Article
Ecology
Anne Kempel, Eric Allan, Martin M. Gossner, Malte Jochum, James B. Grace, David A. Wardle
Summary: In the absence of disturbance, ecosystems often undergo decline or retrogression, resulting in reductions in primary productivity, plant biomass, nutrient cycling and foliar quality. However, the effects of ecosystem retrogression on higher trophic levels, such as herbivores and predators, are not well understood. This study shows that the availability of nutrients strongly influences invertebrate herbivore biomass when predator abundance is low, but shifts to top-down control when predators are abundant. These findings highlight the importance of considering nutrient-independent variation in predator abundance when studying trophic cascades and herbivore effects on plant communities.
Article
Soil Science
Shelby Rinehart, Dror Hawlena
Summary: This study explores the impact of trophic interactions on biological soil crusts (BSCs) in drylands. Through experiments and field observations, it is found that detritivores and crustivorous snails have both direct and indirect effects on BSC functions, including increasing CO2 respiration and altering nutrient content. These findings provide new insights into the role of macro-invertebrate consumers in regulating BSC function.
SOIL BIOLOGY & BIOCHEMISTRY
(2022)
Article
Ecology
Franz W. Simon, David A. Vasseur
Summary: The study delves into top-down and bottom-up theories of trophic control and predicts community responses in fluctuating environments. It reveals that primary producers and secondary consumers have the highest temporal variability at low frequencies, and variation cascades amplify temporal variation up the food chain at intermediate frequencies.
Article
Biochemistry & Molecular Biology
Hao Jin, Z. Hershel Fishman, Mingyu Ye, Li Wang, Charles S. Zuker
Summary: The study reveals the importance of hardwired circuits in the mammalian brain for sweet and bitter responses, which can affect appetitive and aversive behaviors. The brain modulates taste behaviors by controlling these hardwired circuits, with sweet and bitter signals receiving positive and negative feedback in the neural system.
Article
Agriculture, Dairy & Animal Science
Lin Wang, Hongjun Liu, Francisco Carvalho, Yunru Chen, Linshiyu Lai, Jiachun Ge, Xingjun Tian, Yunchao Luo
Summary: Chinese mitten crab plays a crucial role in the decomposition of organic matter and the microbial community structure in freshwater ecosystems. Its interactions with other species, such as snails, can indirectly affect the decomposition process. This has significant implications for the impacts of invasive species and the stability of freshwater ecosystems.
Article
Ecology
Justin A. Rectenwald, Edwige Bellier, D. Clay Sisson, Theron M. Terhune, James A. Martin
Summary: This study aimed to understand how raptors affect the survival of bobwhites, finding that raptors influence bobwhites in every biological season, especially in the breeding season and late winter. Even in areas with abundant habitat, predators exert top-down influences on vital rates.
Article
Agriculture, Multidisciplinary
Crystal D. Almdal, Alejandro C. Costamagna
Summary: Agricultural intensification has led to the loss of crop and habitat diversity, negatively impacting natural enemy communities and their ability to provide pest control services. Landscape heterogeneity plays a crucial role in pest suppression, with increased crop diversity reducing resource concentration during outbreaks and increased edge density providing top-down control during non-outbreak years.
AGRICULTURE ECOSYSTEMS & ENVIRONMENT
(2023)
Article
Biochemistry & Molecular Biology
Antoine Besnard, Felix Leroy
Summary: This article discusses how cognition regulates motivated behaviors to fulfill physiological, safety, and social needs, focusing on the role of the lateral septum (LS) in integrating perception, experience, and subcortical modulatory inputs. The authors argue that LS sub-circuits regulate distinct motivated behaviors by integrating neural activity from neocortical, allocortical, and neuromodulatory inputs, and propose that lateral inhibition between LS sub-circuits allows the emergence of functional units that coordinate competing motivated behaviors.
MOLECULAR PSYCHIATRY
(2022)
Article
Ecology
Ying Liu, Liang He, Sabine Hilt, Rui Wang, Huan Zhang, Gang Ge
Summary: The study found that invasive herbivorous snails have a strong negative impact on native submerged macrophytes, especially under nutrient-rich conditions. This impact accelerates macrophyte consumption rates, leading to a negative feedback loop and an increased risk of shallow lakes shifting to turbid states.
FRESHWATER BIOLOGY
(2021)
Article
Plant Sciences
Tianyun Li, Zhiwei Zhong, Dean E. Pearson, Yvette K. Ortega, Wenjun Li, Yanan Li, Hui Zhu, Anita C. Risch, Deli Wang
Summary: Parasitic fungi can modify the interactions between hosts and other species, impacting the ecosystem-level effects. In a field experiment in Chinese grasslands, we found that when foliar pathogens were suppressed, cattle grazing reduced the dominant grass biomass, resulting in increased species richness and evenness. However, pathogens disrupted the top-down effects of herbivory by inhibiting grazing effects on plant biomass and species richness. Mechanistically, fungal pathogens were linked to increased alkaloid and reduced nitrogen levels in leaf tissue, deterring cattle grazing on the dominant grass.
Article
Biochemical Research Methods
Wenrong Chen, Elijah N. McCool, Liangliang Sun, Yong Zang, Xia Ning, Xiaowen Liu
Summary: This study systematically evaluated different machine learning models and a transfer learning method for proteoform retention time and migration time prediction, achieving high accuracy in experimental results.
JOURNAL OF PROTEOME RESEARCH
(2022)
News Item
Geosciences, Multidisciplinary
Donna J. Shillington
Summary: Based on an exceptional 3D velocity model of the Nankai subduction zone, the structure of the overriding plate may influence the bending and water ingress into the subducting plate.
Article
Chemistry, Analytical
Kyle A. Brown, Morgan K. Gugger, Zhen Yu, David Moreno, Song Jin, Ying Ge
Summary: Nonionic surfactants are widely used in cell lysis for protein extraction, stabilization, and purification in structural biology. However, they often interfere with electrospray ionization-mass spectrometry (ESI-MS) analysis. In this study, a cleavable nonionic surfactant, n-decyl-disulfide-beta-D-maltoside (DSSM), was developed to overcome this limitation. DSSM is compatible with ESI-MS and reversed-phase liquid chromatography-MS analysis and allows for characterization of membrane proteins and endogenous proteins, making it a potential replacement for the commonly used surfactant DDM in proteomic experiments and structural biology studies.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Analytical
Kyle A. Brown, Morgan K. Gugger, Zhen Yu, David Moreno, Song Jin, Ying Ge
Summary: Nonionic surfactants are commonly used reagents for cell lysis and protein extraction in structural biology. However, their presence often interferes with protein analysis by electrospray ionization-mass spectrometry (ESI-MS). This study introduces a cleavable surfactant, DSSM, which is compatible with ESI-MS analysis and enables top-down proteomics characterization. DSSM can replace DDM in proteomic experiments and structural biology studies.
ANALYTICAL CHEMISTRY
(2023)
Article
Ecology
Kathryn M. Beheshti, Kerstin Wasson, Christine Angelini, Brian R. Silliman, Brent B. Hughes
Summary: Consumers, such as shore crabs, play a crucial role in regulating vegetation and soil structure in salt marsh ecosystems. Studies have shown that top-down control by shore crabs may have significant, yet underappreciated impacts on salt marsh communities in the Western Pacific, Eastern Pacific, and Western Atlantic regions.
Article
Multidisciplinary Sciences
Barry A. Berejikian, Donald M. Van Doornik
Article
Fisheries
Christopher P. Tatara, Donald A. Larsen, Matt R. Cooper, Penny Swanson, Mollie A. Middleton, Jon T. Dickey, Deborah Harstad, Michael Humling, Chris R. Pasley, Barry Berejikian
NORTH AMERICAN JOURNAL OF FISHERIES MANAGEMENT
(2019)
Article
Genetics & Heredity
Mackenzie R. Gavery, Krista M. Nichols, Barry A. Berejikian, Christopher P. Tatara, Giles W. Goetz, Jon T. Dickey, Donald M. Van Doornik, Penny Swanson
Article
Fisheries
Barry A. Berejikian, Christopher P. Tatara, Donald M. Van Doornik, Michael A. Humling, Matt R. Cooper, Chris R. Pasley, Jeffrey J. Atkins
CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES
(2020)
Article
Fisheries
Christopher P. Tatara, Robert C. Endicott, Jeffrey J. Atkins, Barry A. Berejikian
Summary: The study explores the relationship between feeding rate and relative competitive ability of 1-year-old and 2-year-old steelhead in hatchery tanks, finding that ration directly affects feeding rate and that ration and relative competitive ability interact to influence feeding rate. Older steelhead are more likely to be detected at a single feeding location, while younger fish are more likely to be detected at both locations.
NORTH AMERICAN JOURNAL OF AQUACULTURE
(2021)
Article
Fisheries
Noelle Yochum, Michael Stone, Karsten Breddermann, Barry A. Berejikian, John R. Gauvin, David J. Irvine
Summary: The development of a 360open area excluder has significantly increased salmon escapement rates in pelagic trawl fisheries, although more comprehensive testing is needed. Video footage revealed that salmon mainly escaped during haulback and turns, emphasizing the importance of providing an open path during these periods.
FISHERIES RESEARCH
(2021)
Article
Ecology
Megan E. Moore, Barry A. Berejikian, Correigh M. Greene, Stuart Munsch
Summary: Steelhead Oncorhynchus mykiss smolts face multiple survival threats during their migration from freshwater to the ocean, with predation by harbor seals being a significant factor. Increases in Puget Sound water temperature and the Northeast Pacific marine heat wave led to higher smolt survival probabilities, while ecological changes in the system also influenced smolt survival rates.
MARINE ECOLOGY PROGRESS SERIES
(2021)
Article
Fisheries
Jonathan S. F. Lee, Melissa L. Pierce, Rachel S. Poretsky, Matthew A. Cook, Barry A. Berejikian, Frederick W. Goetz
Summary: Claywater can effectively substitute for algae as a turbidity agent in the feeding of larval sablefish, reducing costs and improving growth. Both gradual and sudden transitions from greenwater to claywater had different impacts on feeding rates and body weights, but resulted in higher body weight and biomass by the end of the larval period. Transitioning at day 8 minimized algae costs, while transitioning at day 18 maximized biomass, offering potential benefits for sablefish aquaculture.
Article
Multidisciplinary Sciences
Thomas A. Jefferson, Mari A. Smultea, Eric J. Ward, Barry Berejikian
Summary: Harbor seal populations in inland waters of Washington, which were previously reduced due to predator control programs, have rebounded since protection measures were put in place in the 1970s. A study using aerial line-transect surveys and tagging data estimated the current abundance of three management stocks, presenting a non-traditional approach that could be applicable to estimating populations of other species with available survey and tagging data.
Article
Fisheries
Jonathan S. F. Lee, Melissa L. Pierce, Matthew A. Cook, Barry A. Berejikian, Frederick W. Goetz, Rachel S. Poretsky
Summary: The larval period in marine fish aquaculture is labor-intensive and high-mortality due to the need for good water quality. Three tank cleaning methods were compared, showing that low cleaning frequencies do not have negative effects on larvae, making it a cost-effective option for reducing labor costs.
Article
Ecology
Megan E. Moore, Barry A. Berejikian
Summary: Coastal infrastructure disruptions can significantly affect the movements and survival of migratory species in marine habitats. A study on steelhead smolts showed that the Hood Canal Bridge had a considerable impact on their survival, influenced by the week of bridge encounter. The behavior of the smolts and their predators at the bridge was also examined, providing valuable information for recovery actions.
Review
Fisheries
Jonathan S. F. Lee, Matthew A. Cook, J. Adam Luckenbach, Barry A. Berejikian, Crystal A. Simchick, Sean M. Oden, Frederick W. Goetz
Article
Fisheries
Jonathan S. F. Lee, Lyle L. Britt, Matthew A. Cook, Thomas H. Wade, Barry A. Berejikian, Frederick W. Goetz
AQUACULTURE RESEARCH
(2017)
Article
Fisheries
Barry A. Berejikian, Jeffrey J. Hard, Christopher P. Tatara, Donald M. Van Doornik, Penny Swanson, Donald A. Larsen
CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES
(2017)
Article
Fisheries
Jonathan S. F. Lee, Matthew A. Cook, Barry A. Berejikian, Frederick W. Goetz
