Article
Immunology
Laura Temime, Marie-Paule Gustin, Audrey Duval, Niccolo Buetti, Pascal Crepey, Didier Guillemot, Rodolphe Thiebaut, Philippe Vanhems, Jean-Ralph Zahar, David R. M. Smith, Lulla Opatowski
Summary: Estimates of R-0 for SARS-CoV-2 in healthcare settings cannot be directly translated from community data, with implications for controlling nosocomial COVID-19.
CLINICAL INFECTIOUS DISEASES
(2021)
Article
Environmental Sciences
Kaili M. Gregory, Katherine McFarland, Matthew P. Hare
Summary: Low salinity has negative effects on reproduction in estuarine bivalves. It delays gametogenesis and spawning in oysters, except in June when low salinity promotes earlier gametogenesis. The findings suggest that low salinity not only affects the timing of reproduction but also extends the reproductive season.
ESTUARIES AND COASTS
(2023)
Article
Immunology
Zhong Zhang, Yang Liu, Fengfeng Liu, Minrui Ren, Taoran Nie, Jinzhao Cui, Zhaorui Chang, Zhongjie Li
Summary: This study analyzed laboratory-confirmed HFMD outbreaks in mainland China between 2011 to 2018 and found that EV-A71, CV-A16, and CV-A6 are the three most common serotypes causing HFMD, with strong transmission among children.
CLINICAL INFECTIOUS DISEASES
(2021)
Article
Fisheries
Jiaji Pan, Wei Qin, Zhongxiang Chen, Jun Xiao, Haiyan Chang, Ke He, Hao Feng
Summary: This study investigated the transmission mechanism of the spring viremia of carp virus (SVCV) among freshwater fish populations by introducing infected zebrafish. A SEIR compartment mathematical model was established to quantitatively characterize the propagation of SVCV. It was found that lower temperatures and reduced culturing density could effectively slow down the transmission of the virus, providing effective containment strategies and optimizing culturing conditions.
Article
Fisheries
Mary E. Sullivan, Dina A. Proestou
Summary: The parasite Perkinsus marinus causes Dermo disease in Eastern oysters, affecting their survival and causing significant losses in aquaculture. The method of parasite exposure and severity of infection influence the host's response, with differences observed in gene expression patterns between oysters exposed to the parasite via suspension feeding or direct injection. Studies show that dosing method impacts initial parasite load, survival, and transcriptomic response to Dermo disease, emphasizing the importance of considering exposure method in interpreting interactions between P. marinus and Eastern oysters.
Article
Public, Environmental & Occupational Health
Virginia E. Pitzer, Melanie Chitwood, Joshua Havumaki, Nicolas A. Menzies, Stephanie Perniciaro, Joshua L. Warren, Daniel M. Weinberger, Ted Cohen
Summary: This study investigated the impact of diagnostic testing and reporting changes on estimates of the reproductive number of COVID-19, finding that changes in testing practices and reporting delays can result in biased estimates. Monitoring changes in testing practices and considering diagnostic testing and reporting processes are necessary for interpreting estimates of COVID-19's reproductive number.
AMERICAN JOURNAL OF EPIDEMIOLOGY
(2021)
Review
Public, Environmental & Occupational Health
Jonathan P. Smith, Ted Cohen, David Dowdy, Sourya Shrestha, Neel R. Gandhi, Andrew N. Hill
Summary: This study systematically investigates the impact of individual heterogeneity on tuberculosis transmission and finds that a minority of cases drive the majority of ongoing transmission. By analyzing 9 studies from 8 global settings, it is observed that tuberculosis transmission is declining but individual-level heterogeneity exists in all settings. Identifying and accounting for the sources of heterogeneity can greatly contribute to mitigating tuberculosis transmission.
AMERICAN JOURNAL OF EPIDEMIOLOGY
(2023)
Article
Fisheries
D. Ammons, D. Gonzalez, M. T. Lu, J. Rampersad
Summary: The prevalence and intensity of dermo Perkinsus marinus were examined in the high salinity waters of South Texas' lower Laguna Madre. Environmental differences were found to influence the infection of P. marinus in the area. Despite warm, high-salinity waters being ideal for dermo infection, the number and intensity of infections were low, which suggests that dermo may not pose a significant threat to commercial oyster culture in the region.
NORTH AMERICAN JOURNAL OF AQUACULTURE
(2023)
Article
Virology
Abhishek Mallela, Jacob Neumann, Ely F. Miller, Ye Chen, Richard G. Posner, Yen Ting Lin, William S. Hlavacek
Summary: Although many individuals in the US have acquired immunity against COVID-19, the ongoing transmission of the disease poses a threat to those who are not immune. By calculating the population-specific basic reproduction number R0, which represents the expected number of secondary cases generated by an infected person in the absence of interventions, we can estimate when sustained disease transmission will end. Our state-level R0 estimates obtained using Bayesian inference show significant variations in disease transmission across states, making it more challenging to achieve herd immunity in certain states. Based on adjusted herd immunity thresholds, vaccination data, and seroprevalence survey data, no state had achieved herd immunity as of September 20, 2021.
Article
Infectious Diseases
Ayesha S. Mahmud, Iqbal Kabir, Kenth Engo-Monsen, Sania Tahmina, Baizid Khoorshid Riaz, Akram Hossain, Fahmida Khanom, Mujibor Rahman, Khalilur Rahman, Mehruba Sharmin, Dewan Mashrur Hossain, Shakila Yasmin, Mokhtar Ahmed, Mirza Afreen Fatima Lusha, Caroline O. Buckee
Summary: The study describes the epidemiology of the 2017 chikungunya outbreak in Dhaka, Bangladesh, and uses household survey and mobile phone data analysis to show that population mobility plays an important role in disease transmission, with travel during holidays potentially spreading the infection nationally. Results highlight the impact of large-scale population movements, especially during holidays, on the spread of infectious diseases.
PLOS NEGLECTED TROPICAL DISEASES
(2021)
Article
Public, Environmental & Occupational Health
Honglv Xu, Yi Zhang, Min Yuan, Liya Ma, Meng Liu, Hong Gan, Wenwen Liu, Gillian Gianna Anne Lum, Fangbiao Tao
Summary: The study analyzed the latent class of basic reproduction number trends of COVID-19 in major endemic areas of China. Results showed that the overall R-0 trend decreased with the strengthening of comprehensive prevention and control measures in China for COVID-19, with regional differences.
FRONTIERS IN PUBLIC HEALTH
(2021)
Article
Public, Environmental & Occupational Health
Xueli Wei, Liying Wang, Qiaojuan Jia, Jianpeng Xiao, Guanghu Zhu
Summary: This study evaluates the effectiveness of various intervention measures against avian influenza A(H7N9) infection using an epidemiological model. Results show that reducing poultry-human/poultry interaction and culling domestic poultry are highly effective in diminishing infections, while vaccination of a certain proportion of poultry is essential for disease prevention. Cleaning and disinfecting the environment have limited impact on reducing infection risk. Importantly, screening imported poultry is crucial for stopping disease diffusion.
Article
Biology
Andrew F. Brouwer
Summary: The article explains the importance of the basic reproduction number in mathematical epidemiology and infectious disease modeling, as well as how to calculate and interpret it. By connecting the discrete next generation process and using linear algebra, a geometric explanation is provided for why the basic reproduction number is an epidemic threshold.
BULLETIN OF MATHEMATICAL BIOLOGY
(2022)
Article
Materials Science, Multidisciplinary
Samuel Benkimoun, Celestine Atyame, Marion Haramboure, Pascal Degenne, Helene Thebault, Jean-Sebastien Dehecq, Annelise Tran
Summary: This study developed a method to estimate the spatial distribution of the basic reproduction number (R-0) for dengue transmission risk on Reunion Island using a mosquito population dynamics model and differential equations. The results showed strong agreements between predicted R-0 distribution and temporal dynamics with observed epidemiological patterns, highlighting the relevance of this spatialised R-0 for dengue surveillance and control.
RESULTS IN PHYSICS
(2021)
Article
Plant Sciences
Ying Wang, Shujing Gao, Yujiang Liu, Huaiping Zhu
Summary: This study investigates the impact of A. conyzoides on the transmission of Huanglongbing, as well as the factors of vector preferences and pesticide application. The results show that the recruitment rate of A. conyzoides and vector bias can affect the spread of Huanglongbing.
Article
Fisheries
Brendan J. Runde, Jeffrey A. Buckel, Nathan M. Bacheler, Ryan M. Tharp, Paul J. Rudershausen, Craig A. Harms, Tal Ben-Horin
Summary: External attachment of electronic tags is increasingly used in fish studies. This study compared six previously published methods for attaching acoustic transmitters to fish. The results showed that a simple attachment method using a spaghetti tag passed through the fish's dorsal musculature and tied to the transmitter's end cap was the preferred option based on high retention, no impact on growth, and relatively low detriment to fish welfare. Future field studies should consider tag-related effects when selecting a method for tag attachment.
JOURNAL OF FISH BIOLOGY
(2022)
Article
Environmental Sciences
Emilien Pousse, Daphne Munroe, Deborah Hart, Daniel Hennen, Louise P. Cameron, Jennie E. Rheuban, Zhaohui Aleck Wang, Gary H. Wikfors, Shannon L. Meseck
Summary: A dynamic energy budget model was used to study the effects of ocean acidification on Atlantic surfclam bioenergetics. The simulation results showed that future warming and acidification conditions would result in faster growth and increased energy allocation for reproduction in young surfclams, but a reduction in maximum shell length and energy allocated to reproduction was observed by the beginning of the 22nd century according to the RCP 8.5 scenario.
MARINE ENVIRONMENTAL RESEARCH
(2022)
Article
Fisheries
Andrew M. Scheld, Jennifer Beckensteiner, Daphne M. Munroe, Eric N. Powell, Sarah Borsetti, Eileen E. Hofmann, John M. Klinck
Summary: This study applied an existing integrated bioeconomic model to evaluate the potential economic effects of offshore wind development on the Atlantic surfclam fishery. By simulating fishing activity and economic outcomes under different offshore wind energy development scenarios, the study found that spatial restrictions and changes in fishing effort distribution would decrease revenues for fishing vessels and processors and increase fishing costs.
ICES JOURNAL OF MARINE SCIENCE
(2022)
Article
Fisheries
Daphne M. Munroe, Eric N. Powell, John M. Klinck, Andrew M. Scheld, Sarah Borsetti, Jennifer Beckensteiner, Eileen E. Hofmann
Summary: This study successfully simulated the dynamics of the Atlantic surfclam fishery using a spatially explicit ecological-economic agent-based model. The simulations showed that the captain's decision-making and knowledge, as well as the distribution of fishing grounds, have a significant impact on the landed catch. This model provides a framework for studying other resources facing similar pressures.
ICES JOURNAL OF MARINE SCIENCE
(2022)
Article
Fisheries
Daphne Munroe, Jason Morson, Sarah Borsetti, Daniel Hennen
Summary: Atlantic surfclams and ocean quahogs are large-bodied clams that dominate the biomass on the Mid-Atlantic continental shelf. However, their numerical abundance is not dominant in the benthic community and they tend to be patchily distributed. Estimating overall abundance and biomass is challenging due to the unique characteristics of individual clams and their distribution habits. Proper sampling and survey strategies are crucial to prevent undersampling and bias. Moreover, consistent sample collection methods are essential to compare data across multiple surveys, improving regional assessments of population status and changes. This paper provides recommendations to enhance the quality of surveys and facilitate direct comparison of data among different surveys and teams.
FISHERIES RESEARCH
(2023)
Article
Biotechnology & Applied Microbiology
Ximing Guo, Jonathan B. Puritz, Zhenwei Wang, Dina Proestou, Standish Allen, Jessica Small, Klara Verbyla, Honggang Zhao, Jaime Haggard, Noah Chriss, Dan Zeng, Kathryn Lundgren, Bassem Allam, David Bushek, Marta Gomez-Chiarri, Matthew Hare, Christopher Hollenbeck, Jerome La Peyre, Ming Liu, Katie E. Lotterhos, Louis Plough, Paul Rawson, Scott Rikard, Eric Saillant, Robin Varney, Gary Wikfors, Ami Wilbur
Summary: The Eastern Oyster Breeding Consortium has developed two SNP arrays for the eastern oyster, enabling efficient genotyping and selection. These arrays provide easy identification and separation of selected stocks and can also be used for pedigree monitoring, assessment of oyster restoration success, and genetic improvement. The arrays will advance genomic research and accelerate the breeding of eastern oysters.
MARINE BIOTECHNOLOGY
(2023)
Article
Ecology
Joseph C. Caracappa, Daphne M. Munroe, Heidi L. Fuchs, Robert J. Chant
Summary: Blue crabs (Callinectes sapidus) in the US mid-Atlantic Bight have unpredictable and variable recruitment, so understanding their larval development and dispersal is important. This study used a simulation model to investigate the effects of swimming behavior, current systems, and mixing on larval transport. Results showed that larval transport is mainly influenced by wind speed, but behavioral traits also play a significant role. Swimming larvae can maintain a near-surface position and have more control over their vertical distribution compared to passive particles. These findings highlight the importance of larval swimming ability and behavioral variability in blue crab larval dispersal.
ECOLOGICAL MODELLING
(2023)
Article
Environmental Sciences
Xiaolong Yang, Xiumei Zhang, Peidong Zhang, Gorka Bidegain, Jianyu Dong, Chengye Hu, Min Li, Zhixin Zhang, Hao Guo
Summary: By developing an ensemble habitat model (EHM), we addressed the large-scale decline of eelgrass meadows in Shandong province and generated a high-resolution habitat suitability map to inform conservation and restoration strategies.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2023)
Article
Fisheries
Emily C. Manuel, Matthew P. Hare, Daphne Munroe
Summary: Estuaries provide important habitat for eastern oysters, with varying salinity conditions affecting oyster growth. Experiment 1 found that transplantation to higher salinity led to increased growth, while oyster spat from the lowest salinity had the highest overall growth. Shell morphology did not affect growth. Experiment 2 showed that higher initial salinity and lower final salinity led to increased growth, highlighting the importance of early postsettlement salinity stress on oyster growth. These findings have significant implications for understanding oyster stock resilience in the face of climate change.
JOURNAL OF SHELLFISH RESEARCH
(2023)
Article
Multidisciplinary Sciences
Soenke Dangendorf, Noah Hendricks, Qiang Sun, John Klinck, Tal Ezer, Thomas Frederikse, Francisco M. Calafat, Thomas Wahl, Torbjoern E. Toernqvist
Summary: A study finds that global mean sea level has been accelerating since the 1960s, but detecting this locally is difficult due to natural variability. However, tide gauge records along the U.S. Southeast and Gulf coasts show unprecedented rates of sea level rise (>10 mm yr(-1) since 2010). The acceleration is primarily induced by an ocean dynamic signal exceeding the externally forced response, and is compounded by wind driven Rossby waves.
NATURE COMMUNICATIONS
(2023)
Article
Fisheries
Stephanie Stromp, Andrew M. Scheld, John M. Klinck, Daphne M. Munroe, Eric N. Powell, Roger Mann, Sarah Borsetti, Eileen E. Hofmann
Summary: Rising water temperatures have caused the Atlantic surfclam to shift its range to areas where ocean quahogs are already present, resulting in restrictions on fishing activities and potential economic disruption. Wind energy development further limits the fishery, and simulations demonstrate the consequences of species overlap and fishing constraints. The study highlights the challenges faced by the Atlantic surfclam fishery as climate change and ocean management evolve.
MARINE AND COASTAL FISHERIES
(2023)
Article
Fisheries
Sarah Borsetti, Daphne M. Munroe, Andrew M. Scheld, Eric N. Powell, John M. Klinck, Eileen E. Hofmann
Summary: The Atlantic surfclam fishery in the U.S. Northeast continental shelf is highly vulnerable to the impacts of offshore wind energy development due to overlapping fishing grounds and wind energy lease areas. The installation of wind energy turbines and cables can restrict or eliminate federal assessment surveys, leading to changes in stock assessments and increased uncertainty in setting fishing quotas. A modeling framework was used to assess the impact of excluding the surveys from wind energy lease areas, which resulted in lower spawning stock biomass estimates and increased fishing mortality.
MARINE AND COASTAL FISHERIES
(2023)
Article
Microbiology
Iker Fernandez-Velez, Gorka Bidegain, Tal Ben-Horin
Summary: Temperature is a critical factor for the growth of Vibrio parahaemolyticus in oysters, with higher temperatures favoring rapid growth and increasing the risk of gastroenteritis in humans. A continuous time model was developed to predict the pathogen growth in oysters under varying ambient temperature. The model showed promise in understanding the V. parahaemolyticus-oyster system and assessing the public health impact of raw oyster consumption.
Article
Computer Science, Software Engineering
Gorka Bidegain, Tal Ben-Horin, Eric N. Powell, John M. Klinck, Eileen E. Hofmann
Summary: MarineEpi is a Matlab toolbox that allows users to construct disease transmission models for marine host-pathogen systems, run simulations, and interpret population dynamics. It is a valuable tool for disease researchers and can be used for teaching marine disease processes.
Article
Fisheries
Miguel Petrere Jr, Davi Butturi-Gomes
Summary: This short communication aims to raise awareness about the misuse of confidence intervals in Ecology and Fisheries statistical models that ignore the lack of independence.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Peter-John F. Hulson, Benjamin C. Williams
Summary: This study evaluates the impact of considering ageing error and growth variability on the determination of input sample size (ISS) in statistical catch-at-age assessment models. The results show that including these sources of uncertainty decreases the ISS determined through bootstrap methods. This indicates that there is more variability in age composition and conditional age-at-length data than previously accounted for. Including these sources of uncertainty improves the estimation of ISS and subsequently improves the quality of stock assessment models.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Jason M. Cope
Summary: Fishery resource assessment is a complex and challenging task, but with the use of different analysis methods and tools, effective management guidance can be provided even with limited data and resources.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Regina L. Cunha, Joana I. Robalo, Sara M. Francisco, Ines Farias, Rita Castilho, Ivone Figueiredo
Summary: Recent advances in genomics have greatly contributed to the assessment of fish stocks by providing precise identification of genetic boundaries. This study used a genotyping-by-sequencing approach to reveal the existence of an additional genetic cluster of blackspot seabream in the northeast Atlantic, which was not previously identified. Factors such as ocean circulation patterns and local upwelling may play a role in the genetic differentiation observed in this study.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Huihua Lee, Mark N. Maunder, Kevin R. Piner
Summary: Estimating growth is important for fish population assessment. Integrated assessment models and the influence of misfitting size composition data have renewed interest in how growth is modeled. The available data types control how the length-at-age relationship is estimated. Estimating length-at-age is complex due to multiple sources of biological variability and difficulties in obtaining representative samples.
FISHERIES RESEARCH
(2024)
Article
Fisheries
A. Ladino, I. Perez-Arjona, V. Espinosa, M. Chillaron, V. Vidal, L. M. Godinho, G. Moreno, G. Boyra
Summary: This study examines the acoustic properties of skipjack tuna and Atlantic mackerel, both bladderless pelagic fish species, and explains the significant differences observed. The research shows that the differences in material properties of their tissues predict a more than 10 dB greater reduced target strength in skipjack compared to mackerel at certain frequencies.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Nelly Pena-Cutimbo, Cristel Cordero-Maldonado, Clara Ortiz-Alvarez, Joanna Alfaro-Shigueto, Jeffrey C. Mangel
Summary: Bycatch is a global problem for marine megafauna. This study assessed the bycatch interactions of the Peruvian artisanal purse-seine fishery in 2019 and found that all taxa groups were affected by bycatch. Dusky dolphins, guanay cormorants, and eagle rays were the most frequently reported bycatch species.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Jen-Ming Liu, Po-Yuk So
Summary: The set-net fishery is an environmentally friendly fishery posing little risk to the marine ecosystem. This study identified ocean temperature, sea surface factors, and climatic factors as the main factors affecting the installation of set-nets.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Josie L. Palmer, Carina Armstrong, Hasan D. Akbora, Damla Beton, Cigdem Caglar, Brendan J. Godley, Kristian Metcalfe, Meryem Ozkan, Robin T. E. Snape, Annette C. Broderick
Summary: Small-scale fisheries are vital for global food security and cultural heritage, but the lack of information hampers effective management and mitigation of ecological impacts. This study provides the first comprehensive overview of the small-scale fishery fleet in Northern Cyprus. The fleet operates mainly over the continental shelf, using static and demersal gear types, and catches a diverse range of species, some of which are threatened. The findings can be used to improve fisheries management and conservation measures.
FISHERIES RESEARCH
(2024)