices (BMPs) such as: constructed wetlands, bioswales, ponds, and bioretention. However emerging research suggests that stormwater BMPs may be both sources and sinks of contaminants, shifting seasonally with road salt applications. We conducted lab experiments to investigate this premise; replicate water and soil samples were collected from four distinct stormwater feature types (bioretention, bioswale, constructed wetlands and retention ponds) and were used in salt incubation experiments conducted under six different salinities with three different salts (NaCl, CaCl2, and MgCl2). Increased salt concentrations had profound effects on major and trace element mobilization, with all three salts showing significant positive relationships across nearly all elements analyzed. Across all sites, mean salt retention was 34%, 28%, and 26% for Na+, Mg2+ and Ca2+ respectively, and there were significant differences among stormwater BMPs. Salt type showed preferential mobilization of certain elements. NaCl mobilized Cu, a potent toxicant to aquatic biota, at rates over an order of magnitude greater than both CaCl2 and MgCl2. Stormwater BMP type also had a significant effect on elemental mobilization, with ponds mobilizing significantly more Mn than other sites. However, salt concentration and salt type consistently had significant effects on mean concentrations of elements mobilized across all stormwater BMPs (p<0.05), suggesting that processes such as ion exchange mobilize metals mobilize metals and salt ions regardless of BMP type. Our results suggest that decisions regarding the amounts and types of salts used as deicers can have significant effects on reducing contaminant mobilization to freshwater ecosystems.

Dataset Information

Navigating the Murine Brain: Toward Best Practices for Determining and Documenting Neuroanatomical Locations in Experimental Studies.

Publications

Navigating the Murine Brain: Toward Best Practices for Determining and Documenting Neuroanatomical Locations in Experimental Studies.

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