182 results on '"McIntyre, P. B."'
Search Results
2. Prevalence and Prognostic Significance of PIK3CAMutation and CNV Status and Phosphorylated AKT Expression in Patients With Cervical Cancer Treated With Primary Surgery
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Martell, Kevin, McIntyre, John B., Abedin, Tasnima, Kornaga, Elizabeth N., Chan, Angela M.Y., Enwere, Emeka, Köbel, Martin, Dean, Michelle L., Phan, Tien, Ghatage, Prafull, Lees-Miller, Susan P., and Doll, Corinne M.
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Currently, there are limited and conflicting reports on the prognostic utility of PIK3CAand associated pathway markers for cervical cancers treated with primary surgical management. Moreover, current studies are lacking complete characterization of adjuvant treatment with RT and/or chemotherapy. We aimed to document the prevalence, clinicopathologic, adjuvant treatment details, and prognostic value of PI3K/AKT pathway mutations and copy number variation and phosphorylated AKT status in patients with cervical cancers treated with primary surgery. A clinicopathologic review was performed on a retrospective cohort of 185 patients with cervical cancer, treated with primary surgery at a single tertiary institution. Next-generation sequencing and digital PCR was used to determine PI3K/AKT pathway mutational status and PIK3CAcopy number variation, respectively, and fluorescent immunohistochemistry measured phosphorylated AKT expression. In all, 179 of 185 (96.8%) of tumors were successfully sequenced; 48 (26.8%) were positive for PI3K/AKT pathway mutations—the majority (n=37, 77.1%) PIK3CAmutations. PIK3CAmutation was associated with pathologically positive lymph nodes [12 (32%) vs. 22 (16%); P=0.022] and indication for postoperative chemoradiotherapy [17 (45.9%) vs. 32 (22.5%); P=0.004]. On multivariable analysis, PIK3CAstatus was not associated with overall survival (P=0.103) or progression-free survival (P=0.240) at 5 yrs, nor was PIK3CAcopy number variation status. phosphorylated AKT ≤ median significantly predicted for progression-free survival [multivariable hazard ratio 0.39 (0.17–0.89; P=0.025)] but not overall survival (P=0.087). The correlation of PIK3CAwith pathologic positive lymph node status yet lack of association with survival outcomes may be due to the use of adjuvant postoperative therapy. PIK3CAassessment before radical hysterectomy may help identify patients with a higher risk of node-positive disease.
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- 2024
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3. Practising prioritisation: exploring variation in applying a clinical pharmacy risk stratification tool
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McIntyre, Fiona B, Vickers, Lauren, Wallem, Alexandra, van de l’Isle, Marianne, McLean, Amanda, and Souter, Caroline
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ObjectivesTo evaluate the use of a risk stratification tool and explore the contributing factors to variation in practice by clinical pharmacists.MethodsThe quantitative phase was a prospective evaluation of adherence to the risk stratification tool. Patients were selected by convenience sampling from medical wards across two hospital sites. Researchers applied the risk stratification tool to each patient, documented the code, accessed health records in subsequent days, and recorded the code assigned by the pharmacist. These codes were compared. The kappa (κ) coefficient test was performed using SPSS software as a statistical measure of agreement. The qualitative phase was designed using focus groups with clinical pharmacists. One focus group was conducted at each of the two study sites. Participants were grouped to ensure a mix of experience levels. To augment the discussion, participants completed a short survey. Focus groups were recorded and a thematic analysis undertaken.ResultsThe final cohort for quantitative analysis was 73. Researchers and pharmacists allocated the same code to 19 (26%) patients. The highest match rate was observed between researchers and rotational pharmacists. The κ coefficient was 0.039 (slight agreement) with p value=0.52 (not significant). Ten pharmacists participated in the focus groups: three from site 1 and seven from site 2. All participants reported using the principles of the risk stratification tool every day, but they rarely accessed the tool. Pharmacists reported using the tool as a workload management and communication system.ConclusionsVariation in application of the risk stratification tool exists among pharmacists. Focus group participants described multiple scenarios where non-patient factors were considered in assigning a priority code for the patient. A schedule of regular review of the criteria; training and peer review; tool validation; and research identifying the relationship between structured professional judgement and risk stratification tools is recommended.
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- 2024
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4. Use of Hotels as a Disposition Alternative to Hospital Admission for Undomiciled Patients Undergoing SARS-CoV-2 Testing.
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Lin, Lucia C., McIntyre, Brendan B., McIntyre, Kaitlin, Castillo, Edward, Subramony, Rachna, and Kreshak, Allyson
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- 2023
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5. Can Preserved Museum Specimens Be Used to Reconstruct Fish Mercury Burden and Sources through Time?
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Lepak, Ryan F., Janssen, Sarah E., Ogorek, Jacob M., Dillman, Casey B., Hoffman, Joel C., Tate, Michael T., and McIntyre, Peter B.
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- 2023
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6. Extensive global wetland loss over the past three centuries
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Fluet-Chouinard, Etienne, Stocker, Benjamin D., Zhang, Zhen, Malhotra, Avni, Melton, Joe R., Poulter, Benjamin, Kaplan, Jed O., Goldewijk, Kees Klein, Siebert, Stefan, Minayeva, Tatiana, Hugelius, Gustaf, Joosten, Hans, Barthelmes, Alexandra, Prigent, Catherine, Aires, Filipe, Hoyt, Alison M., Davidson, Nick, Finlayson, C. Max, Lehner, Bernhard, Jackson, Robert B., and McIntyre, Peter B.
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Wetlands have long been drained for human use, thereby strongly affecting greenhouse gas fluxes, flood control, nutrient cycling and biodiversity1,2. Nevertheless, the global extent of natural wetland loss remains remarkably uncertain3. Here, we reconstruct the spatial distribution and timing of wetland loss through conversion to seven human land uses between 1700 and 2020, by combining national and subnational records of drainage and conversion with land-use maps and simulated wetland extents. We estimate that 3.4 million km2(confidence interval 2.9–3.8) of inland wetlands have been lost since 1700, primarily for conversion to croplands. This net loss of 21% (confidence interval 16–23%) of global wetland area is lower than that suggested previously by extrapolations of data disproportionately from high-loss regions. Wetland loss has been concentrated in Europe, the United States and China, and rapidly expanded during the mid-twentieth century. Our reconstruction elucidates the timing and land-use drivers of global wetland losses, providing an improved historical baseline to guide assessment of wetland loss impact on Earth system processes, conservation planning to protect remaining wetlands and prioritization of sites for wetland restoration4.
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- 2023
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7. Floating solar power could help fight climate change — let’s get it right
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Almeida, Rafael M., Schmitt, Rafael, Grodsky, Steven M., Flecker, Alexander S., Gomes, Carla P., Zhao, Lu, Liu, Haohui, Barros, Nathan, Kelman, Rafael, and McIntyre, Peter B.
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Covering 10% of the world’s hydropower reservoirs with ‘floatovoltaics’ would install as much electrical capacity as is currently available for fossil-fuel power plants. But the environmental and social impacts must be assessed.
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- 2022
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8. Pertussis Disease and Antenatal Vaccine Effectiveness in Australian Children
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Quinn, Helen E., Comeau, Jeannette L., Marshall, Helen S., Elliott, Elizabeth J., Crawford, Nigel W., Blyth, Christopher C., Kynaston, Jennifer A., Snelling, Tom L., Richmond, Peter C., Francis, Joshua R., Macartney, Kristine K., McIntyre, Peter B., and Wood, Nicholas J.
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- 2022
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9. COVID-19 vaccine strategies must focus on severe disease and global equity
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McIntyre, Peter B, Aggarwal, Rakesh, Jani, Ilesh, Jawad, Jaleela, Kochhar, Sonali, MacDonald, Noni, Madhi, Shabir A, Mohsni, Ezzeddine, Mulholland, Kim, Neuzil, Kathleen M, Nohynek, Hanna, Olayinka, Folake, Pitisuttithum, Punnee, Pollard, Andrew J, and Cravioto, Alejandro
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- 2022
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10. Grassroots reserves rescue a river food web from cascading impacts of overharvest.
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Koning, Aaron A and McIntyre, Peter B
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TROPHIC cascades ,FISHERIES ,INSECT behavior ,FISH communities ,MARINE ecology ,FOOD chains - Abstract
Intensive fishing is altering the functioning of aquatic ecosystems worldwide, threatening both biodiversity and food security. No‐fishing reserves have proven effective at restoring food‐web structure and enhancing fisheries in marine ecosystems, but remain virtually untested in freshwater systems. Using experiments inside and outside of community‐created riverine reserves in Thailand, we describe a trophic cascade across six trophic levels, from humans to algal responses to nutrient availability. Protection from fishing profoundly reconfigures fish communities – greatly increasing biodiversity, biomass, and body size – yet mean trophic position was unaffected. Cascade dynamics from fish to algae were observed regardless of protection status, although fishing intensified trophic interactions through strong effects on grazing insect behavior. The marked effectiveness of these small, grassroots reserves offers an important conservation‐planning model for protecting food webs and augmenting fishery yields in biodiverse tropical rivers. [ABSTRACT FROM AUTHOR]
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- 2021
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11. SARS-CoV-2 Vaccines: Where Are We Now?
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Flanagan, Katie L., MacIntyre, C. Raina, McIntyre, Peter B., and Nelson, Michael R.
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The best and safest way to control the coronavirus disease 2019 (COVID-19) pandemic is by using vaccination to generate widespread immunity. The urgent need to develop safe and effective COVID-19 vaccines was met with unprecedented speed and action from the global community. There are now 289 vaccines in the development pipeline. More remarkably, there are 20 publicly available vaccines, and more than 3.3 billion doses of COVID-19 vaccines have been administered across 180 countries. This is just the beginning of our fight against the pandemic. Even at the current vaccination rate, it could take years to vaccinate the world's population; many high-income countries are focusing on their needs, whereas the poorer nations are waiting for vaccines. There is still much that we do not understand about immunity to this new disease, and we will have to contend with the emerging variants. In this commentary, we describe the current status of COVID-19 vaccine development and provide insights into how the development and approvals happened so quickly. We discuss the clinical trial data that led to rapid emergency use authorization and the many challenges of global rollout. We also comment on some of the key unanswered questions and future directions for COVID-19 vaccine development and deployment.
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- 2021
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12. Depth-discrete metagenomics reveals the roles of microbes in biogeochemical cycling in the tropical freshwater Lake Tanganyika
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Tran, Patricia Q, Bachand, Samantha C, McIntyre, Peter B, Kraemer, Benjamin M, Vadeboncoeur, Yvonne, Kimirei, Ismael A, Tamatamah, Rashid, McMahon, Katherine D, and Anantharaman, Karthik
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Lake Tanganyika (LT) is the largest tropical freshwater lake, and the largest body of anoxic freshwater on Earth’s surface. LT’s mixed oxygenated surface waters float atop a permanently anoxic layer and host rich animal biodiversity. However, little is known about microorganisms inhabiting LT’s 1470 meter deep water column and their contributions to nutrient cycling, which affect ecosystem-level function and productivity. Here, we applied genome-resolved metagenomics and environmental analyses to link specific taxa to key biogeochemical processes across a vertical depth gradient in LT. We reconstructed 523 unique metagenome-assembled genomes (MAGs) from 34 bacterial and archaeal phyla, including many rarely observed in freshwater lakes. We identified sharp contrasts in community composition and metabolic potential with an abundance of typical freshwater taxa in oxygenated mixed upper layers, and Archaea and uncultured Candidate Phyla in deep anoxic waters. Genomic capacity for nitrogen and sulfur cycling was abundant in MAGs recovered from anoxic waters, highlighting microbial contributions to the productive surface layers via recycling of upwelled nutrients, and greenhouse gases such as nitrous oxide. Overall, our study provides a blueprint for incorporation of aquatic microbial genomics in the representation of tropical freshwater lakes, especially in the context of ongoing climate change, which is predicted to bring increased stratification and anoxia to freshwater lakes.
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- 2021
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13. Depth-discrete metagenomics reveals the roles of microbes in biogeochemical cycling in the tropical freshwater Lake Tanganyika
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Tran, Patricia Q., Bachand, Samantha C., McIntyre, Peter B., Kraemer, Benjamin M., Vadeboncoeur, Yvonne, Kimirei, Ismael A., Tamatamah, Rashid, McMahon, Katherine D., and Anantharaman, Karthik
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Lake Tanganyika (LT) is the largest tropical freshwater lake, and the largest body of anoxic freshwater on Earth’s surface. LT’s mixed oxygenated surface waters float atop a permanently anoxic layer and host rich animal biodiversity. However, little is known about microorganisms inhabiting LT’s 1470 meter deep water column and their contributions to nutrient cycling, which affect ecosystem-level function and productivity. Here, we applied genome-resolved metagenomics and environmental analyses to link specific taxa to key biogeochemical processes across a vertical depth gradient in LT. We reconstructed 523 unique metagenome-assembled genomes (MAGs) from 34 bacterial and archaeal phyla, including many rarely observed in freshwater lakes. We identified sharp contrasts in community composition and metabolic potential with an abundance of typical freshwater taxa in oxygenated mixed upper layers, and Archaea and uncultured Candidate Phyla in deep anoxic waters. Genomic capacity for nitrogen and sulfur cycling was abundant in MAGs recovered from anoxic waters, highlighting microbial contributions to the productive surface layers via recycling of upwelled nutrients, and greenhouse gases such as nitrous oxide. Overall, our study provides a blueprint for incorporation of aquatic microbial genomics in the representation of tropical freshwater lakes, especially in the context of ongoing climate change, which is predicted to bring increased stratification and anoxia to freshwater lakes.
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- 2021
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14. Ecosystem responses to channel restoration decline with stream size in urban river networks.
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Levi, Peter S. and McIntyre, Peter B.
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STREAM restoration ,RIVER channels ,RESTORATION ecology ,ECOSYSTEMS ,NUTRIENT uptake ,RIVERS ,GRASSLAND restoration ,WETLAND restoration - Abstract
Urban streams are often severely impaired due to channelization, high loads of nutrients and contaminants, and altered land cover in the watershed. Physical restoration of stream channels is widely used to offset the effects of urbanization on streams, with the goal of improving ecosystem structure and function. However, these efforts are rarely guided by strategic analysis of the factors that mediate the responsiveness of stream ecosystems to restoration. Given that ecological gradients from headwater streams to mainstem rivers are ubiquitous, we posited that location within a river network could mediate the benefits of channel restoration. We studied existing stream restorations in Milwaukee, Wisconsin, to determine (1) whether restorations improve ecosystem function (e.g., nutrient uptake, whole‐stream metabolism) and (2) how ecosystem responses vary by position in the urban river network. We quantified a suite of physicochemical and biological metrics in six pairs of contiguous restored and concrete channel reaches, spanning gradients in baseflow discharge (19–196 L/s) and river network position (i.e., headwater to mainstem). Hydrology differed dramatically between the restored and concrete reaches; water velocity was reduced 2‐ to 13‐fold while water residence time was 50–5,000% greater in adjacent restored reaches. Restored reaches had shorter nutrient uptake lengths for ammonium, nitrate, and phosphate, as well as higher whole‐stream metabolism. Furthermore, the majority of reaches were autotrophic (i.e., gross primary production > ecosystem respiration), which is not common in stream ecosystems. The difference in ecosystem functioning between restored and unrestored reaches was generally largest in headwaters and declined to equivalence in mainstem restorations. Our results suggest that headwater sites offer higher return on investment compared to larger downstream channels, where ecosystem responsiveness is low. If this pattern proves to be general, the scaling of ecosystem responses with river size could be integrated into planning guidelines for urban stream restorations to enhance the societal and ecological benefits of these expensive interventions. [ABSTRACT FROM AUTHOR]
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- 2020
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15. Geophysical benthic habitat mapping in Lake Tanganyika (Tanzania): Implications for spatial planning of small-scale coastal protected areas.
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Lucas, Joseph S., McGlue, Michael M., Kimirei, Ismael A., Soreghan, Michael J., Mbonde, Athanasio, Yeager, Kevin M., Limbu, Peter, Apse, Colin, and McIntyre, Peter B.
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Optimizing community-based fisheries management to enhance both food resource and biodiversity conservation in large lakes requires detailed knowledge of benthic habitats, which determines suitability for fish breeding sites. This information is unavailable for much of Lake Tanganyika, whose fisheries are threatened by a warming climate, destructive harvesting practices, and sediment pollution. Lake Tanganyika possesses a remarkably diverse fish population. Much of this is concentrated in areas with water depths less than 30 m and on rocky substrate. Here, geophysical tools were used to map benthic habitats in a 21 km
2 co-management area of the lake in western Tanzania. Echosounding defined the position of the 30-m isobath, which varies with proximity to deltas and rift-related faults. Side-scan sonar discriminated among four unique substrates: crystalline bedrock, calcite-cemented sandstones, mixed siliciclastic sediments, and shell-rich sediments. Unlithified mixed silts and sands constitute over 91% of the study area. Rocky substrate composed of crystalline basement and calcite-cemented sandstone make up the less than 9% of the substrate in the study area. Crystalline bedrock was present from 0 to 30 m water depth, whereas the calcite-cemented sandstones were encountered in water less than 5 m deep. The spatial organization of rocky substrates is interpreted to be controlled by basin structure and lake level history; these habitats make ideal targets for establishing new small-scale protected areas. The techniques illustrated in this study are broadly applicable elsewhere in Lake Tanganyika, and to other large lakes where data needs for placing conservation reserves are lacking. [ABSTRACT FROM AUTHOR]- Published
- 2020
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16. A network of grassroots reserves protects tropical river fish diversity
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Koning, Aaron A., Perales, K. Martin, Fluet-Chouinard, Etienne, and McIntyre, Peter B.
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Intensive fisheries have reduced fish biodiversity and abundance in aquatic ecosystems worldwide1–3. ‘No-take’ marine reserves have become a cornerstone of marine ecosystem-based fisheries management4–6, and their benefits for adjacent fisheries are maximized when reserve design fosters synergies among nearby reserves7,8. The applicability of this marine reserve network paradigm to riverine biodiversity and inland fisheries remains largely untested. Here we show that reserves created by 23 separate communities in Thailand’s Salween basin have markedly increased fish richness, density, and biomass relative to adjacent areas. Moreover, key correlates of the success of protected areas in marine ecosystems—particularly reserve size and enforcement—predict differences in ecological benefits among riverine reserves. Occupying a central position in the network confers additional gains, underscoring the importance of connectivity within dendritic river systems. The emergence of network-based benefits is remarkable given that these reserves are young (less than 25 years old) and arose without formal coordination. Freshwater ecosystems are under-represented among the world’s protected areas9, and our findings suggest that networks of small, community-based reserves offer a generalizable model for protecting biodiversity and augmenting fisheries as the world’s rivers face unprecedented pressures10,11.
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- 2020
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17. Integrating Life Cycle and Impact Assessments to Map Food's Cumulative Environmental Footprint
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Kuempel, Caitlin D., Frazier, Melanie, Nash, Kirsty L., Jacobsen, Nis Sand, Williams, David R., Blanchard, Julia L., Cottrell, Richard S., McIntyre, Peter B., Moran, Daniel, Bouwman, Lex, Froehlich, Halley E., Gephart, Jessica A., Metian, Marc, Többen, Johannes, and Halpern, Benjamin S.
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Feeding a growing, increasingly affluent population while limiting environmental pressures of food production is a central challenge for society. Understanding the location and magnitude of food production is key to addressing this challenge because pressures vary substantially across food production types. Applying data and models from life cycle assessment with the methodologies for mapping cumulative environmental impacts of human activities (hereafter cumulative impact mapping) provides a powerful approach to spatially map the cumulative environmental pressure of food production in a way that is consistent and comprehensive across food types. However, these methodologies have yet to be combined. By synthesizing life cycle assessment and cumulative impact mapping methodologies, we provide guidance for comprehensively and cumulatively mapping the environmental pressures (e.g., greenhouse gas emissions, spatial occupancy, and freshwater use) associated with food production systems. This spatial approach enables quantification of current and potential future environmental pressures, which is needed for decision makers to create more sustainable food policies and practices.
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- 2020
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18. Whole-Cell Pertussis Vaccination and Decreased Risk of IgE-Mediated Food Allergy: A Nested Case-Control Study
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Estcourt, Marie J., Campbell, Dianne E., Gold, Michael S., Richmond, Peter, Allen, Katrina J., Quinn, Helen E., Marsh, Julie A., Peters, Rachel L., Valerio, Carolina, Dai, Danyi, Waddington, Claire S., Wood, Nicholas J., McIntyre, Peter B., Holt, Patrick G., and Snelling, Thomas L.
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Rates of food allergy have increased markedly in Australia and other high- income countries in recent years. On the basis of ecological observations, and the known immunologic characteristics of whole-cell pertussis (wP) compared with acellular pertussis (aP) vaccines, we hypothesized that wP vaccination in infancy protects against the development of food allergy.
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- 2020
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19. Varicella vaccine effectiveness over 10 years in Australia; moderate protection from 1-dose program.
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Quinn, Helen E., Gidding, Heather F., Marshall, Helen S., Booy, Robert, Elliott, Elizabeth J., Richmond, Peter, Crawford, Nigel, McIntyre, Peter B., Macartney, Kristine K., and PAEDS (Paediatric Active Enhanced Disease Surveillance) Network
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Objectives: To examine the impact of Australia's single dose infant varicella vaccination program, we assessed single dose varicella vaccine effectiveness (VE) in preventing hospitalised disease using two methods.Methods: Clinically confirmed varicella cases from the Paediatric Active Enhanced Disease Surveillance (PAEDS) sentinel network were age-matched to 20 controls obtained from the Australian Immunisation Register. Conditional logistic regression models were used to estimate VE and compared with estimates obtained using our second approach.Results: There were 78 hospitalised varicella cases during the post vaccine introduction period from January 2008 to December 2015, who were eligible for funded varicella vaccination. Median age at onset was 4.5 years and more than half (59%) were vaccinated. The majority of children received one vaccine brand (Varilrix, GSK). The estimated case-control VE for one dose of vaccine against hospitalised varicella was 64.7% (95% CI: 43.3-78.0%); estimates using the screening method were not significantly different. Exclusion of children who were immunocompromised did not significantly alter VE estimates.Conclusions: Although Australia's program has impacted on the burden of varicella disease, single dose VE against varicella hospitalisation is only moderate. Greater reductions in varicella disease could potentially be achieved by incorporation of a second vaccine dose into the program to minimise breakthrough disease and interrupt virus circulation. [ABSTRACT FROM AUTHOR]- Published
- 2019
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20. Aging infrastructure creates opportunities for cost‐efficient restoration of aquatic ecosystem connectivity.
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Neeson, Thomas M., Moody, Allison T., McIntyre, Peter B., O'Hanley, Jesse R., Diebel, Matthew, Doran, Patrick J., Ferris, Michael C., and Colling, Timothy
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INFRASTRUCTURE (Economics) ,INFRASTRUCTURE & the environment ,ECONOMIC efficiency ,AQUATIC ecology ,RESTORATION ecology - Abstract
Abstract: A hallmark of industrialization is the construction of dams for water management and roads for transportation, leading to fragmentation of aquatic ecosystems. Many nations are striving to address both maintenance backlogs and mitigation of environmental impacts as their infrastructure ages. Here, we test whether accounting for road repair needs could offer opportunities to boost conservation efficiency by piggybacking connectivity restoration projects on infrastructure maintenance. Using optimization models to align fish passage restoration sites with likely road repair priorities, we find potential increases in conservation return‐on‐investment ranging from 17% to 25%. Importantly, these gains occur without compromising infrastructure or conservation priorities; simply communicating openly about objectives and candidate sites enables greater accomplishment at current funding levels. Society embraces both reliable roads and thriving fisheries, so overcoming this coordination challenge should be feasible. Given deferred maintenance crises for many types of infrastructure, there could be widespread opportunities to enhance the cost effectiveness of conservation investments by coordinating with infrastructure renewal efforts. [ABSTRACT FROM AUTHOR]
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- 2018
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21. Agreement between diagnoses of otitis media by audiologists and otolaryngologists in Aboriginal Australian children.
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Gunasekera, Hasantha, Miller, Hilary M., Burgess, Leonie, Chando, Shingisai, Sheriff, Simone L., Tsembis, Julie D., Kong, Kelvin M., Coates, Harvey L. C., Curotta, John, Falster, Kathleen, McIntyre, Peter B., Banks, Emily, Peter, Natasha J., and Craig, Jonathan C.
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Objectives: To determine the degree of agreement of diagnoses by audiologists and otolaryngologists of otitis media (OM) in Aboriginal children. Design: Cross-sectional study of agreement between diagnoses. Setting: Study of Environment on Aboriginal Resilience and Child Health (SEARCH), a prospective cohort study of Aboriginal children attending four Aboriginal Community Controlled Health Services in New South Wales (three metropolitan, one regional) during 2008-2012. Participants: 1310 of 1669 SEARCH participants (78.5%; mean age, 7.0 years; SD, 4.4 years) were assessed and received a diagnosis from one of five experienced audiologists. Test results (but not case histories) were forwarded to one of three otolaryngologists for blinded independent assessment. Main outcome measures: Agreement of OM diagnoses by audiologists and otolaryngologists at ear and child levels; correctness of audiologist diagnoses (otolaryngologist diagnosis as reference). Results: Paired diagnoses by audiologists and otolaryngologists were available for 863 children at the child level and 1775 ears (989 children) at the ear level. Otolaryngologists diagnosed OM in 251 children (29.1%), including 11 (1.3%) with tympanic membrane perforation, and in 396 ears (22.3%), including 12 (0.7%) with perforation. Agreement between audiologists and otolaryngologists for OM at the ear level was 92.2% (k = 0.78; 95% CI, 0.74-0.82), and at the child level 91.7% (k = 0.81; 95% CI, 0.77-0.85). No otolaryngologist-diagnosed perforation was missed by audiologists. Among 1000 children triaged by an audiologist, there would be 45 false positives and 30 false negatives when compared with assessments by an otolaryngologist, with no missed perforations. Conclusions: There was substantial agreement between audiologists' and otolaryngologists' diagnoses of OM in a high prevalence population of Aboriginal children. In settings with limited access to otolaryngologists, audiologists may appropriately triage children and select those requiring specialist review. [ABSTRACT FROM AUTHOR]
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- 2018
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22. Distributions of PCB Congeners and Homologues in White Sucker and Coho Salmon from Lake Michigan.
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Stapanian, Martin A., Madenjian, Charles P., Batterman, Stuart A., Chernyak, Sergei M., Edwards, William H., and McIntyre, Peter B.
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- 2018
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23. Effectiveness of pneumococcal conjugate vaccine against hospital admissions for pneumonia in Australian children: a retrospective, population-based, record-linked cohort study
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Fathima, Parveen, Gidding, Heather F, McIntyre, Peter B, Snelling, Thomas L, McCallum, Lisa, de Klerk, Nicholas, Blyth, Christopher C, Liu, Bette, and Moore, Hannah C
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Reductions in pneumonia hospitalisations following introduction of pneumococcal conjugate vaccines (PCVs) have been reported from high-incidence and low-incidence settings but long-term data comparing vaccinated with unvaccinated children are sparse.
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- 2019
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24. Impact of Childhood Pneumococcal Conjugate Vaccine on Nonnotified Clinically Suspected Invasive Pneumococcal Disease in Australia
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Gidding, Heather F., Sheridan, Sarah, Fathima, Parveen, Moore, Hannah C., Liu, Bette, McIntyre, Peter B., and Palmu, Arto A.
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Supplemental Digital Content is available in the text.
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- 2019
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25. A somatic activating NRASvariant associated with kaposiform lymphangiomatosis
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Barclay, Sarah F., Inman, Kyle W., Luks, Valerie L., McIntyre, John B., Al-Ibraheemi, Alyaa, Church, Alanna J., Perez-Atayde, Antonio R., Mangray, Shamlal, Jeng, Michael, Kreimer, Sara R., Walker, Lori, Fishman, Steven J., Alomari, Ahmad I., Chaudry, Gulraiz, Trenor, Cameron C., Adams, Denise, Kozakewich, Harry P.W., and Kurek, Kyle C.
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Kaposiform lymphangiomatosis (KLA) is a rare, frequently aggressive, systemic disorder of the lymphatic vasculature, occurring primarily in children. Even with multimodal treatments, KLA has a poor prognosis and high mortality rate secondary to coagulopathy, effusions, and systemic involvement. We hypothesized that, as has recently been found for other vascular anomalies, KLA may be caused by somatic mosaic variants affecting vascular development.
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- 2019
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26. Observations, indicators and scenarios of biodiversity and ecosystem services change — a framework to support policy and decision-making.
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Schmid, Bernhard, .Krug, Cornelia B, Schaepman, Michael E, Obura, David O, Strassburg, Bernardo BN, Van Teeffelen, Astrid JA, Weyl, Olaf LF, Yasuhara, Moriaki, Leadley, Paul W, Shannon, Lynne J, Cavender-Bares, Jeannine, Cheung, William, McIntyre, Peter B, Metzger, Jean Paul, and Niinemets, Ülo
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Improving understanding of how biodiversity and ecosystems respond to environmental change is necessary to guide policy and management. To this end, the bioDISCOVERY project of the international programme on global change, Future Earth, initiates and supports international networks of scientists to advance research on monitoring and observations, scenarios and models, and assessments of biodiversity and ecosystems. bioDISCOVERY activities seek collective solutions to key research challenges, and provide support for the international science community by participating in the development of global databases. This global working-group approach is essential for directing cutting-edge science toward supporting international policies, addressing urgent environmental issues, and closing research gaps through transdisciplinary integration and mobilisation of the scientific community. [ABSTRACT FROM AUTHOR]
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- 2017
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27. Epidemiology of invasive meningococcal B disease in Australia, 1999-2015: priority populations for vaccination.
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Archer, Brett N., Chiu, Clayton K., Jayasinghe, Sanjay H., Richmond, Peter C., McVernon, Jodie, Lahra, Monica M., Andrews, Ross M., McIntyre, Peter B., and Australian Technical Advisory Group on Immunisation (ATAGI) Meningococcal Working Party
- Abstract
Objectives: To describe trends in the age-specific incidence of serogroup B invasive meningococcal disease (IMD) in Australia, 1999-2015.Design, Setting, Participants: Analysis in February 2017 of de-identified notification data from the Australian National Notifiable Diseases Surveillance System of all notifications of IMD in Australia with a recorded diagnosis date during 1999-2015.Major outcomes: IMD notification rates in Australia, 1999-2015, by age, serogroup, Indigenous status, and region.Results: The incidence of meningococcal serogroup B (MenB) disease declined progressively from 1.52 cases per 100 000 population in 2001 to 0.47 per 100 000 in 2015. During 2006-2015, MenB accounted for 81% of IMD cases with a known serogroup; its highest incidence was among infants under 12 months of age (11.1 [95% CI, 9.81-12.2] per 100 000), children aged 1-4 years (2.82 [95% CI, 2.52-3.15] per 100 000), and adolescents aged 15-19 years (2.40 [95% CI, 2.16-2.67] per 100 000). Among the 473 infants under 2 years of age with MenB, 43% were under 7 months and 69% under 12 months of age. The incidence of meningococcal serogroup C (MenC) disease prior to the introduction of the MenC vaccine in 2003 was much lower in infants than for MenB (2.60 cases per 100 000), the rate peaking in people aged 15-19 years (3.32 per 100 000); the overall case fatality rate was also higher (MenC, 8%; MenB, 4%). The incidence of MenB disease was significantly higher among Indigenous than non-Indigenous Australians during 2006-2015 (incidence rate ratio [IRR], 3.8; 95% CI, 3.3-4.5).Conclusions: Based on disease incidence at its current low endemic levels, priority at risk age/population groups for MenB vaccination include all children between 2 months and 5 years of age, Indigenous children under 10 years of age, and all adolescents aged 15-19 years. Given marked variation in meningococcal disease trends over time, close scrutiny of current epidemiologic data is essential. [ABSTRACT FROM AUTHOR]- Published
- 2017
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28. Determining the contribution of Streptococcus pneumoniae to community-acquired pneumonia in Australia.
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Yin, J. Kevin, Jayasinghe, Sanjay H., Charles, Patrick G., King, Catherine, Chiu, Clayton K., Menzies, Robert I., and McIntyre, Peter B.
- Abstract
Objective: To evaluate trends in the proportion and severity of community-acquired pneumonia (CAP) attributable to Streptococcus pneumoniae (pneumococcus) in Australians aged 18 years and over. Study design: Systematic review with unpublished data from the largest study. Data sources: Multiple key bibliographic databases to June 2016. Study selection: Australian studies on the aetiology of CAP in adults. Data synthesis: In the 12 studies identified, pneumococcus was the most common cause of CAP. Four studies were assessed as being of good quality. Participants in two studies were predominantly non-Indigenous (n = 991); the proportion of pneumococcal CAP cases declined from 26.4% in 1987e88 to 13.9% in 2004e06, and the proportion with bacteraemia decreased from 7.8%to 3.8%. In two studies with predominantly Indigenous participants (n = 252), the proportion with pneumococcal bacteraemia declined from 6.8% in 1999e2000 to 4.2% in 2006e07. In the largest study (n = 885; 2004e06), 50.8% (60/118) of pneumococcal CAP occurred in people who were ≥ 65 years old. Among patients aged ≥ 65 years, intensive care unit admission and death were more common in patients who were ≥ 85 years old compared with younger patients (12.5% v 6.8%; 18.8% v 6.8% respectively), and also more common in the 19 patients with bacteraemia than in those without it (15.8% v 2.6%; 10.5% v 7.9% respectively). Of 17 cases of bacteraemia serotyped, 12 were due to 13-valent pneumococcal conjugate vaccine (13vPCV) serotypes and three to additional serotypes in 23-valent pneumococcal polysaccharide vaccine (23vPPV). Conclusions: Available data suggest that the proportion of CAP attributable to pneumococcus (both bacteraemic and nonbacteraemic) has been declining in Australian adults. Should 13vPCV replace the 23vPPV currently funded by the National Immunisation Program for persons aged ≥ 65 years, surveillance to track non-bacteraemic pneumococcal CAP will be essential to evaluate the impact. [ABSTRACT FROM AUTHOR]
- Published
- 2017
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29. THE EFFECTS OF AFRICAN-AMERICAN STEREOTYPE FLUENCY ON PREJUDICIAL EVALUATION OF TARGETS.
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Deskins, Troy, McIntyre, Rusty B., Bartosek, Michael, and Fuller, Eric W.
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PSYCHOLOGY of African Americans ,STEREOTYPES ,PREJUDICES - Abstract
Research examining heuristics suggests recalling more stereotypic behavior might be as effective as recalling counter-stereotypic behavior for reducing prejudice. This research had participants recall African-Americans behaving in stereotypic or counter-stereotypic ways under easy or difficult recall constraints. Results demonstrated that participants recalling more stereotyped behaviors were less prejudiced toward African-Americans compared to participants recalling fewer stereotypes. Moreover, participants who recalled counter-stereotyped behaviors were less prejudiced than participants who recalled stereotyped behaviors, but only under easy recall constraints. The results suggest it is the ease of stereotypic recall that informs prejudice rather than the content or amount of stereotypes recalled. [ABSTRACT FROM AUTHOR]
- Published
- 2017
30. THE EFFECTS OF AFRICAN-AMERICAN STEREOTYPE FLUENCY ON PREJUDICIAL EVALUATION OF TARGETS.
- Author
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Deskins, Troy, McIntyre, Rusty B., Bartosek, Michael, and Fuller, Eric W.
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AFRICAN Americans ,HEURISTIC ,STEREOTYPES - Abstract
Research examining heuristics suggests recalling more stereotypic behavior might be as effective as recalling counter-stereotypic behavior for reducing prejudice. This research had participants recall African-Americans behaving in stereotypic or counter-stereotypic ways under easy or difficult recall constraints. Results demonstrated that participants recalling more stereotyped behaviors were less prejudiced toward African-Americans compared to participants recalling fewer stereotypes. Moreover, participants who recalled counter-stereotyped behaviors were less prejudiced than participants who recalled stereotyped behaviors, but only under easy recall constraints. The results suggest it is the ease of stereotypic recall that informs prejudice rather than the content or amount of stereotypes recalled. [ABSTRACT FROM AUTHOR]
- Published
- 2017
31. Advancing Freshwater Biodiversity Conservation by Collaborating with Public Aquaria
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Murchie, Karen J., Knapp, Charles R., and McIntyre, Peter B.
- Abstract
Freshwater habitats and biota worldwide are in a conservation crisis, yet scientists and nongovernmental organizations have struggled to effectively engage the public to broaden awareness of needs for protecting aquatic ecosystems. As a result, the spectacular diversity and increasing imperilment of freshwater taxa remain poorly known outside our profession. Declining public trust of scientists creates further challenges as we try to limit losses of freshwater biodiversity. Reversing these trends requires a targeted collaborative effort from a variety of stakeholders that builds public and political support for freshwater science and conservation. Public aquaria can be key partners in this effort by providing a large audience (>150 million visitors annually) for conservation messaging in a trusted arena. Exhibits provide a visual connection to freshwater biota and their habitats, granting access to the underwater world for people who may have no prior exposure to river or lake ecosystems, particularly in urban centers. We identify a host of opportunities for fisheries scientists and aquarium staff to publicize conservation concerns, craft messages that connect with the public, and engage citizen scientists. Successfully fostering appreciation of freshwater biodiversity is requisite to protecting it in the future.
- Published
- 2018
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32. Distributions of PCB Congeners and Homologues in White Sucker and Coho Salmon from Lake Michigan
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Stapanian, Martin A., Madenjian, Charles P., Batterman, Stuart A., Chernyak, Sergei M., Edwards, William H., and McIntyre, Peter B.
- Abstract
We tested the hypothesis of the proportion of higher chlorinated biphenyl (PCB) congeners increasing with increasing trophic level by comparing the respective PCB homologue distributions in an omnivore, white sucker (Catostomus commersoni), and a top predator, coho salmon (Oncorhynchus kisutch), from Lake Michigan. Adult females had the same congener and homologue proportions of total PCB concentration (ΣPCB) as adult males in both species. Hexachlorinated congeners comprised the largest proportion (32%) found in white sucker, followed by heptachlorinated (21%) and octochlorinated (18%) congeners. In contrast, pentachlorinated congeners comprised the largest proportion (33%) of ΣPCB found in coho salmon, followed by hexachlorinated (26%) and tetrachlorinated (24%) congeners. Coho salmon contained significantly higher proportions of tri-, tetra-, and pentachlorinated congeners, whereas white sucker contained significantly higher proportions of hexa- through decachlorinated congeners. Our results were opposite of the hypothesis of greater degree of PCB chlorination with increasing trophic level, and supported the contention that the PCB congener proportions in fish depends mainly on diet, and does not necessarily reflect the trophic level of the fish. Our results also supported the contention that diets do not vary between the sexes in most fish populations.
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- 2018
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33. Differences in Mercury Exposure among Wisconsin Anglers Arising from Fish Consumption Preferences and Advisory Awareness
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Stevens, Andrew L., Baird, Ian G., and McIntyre, Peter B.
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Fish are frequently contaminated with mercury, raising concerns about the human health consequences of eating fish. We quantified mercury exposure and awareness of health advisories among three major ethnic groups of anglers in Madison, Wisconsin, using surveys of species preferences and consumption rates. African American anglers reported eating double and triple the amount of fish consumed by Hmong Americans and Whites, respectively. However, Hmong Americans preferred species with higher levels of contamination, resulting in net mercury exposure comparable to that of African Americans. Few anglers exceeded personal exposure recommendations, but the majority shared fish with family or friends. Children are particularly sensitive to the neurotoxic effects of heavy metals, and one‐third of anglers reported providing fish to children. African Americans reported the least knowledge about advisories, but misconceptions about mercury existed in each ethnic group. Our findings highlight the need to tailor advisories for specific groups of anglers based on consumption rates, preferred species, and favored communication channels. Improved messaging is particularly important for guiding informed fish consumption by families.
- Published
- 2018
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34. Prioritizing ecological restoration among sites in multi-stressor landscapes.
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Neeson, Thomas M., Smith, Sigrid D. P., Allan, J. David, and McIntyre, Peter B.
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ECOSYSTEM management ,ECOSYSTEMS ,BIOMES ,ECOLOGICAL districts ,ENDANGERED ecosystems - Abstract
Most ecosystems are impacted by multiple local and long-distance stressors, many of which interact in complex ways. We present a framework for prioritizing ecological restoration efforts among sites in multi-stressor landscapes. Using a simple model, we show that both the economic and sociopolitical costs of restoration will typically be lower at sites with a relatively small number of severe problems than at sites with numerous lesser problems. Based on these results, we propose using cumulative stress and evenness of stressor impact as complementary indices that together reflect key challenges of restoring a site to improved condition. To illustrate this approach, we analyze stressor evenness across the world's rivers and the Laurentian Great Lakes. This exploration reveals that evenness and cumulative stress are decoupled, enabling selection of sites where remediating a modest number of high-intensity stressors could substantially reduce cumulative stress. Just as species richness and species evenness are fundamental axes of biological diversity, we argue that cumulative stress and stressor evenness constitute fundamental axes for identifying restoration opportunities in multi-stressor landscapes. Our results highlight opportunities to boost restoration efficiency through strategic use of multi-stressor datasets to identify sites that maximize ecological response per stressor remediated. This prioritization framework can also be expanded to account for the feasibility of remediation and the expected societal benefits of restoration projects. [ABSTRACT FROM AUTHOR]
- Published
- 2016
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35. Comparison of Visual Survey and Mark–Recapture Population Estimates of a Benthic Fish in Hawaii.
- Author
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Hain, Ernie F., Lamphere, Bradley A., Blum, Michael J., McIntyre, Peter B., Nelson, Stacy A.C., and Gilliam, James F.
- Abstract
Visual surveys are conducted to rapidly estimate population densities of stream fishes, often without calibration against more established or more widely used methods to determine precision and accuracy or to correct for potential biases. We compared population density estimates from a visual survey (VS) point quadrat method widely used in Hawaii with estimates from “in hand” individual and batch mark–recapture (BMR) methods. Visual survey sampling and individual mark–recapture (IMR) sampling were conducted in three watersheds that represent gradients of land use and prevalence of nonnative poeciliid fishes on the Island of Hawaii. Focusing on adult O‘opu NākeaAwaous stamineus, VSs were conducted prior to IMR events to allow direct comparisons of results independent of location and time. Density estimates of O‘opu Nākea from VS and IMR samplings were strongly correlated, although VS estimates were generally higher and underrepresented exceptionally large fish. Batch mark–recapture estimates of O‘opu Nākea densities were conducted for comparison with VSs at 13 sites across the archipelago. Estimates of VSs were not significantly different from BMR estimates. Estimates of VSs also exhibited less variance than did BMR estimates across sites. General linear models showed that the relationship between VS and IMR estimates varied significantly among watersheds but not seasons and that land use was associated with a greater mismatch between VS and BMR estimates of population density. These findings indicate that visual surveys using a point quadrat method are an efficient and accurate approach for estimating the abundance of small benthic fishes, such as O‘opu Nākea, in wadeable streams and that obtaining absolute densities or size distributions from VS methods would benefit from a calibration with IMR not BMR estimates. Received July 15, 2015; accepted February 23, 2016 Published online June 29, 2016 [ABSTRACT FROM AUTHOR]
- Published
- 2016
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36. Trends and patterns in vaccination objection, Australia, 2002–2013.
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Beard, Frank H., Hull, Brynley P., Leask, Julie, Dey, Aditi, and McIntyre, Peter B.
- Abstract
Objectives: To examine geographic and demographic trends in objection to vaccination in Australia. Design: Cross-sectional analysis of Australian Childhood Immunisation Register (ACIR) data (2002–2013) for children aged 1–6 years. Main outcome measures: Immunisation status according to whether an objection had been registered, and remoteness and socio-economic status of area of residence. Registration of children with Medicare after 12 months of age was used as a proxy indicator of being overseas-born. Results: The proportion of children affected by a registered vaccination objection increased from 1.1% in 2002 to 2.0% in 2013. Children with a registered objection were clustered in regional areas. The proportion was lower among children living in areas in the lowest decile of socio-economic status (1.1%) than in areas in the highest socio-economic decile (1.9%). The proportion not affected by a recorded objection but who were only partly vaccinated for vaccines due at 2, 4 and 6 months of age was higher among those in the lowest decile (5.0% v 3.4%), suggesting problems of access to health services, missed opportunities, and logistic difficulties. The proportion of proxy overseas-born for whom neither vaccinations nor an objection were recorded was 14 times higher than for other children (17.1% v 1.2%). These children, who are likely to be vaccinated although this is not recorded on the ACIR, resided predominantly in major cities. Conclusions: There was a small increase in registered objection rates since 2002. We estimate that 3.3% of children are affected by registered or presumptive (unregistered) vaccination objection, which suggests that the overall impact of vaccination objection on vaccination rates has remained largely unchanged since 2001. Incomplete records, barriers to access, and missed opportunities are likely to be responsible for most other deficiencies in vaccination coverage. [ABSTRACT FROM AUTHOR]
- Published
- 2016
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37. The relationship between Bordetella pertussis genotype and clinical severity in Australian children with pertussis.
- Author
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Clarke, Michelle, McIntyre, Peter B., Blyth, Christopher C., Wood, Nick, Octavia, Sophie, Sintchenko, Vitali, Giles, Lynne, Quinn, Helen, Hill, Verity, Hanly, Gabrielle, Lan, Ruiting, and Marshall, Helen S.
- Subjects
BACTERIAL toxins ,BORDETELLA pertussis ,GENES ,LONGITUDINAL method ,MEMBRANE proteins ,WHOOPING cough ,SPECIALTY hospitals ,GENOTYPES - Abstract
Objectives: Changes in circulating Bordetella pertussis genotypes, including a novel pertussis toxin promoter ptxP3 allele and absence of pertactin (Prn) antigen, have been reported from several countries but limited data on relative severity are available. We compared markers of disease severity in children with B. pertussis infection due to strains of differing genotype.Methods: Culture confirmed cases presenting to tertiary paediatric hospitals in three Australian states between 2008 and 2012 were classified as severe if they required a hospital stay greater than seven days, were admitted to intensive care, or if death occurred. Associations between age, vaccination, genotype and severity were assessed.Results: Of 199 pertussis cases, 81 (41%) were <3 months, including 32/39 (82%) of severe cases. The proportion of isolates from these cases that were Prn deficient increased markedly between 2008 and 2012. Of B. pertussis isolates, the proportion considered severe was similar for Prn positive (27/128, 21%) and Prn deficient (12/71, 17%) cases but only 1/22 (4.5%) of non ptxP3 cases were severe versus 38/177 (21.4%) ptxP3 positive. Adjusting for ptxP type, vaccination status and age, disease severity was not significantly associated with Prn status (RRA: 0.95, [0.57-1.56]; p = 0.83).Conclusions: In children, we found no relationship between Prn status and markers of severe pertussis. An increased proportion of severe disease in isolates with the ptxP3 allele was observed. [ABSTRACT FROM AUTHOR]- Published
- 2016
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38. Placental findings in SARS-CoV-2 maternal infection by severity and timing of maternal disease.
- Author
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Gabby, Lauryn C., Jones, Chelsea, McIntyre, Brendan B., Ramos, Gladys A., Jacobs, Marni B., and Parast, Mana M.
- Subjects
SARS-CoV-2 ,PLACENTA ,INFECTION ,TIME ,PLACENTA diseases - Published
- 2022
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39. Morphologic Reproducibility, Genotyping, and Immunohistochemical Profiling Do Not Support a Category of Seromucinous Carcinoma of the Ovary
- Author
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Rambau, Peter F., McIntyre, John B., Taylor, Jennifer, Lee, Sandra, Ogilvie, Travis, Sienko, Anna, Morris, Don, Duggan, Máire A., McCluggage, W. Glenn, and Köbel, Martin
- Abstract
Supplemental Digital Content is available in the text.The 2014 World Health Organization Classification of Tumors of Female Reproductive Organs endorsed the new category of seromucinous carcinoma, a neoplasm that exhibits morphologic and immunophenotypic overlap with other histotypes of ovarian carcinoma. The goal of this study was to determine whether seromucinous carcinoma was a distinct histotype by assessing its diagnostic reproducibility and comparing its molecular composition to the 5 major histotypes of ovarian carcinoma. Thirty-two tumors diagnosed as seromucinous carcinomas from 2 centers were studied. Eighteen cases were randomly selected for a review set comprising a total of 50 ovarian carcinomas of various histotypes. Morphologic histotype was independently assessed by 4 pathologists. For the 32 seromucinous carcinomas, a histotype-specific immunophenotype was assigned using a diagnostic immunohistochemical panel. Histotype-specific genotype was assigned using a combination of immunohistochemistry and targeted next-generation sequencing for somatic mutations, including genes recurrently mutated in ovarian carcinomas. There was low to modest agreement between pathologists with the reference diagnosis of seromucinous carcinoma, ranging from 39% to 56% for the 4 observers. The immunophenotype was not unique but overlapped predominantly with endometrioid and to a lesser extent with mucinous and low-grade serous carcinoma. Genomic and immunohistochemical alterations were detected in a number of target genes, including KRAS(70%), PIK3CA(37%), PTEN(19%), and ARID1A(16%); no CTNNB1mutations were identified. Nine cases (30%) harbored concurrent KRAS/PIK3CAmutations. An endometrioid genotype was assigned to 19 cases, a low-grade serous genotype to 9, and a mucinous genotype to 1 and 3 cases were uninformative. Integrating morphology, immunophenotype, and genotyping resulted in reclassifying the seromucinous carcinomas to endometrioid 23/32 (72%), low-grade serous 8/32 (25%), and mucinous 1/32 (3%). The morphologic diagnosis of seromucinous carcinomas is not very reliable and it does not exhibit a distinct immunophenotype or genotype. The molecular features overlap mostly with endometrioid and low-grade serous carcinomas. Our data suggest the category of seromucinous carcinoma be discontinued as ancillary molecular tests can assign cases to one of the major histotypes.
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- 2017
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40. Pet Project or Best Project? Online Decision Support Tools for Prioritizing Barrier Removals in the Great Lakes and Beyond
- Author
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Moody, Allison T., Neeson, Thomas M., Wangen, Steve, Dischler, Jeff, Diebel, Matthew W., Milt, Austin, Herbert, Matthew, Khoury, Mary, Yacobson, Eugene, Doran, Patrick J., Ferris, Michael C., O'Hanley, Jesse R., and McIntyre, Peter B.
- Abstract
Structures that block movement of fish through river networks are built to serve a variety of societal needs, including transportation, hydroelectric power, and exclusion of exotic species. Due to their abundance, road crossings and dams reduce the amount of habitat available to fish that migrate from the sea or lakes into rivers to breed. The benefits to fish of removing any particular barrier depends on its location within the river network, its passability to fish, and the relative position of other barriers within the network. Balancing the trade-offs between ecological and societal values makes choosing among potential removal projects difficult. To facilitate prioritization of barrier removals, we developed an online decision support tool (DST) with three functions: (1) view existing barriers at various spatial scales; (2) modify information about barriers, including removal costs; and (3) run optimization models to identify portfolios of removals that provide the greatest amount of habitat access for a given budget. A survey of available DSTs addressing barrier removal prioritization indicates that barrier visualization is becoming widespread but few tools allow dynamic calculation of connectivity metrics, scenario analysis, or optimization. Having these additional functions, our DST enables organizations to develop barrier removal priorities based on cost-effectiveness in restoring aquatic connectivity.
- Published
- 2017
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41. Pet Project or Best Project? Online Decision Support Tools for Prioritizing Barrier Removals in the Great Lakes and Beyond
- Author
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Moody, Allison T., Neeson, Thomas M., Wangen, Steve, Dischler, Jeff, Diebel, Matthew W., Milt, Austin, Herbert, Matthew, Khoury, Mary, Yacobson, Eugene, Doran, Patrick J., Ferris, Michael C., O'Hanley, Jesse R., and McIntyre, Peter B.
- Abstract
Structures that block movement of fish through river networks are built to serve a variety of societal needs, including transportation, hydroelectric power, and exclusion of exotic species. Due to their abundance, road crossings and dams reduce the amount of habitat available to fish that migrate from the sea or lakes into rivers to breed. The benefits to fish of removing any particular barrier depends on its location within the river network, its passability to fish, and the relative position of other barriers within the network. Balancing the trade-offs between ecological and societal values makes choosing among potential removal projects difficult. To facilitate prioritization of barrier removals, we developed an online decision support tool (DST) with three functions: (1) view existing barriers at various spatial scales; (2) modify information about barriers, including removal costs; and (3) run optimization models to identify portfolios of removals that provide the greatest amount of habitat access for a given budget. A survey of available DSTs addressing barrier removal prioritization indicates that barrier visualization is becoming widespread but few tools allow dynamic calculation of connectivity metrics, scenario analysis, or optimization. Having these additional functions, our DST enables organizations to develop barrier removal priorities based on cost-effectiveness in restoring aquatic connectivity.
- Published
- 2017
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42. Precision and Bias in Aging Northern Pike: Comparisons among Four Calcified Structures.
- Author
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Oele, Daniel L., Lawson, Zachary J., and McIntyre, Peter B.
- Subjects
TRANSPORTATION statistics ,ATLANTIC salmon ,FISHWAYS ,TELEMETRY - Abstract
Age estimates based on calcified structures are central to the analysis and management of fish populations. A variety of structures have been used in studies of Northern Pike Esox lucius despite limited data on whether the structures provide comparable results. We quantified precision and bias of ages estimated from cleithra, otoliths, anal fin rays, and scales of Northern Pike sampled in tributaries of Green Bay, Lake Michigan. For three independent readers, the precision (CV) of age estimates did not significantly differ among otoliths, cleithra, and anal fin rays but was significantly lower for scales than for the other structures. Similarly, partial agreement among readers was greater than 90% for ages estimated from otoliths, cleithra, and anal fin rays, whereas partial agreement was 76% for scale‐based ages. We discuss the tradeoffs associated with precision and bias for each structure in the context of reader experience, fish age, and management goals. We recommend that when fish mortality is not a concern, otoliths or cleithra should be used to achieve high‐precision aging of Northern Pike. For strictly nonlethal sampling scenarios, the anal fin rays of Northern Pike will yield more precise age estimates than scales. Received January 20, 2015; accepted September 17, 2015 [ABSTRACT FROM AUTHOR]
- Published
- 2015
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43. Trends in the Reproductive Phenology of two Great Lakes Fishes.
- Author
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Lyons, John, Rypel, Andrew L., Rasmussen, Paul W., Burzynski, Thomas E., Eggold, Bradley T., Myers, Jared T., Paoli, Tammie J., and McIntyre, Peter B.
- Abstract
To assess potential effects of climate change on Great Lakes fish populations, we evaluated trends in the reproductive phenology of Yellow Perch Perca flavescens (spring spawner) and Lake Trout Salvelinus namaycush (autumn spawner). For Yellow Perch in Lake Michigan, the estimated reproductive midpoint date (50% of mature females ripe or spent, 50% not yet spawned) took place 6.2 d/decade earlier in the spring near Milwaukee from 1988 to 2012 and 1.8 d/decade earlier in Green Bay from 1980 to 2012. At both locations water temperatures at the spawning sites on the midpoint date showed no trends, but mean water temperatures during the spring at the spawning site and midlake increased over the study period. This suggests that Yellow Perch spawning areas were warming sooner in the spring and that Yellow Perch were spawning earlier to maintain a consistent spawning temperature. Lake Trout phenological patterns were more complex. For Lake Trout in Lake Michigan near Milwaukee, there was a marginally significant trend for spawning to take place 2.1 d/decade later in the autumn from 1983 to 2006. However, water temperatures at the spawning site at the midpoint date did not change and autumn temperatures at the site and at midlake did not show a warming trend. For Lake Trout in Lake Superior near the Apostle Islands, the midpoint date did not change from 1988 to 2012. Water temperatures at the spawning site on the midpoint date and during the autumn also showed no trends, but midlake summer and autumn water temperatures increased significantly. Overall, Yellow Perch in Lake Michigan have shifted reproductive timing in a manner consistent with a warming climate, but the relationship of climate change to reproductive phenology remains unclear for Lake Trout in Lake Michigan and Lake Superior. [ABSTRACT FROM AUTHOR]
- Published
- 2015
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44. Using cultural ecosystem services to inform restoration priorities in the Laurentian Great Lakes.
- Author
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Allan, J David, Smith, Sigrid DP, McIntyre, Peter B, Joseph, Christine A, Dickinson, Caitlin E, Marino, Adrienne L, Biel, Reuben G, Olson, James C, Doran, Patrick J, Rutherford, Edward S, Adkins, Jeffrey E, and Adeyemo, Adesola O
- Subjects
ECOSYSTEM services ,ECOLOGICAL economics ,FISHING ,SOCIAL media - Abstract
Ecological restoration programs often attempt to maintain or enhance ecosystem services (ES), but fine-scale maps of multiple ES are rarely available to support prioritization among potential projects. Here we use agency reports, citizen science, and social media as data sources to quantify the spatial distribution of five recreational elements of cultural ES (CES) - sport fishing, recreational boating, birding, beach use, and park visitation - across North America's Laurentian Great Lakes, where current restoration investments exceed US$1.5 billion. These recreational CES are widely yet unevenly distributed, and spatial correlations among all except park visitation indicate that many locations support multiple CES benefits. Collectively, these five service metrics correlate with tourism gross domestic product, indicating that local economies benefit from ecosystem conditions that support CES. However, locations of high recreational CES delivery are often severely affected by environmental stressors, suggesting that either ecosystem condition or human enjoyment of these recreational CES is resilient even to substantial levels of stress. Our analyses show that spatial assessments of recreational CES are an informative complement to ecosystem stress assessments for guiding large-scale restoration efforts. [ABSTRACT FROM AUTHOR]
- Published
- 2015
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45. Chemical tracking of northern pike migrations: If we restore access to breeding habitat, will they come?
- Author
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Oele, Daniel L., Derek Hogan, J., and McIntyre, Peter B.
- Abstract
Landscape alterations can obstruct movement corridors and degrade spawning habitats for migratory fishes, requiring expensive restoration efforts. To assess use of natural and artificial waterways for spawning migrations, we monitored adult migrations and young-of-year production of northern pike ( Esox lucius ) for two years in six adjacent tributaries of southern Green Bay on Lake Michigan, USA. Field observations were compared with natal origins of young-of-year and adults inferred from otolith microchemistry. Individual tributaries varied widely in their production of young-of-year pike. Microchemical differences were apparent only among tributaries whose watersheds differ in land use, and adult pike showed no evidence of homing even to the same tributary land use class where they were born. Though otolith microchemistry suggests a lack of fidelity to natal streams, carbon stable isotope ratios of adult pike showed a latitudinal gradient across tributaries, suggesting that adult pike do not mix freely outside of the breeding season. Both field observations and microchemical tracing suggest that pike can potentially recolonize historical or newly-created breeding habitats after restoration efforts make them accessible. [ABSTRACT FROM AUTHOR]
- Published
- 2015
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46. Human papillomavirus prevalence to age 60 years among Australian women prevaccination.
- Author
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Brotherton, Julia M. L., Condon, John R., McIntyre, Peter B., Tabrizi, Sepehr N., Malloy, Michael, Garland, Suzanne M., and Whinurs Study Group, On Behalf Of The
- Abstract
Unlabelled: Background The prevalence of human papillomavirus (HPV) at the cervix varies with age, peaking following sexual debut and declining thereafter in most populations. In some populations, a second peak is observed. Here we describe the prevalence of HPV at the cervix among Australian women before the commencement of the HPV vaccination program.Methods: Women aged 15 to 60 years attending health services for cervical screening between 2005 and 2008 were invited to participate. Liquid based cervical specimens were tested for 37 types of HPV using linear array. The percentage and 95% confidence interval of women with any type of HPV, any of 13 high risk HPV types, and with vaccine-preventable HPV types (types 6, 11, 16 and 18) were estimated in 5-year age bands.Results: Among 1929 women aged 15-60 years, HPV prevalence peaked at 64% at age 15-20 years, then declined gradually to 12% at age 41-45 years, whereafter it rose to 19% in women 51-55 years then returned to 14% in 56-60 year olds. Prevalence curves were similar for high-risk HPV types and vaccine-targeted HPV types 6, 11, 16 and 18 and when results were restricted to women with only normal cytology.Conclusions: The shape of the prevalence curve we observed is similar to those from other Western populations. Variation in prevalence curves is likely due to differences in sexual behaviour between populations and over time, reactivation of HPV during perimenopause, and possibly the presence of cervical screening programs. These data are the first such data from the Oceania region. [ABSTRACT FROM AUTHOR]- Published
- 2015
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47. Estimating Vaccine Coverage from Serial Trivariate Serologic Data in the Presence of Waning Immunity.
- Author
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Wood, James G., Goeyvaerts, Nele, MacIntyre, C. Raina, Menzies, Robert I., McIntyre, Peter B., and Hens, Niel
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- 2015
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48. Toluene Dioxygenase-Catalyzed Synthesis and Reactions of cis-Diol Metabolites Derived from 2- and 3-Methoxyphenols.
- Author
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Boyd, Derek R., Sharma, Narain D., Malone, John F., McIntyre, Peter B. A., McRoberts, Colin, Floyd, Stewart, Allen, Christopher C. R., Gohil, Amit, Coles, Simon J., Horton, Peter N., and Stevenson, Paul J.
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- 2015
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49. Rating impacts in a multi-stressor world: a quantitative assessment of 50 stressors affecting the Great Lakes.
- Author
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Smith, Sigrid D. P., McIntyre, Peter B., Halpern, Benjamin S., Cooke, Roger M., Marino, Adrienne L., Boyer, Gregory L., Buchsbaum, Andy, Burton, G. A., Campbell, Linda M., Ciborowski, Jan J. H., Doran, Patrick J., Infante, Dana M., Johnson, Lucinda B., Read, Jennifer G., Rose, Joan B., Rutherford, Edward S., Steinman, Alan D., and Allan, J. David
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ECOLOGICAL risk assessment ,BIOACCUMULATION ,ECOLOGICAL restoration monitoring ,CLIMATE change ,MUSSELS - Abstract
Ecosystems often experience multiple environmental stressors simultaneously that can differ widely in their pathways and strengths of impact. Differences in the relative impact of environmental stressors can guide restoration and management prioritization, but few studies have empirically assessed a comprehensive suite of stressors acting on a given ecosystem. To fill this gap in the Laurentian Great Lakes, where considerable restoration investments are currently underway, we used expert elicitation via a detailed online survey to develop ratings of the relative impacts of 50 potential stressors. Highlighting the multiplicity of stressors in this system, experts assessed all 50 stressors as having some impact on ecosystem condition, but ratings differed greatly among stressors. Individual stressors related to invasive and nuisance species (e.g., dreissenid mussels and ballast invasion risk) and climate change were assessed as having the greatest potential impacts. These results mark a shift away from the longstanding emphasis on nonpoint phosphorus and persistent bioaccumulative toxic substances in the Great Lakes. Differences in impact ratings among lakes and ecosystem zones were weak, and experts exhibited surprisingly high levels of agreement on the relative impacts of most stressors. Our results provide a basin-wide, quantitative summary of expert opinion on the present-day influence of all major Great Lakes stressors. The resulting ratings can facilitate prioritizing stressors to achieve management objectives in a given location, as well as providing a baseline for future stressor impact assessments in the Great Lakes and elsewhere. [ABSTRACT FROM AUTHOR]
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- 2015
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50. Comparison of Visual Survey and Mark–Recapture Population Estimates of a Benthic Fish in Hawaii
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Hain, Ernie F., Lamphere, Bradley A., Blum, Michael J., McIntyre, Peter B., Nelson, Stacy A.C., and Gilliam, James F.
- Abstract
AbstractVisual surveys are conducted to rapidly estimate population densities of stream fishes, often without calibration against more established or more widely used methods to determine precision and accuracy or to correct for potential biases. We compared population density estimates from a visual survey (VS) point quadrat method widely used in Hawaii with estimates from “in hand” individual and batch mark–recapture (BMR) methods. Visual survey sampling and individual mark–recapture (IMR) sampling were conducted in three watersheds that represent gradients of land use and prevalence of nonnative poeciliid fishes on the Island of Hawaii. Focusing on adult O‘opu Nākea Awaous stamineus, VSs were conducted prior to IMR events to allow direct comparisons of results independent of location and time. Density estimates of O‘opu Nākea from VS and IMR samplings were strongly correlated, although VS estimates were generally higher and underrepresented exceptionally large fish. Batch mark–recapture estimates of O‘opu Nākea densities were conducted for comparison with VSs at 13 sites across the archipelago. Estimates of VSs were not significantly different from BMR estimates. Estimates of VSs also exhibited less variance than did BMR estimates across sites. General linear models showed that the relationship between VS and IMR estimates varied significantly among watersheds but not seasons and that land use was associated with a greater mismatch between VS and BMR estimates of population density. These findings indicate that visual surveys using a point quadrat method are an efficient and accurate approach for estimating the abundance of small benthic fishes, such as O‘opu Nākea, in wadeable streams and that obtaining absolute densities or size distributions from VS methods would benefit from a calibration with IMR not BMR estimates.Received July 15, 2015; accepted February 23, 2016 Published online June 29, 2016
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- 2016
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