Hypoxia in the St. Lawrence Estuary: How a Coding Error Led to the Belief that "Physics Controls Spatial Patterns".
Ontology highlight
ABSTRACT:
SUBMITTER: Bourgault D
PROVIDER: S-EPMC4580434 | biostudies-literature | 2015
REPOSITORIES: biostudies-literature
Publications
Hypoxia in the St. Lawrence Estuary: How a Coding Error Led to the Belief that "Physics Controls Spatial Patterns".
Bourgault Daniel D Cyr Frédéric F
PloS one 20150923 9
Two fundamental sign errors were found in a computer code used for studying the oxygen minimum zone (OMZ) and hypoxia in the Estuary and Gulf of St. Lawrence. These errors invalidate the conclusions drawn from the model, and call into question a proposed mechanism for generating OMZ that challenges classical understanding. The study in question is being cited frequently, leading the discipline in the wrong direction. ...[more]
Similar Datasets
Project description:The St. Lawrence hydrographic system includes freshwater, brackish, and marine habitats, and is the largest waterway in North America by volume. The food-webs in these habitats are ultimately dependent on phytoplankton. Viral lysis is believed to be responsible for a major part of phytoplankton mortality. To better understand their role, we characterized the diversity and distribution of two viral taxa infecting phytoplankton: the picornaviruses and phycodnaviruses. Our study focused on the estuary transition zone, which is an important nursery for invertebrates and fishes. Both viral taxa were investigated by PCR amplification of conserved molecular markers and next-generation sequencing at six sites, ranging from freshwater to marine. Our results revealed few shared viral phylotypes between saltwater and freshwater sites. Salinity appeared to be the primary determinant of viral community composition. Moreover, our analysis indicated that the viruses identified in this region of the St. Lawrence diverge from classified viruses and homologous published environmental virotypes. These results suggest that DNA and RNA viruses infecting phytoplankton are likely active in the estuary transition zone, and that this region harbors its own unique viral assemblages.
| S-EPMC6316209 | biostudies-literature
Project description:Sea cucumber Cucumaria frondosa have highly variable whole body mass and length, and are usually sold to Asian markets as dried gutted body wall. Understanding the relation between size and yield of dry product is essential for resource conservation and for economic purposes. In this study, stock-specific mass and length recovery rates were estimated for C. frondosa captured by dredging or diving at various depths and seasons on the South shore of the St. Lawrence Estuary, along Gaspé Peninsula, and processed in a commercial plant. The processing yield in dry product mass per sea cucumber was more than 1.5 times larger for sea cucumbers collected at 26-47 m depth compared to those collected at 9-16 m depth. Within each strata, there was little variation in the processed body mass, seasonally or spatially. Recovery rates based on gutted mass for this stock (13.4─14.5%) varied little among depths and seasons, despite observed seasonal and bathymetric variation in reproductive status. In contrast, recovery rates based on whole body mass and length were highly variable both seasonally and spatially. Stress related to dredging or post-capture handling induced important variable body contraction and water content, leading to variation in body length, mass and shape of sea cucumbers having the same processed body mass. Gutted mass was the best metric to predict processed body mass and to estimate size whereas whole body length was the least reliable. New stock-specific information on variability of body mass, length, and recovery rates induced by capture, and on seasonal and bathymetric variation in reproductive status and processing yields will be used for the design of future stock assessment surveys, and for stock conservation.
| S-EPMC7822298 | biostudies-literature
Project description:The Estuary and Gulf of St. Lawrence (EGSL) in eastern Canada are among the largest and most productive coastal ecosystems in the world. Very little information on bacterial diversity exists, hampering our understanding of the relationships between bacterial community structure and biogeochemical function in the EGSL. During the productive spring period, we investigated free-living and particle-associated bacterial communities across the stratified waters of the Lower St. Lawrence Estuary, including the particle-rich surface and bottom boundary layers. Modelling of community structure based on 16S rRNA gene and transcript diversity identified bacterial assemblages specifically associated with four habitat types defined by water mass (upper water or lower water column) and size fraction (free living or particle associated). Assemblages from the upper waters represent sets of cooccurring bacterial populations that are widely distributed across Lower St. Lawrence Estuary surface waters and likely key contributors to organic matter degradation during the spring. In addition, we provide strong evidence that particles in deep hypoxic waters and the bottom boundary layer support a metabolically active bacterial community that is compositionally distinct from those of surface particles and the free-living communities. Among the distinctive features of the bacterial assemblage associated with lower-water particles was the presence of uncultivated lineages of Deltaproteobacteria, including marine myxobacteria. Overall, these results provide an important ecological framework for further investigations of the biogeochemical contributions of bacterial populations in this important coastal marine ecosystem.IMPORTANCE The Estuary and Gulf of St. Lawrence (EGSL) in eastern Canada is an appealing ecosystem for studying how microbial communities and metabolic processes are related to environmental change. Ocean and climate variability result in large spatiotemporal variations in environmental conditions and oceanographic processes. The EGSL is also exposed to a variety of additional human pressures that threaten its integrity and sustainable use, including shipping, aquiculture, coastal development, and oil exploration. To monitor and perhaps mitigate the impacts of these human activities on the EGSL, a comprehensive understanding of the biological communities is required. In this study, we provide the first comprehensive view of bacterial diversity in the EGSL and describe the distinct bacterial assemblages associated with different environmental habitats. This work therefore provides an important baseline ecological framework for bacterial communities in the EGSL useful for further studies on how these communities may respond to environmental change.
| S-EPMC7380577 | biostudies-literature
Project description:Microbiome of St. Lawrence estuary sediments
| PRJEB28133 | ENA
Project description:St. Lawrence Estuary Beluga skin and water microbiome Raw sequence reads
| PRJNA841747 | ENA
Project description:Background. Despite the abundance and proximity of edible marine resources, coastal communities along the St. Lawrence in Eastern Québec rarely consume these resources. Within a community-based food sovereignty project, Manger notre Saint-Laurent ("Sustenance from our St. Lawrence"), members of participating communities (3 non-Indigenous, 1 Indigenous) identified a need for a web-based decision tool to help make informed consumption choices. Methods. We thus aimed to co-design a prototype website that facilitates informed choices about consuming local edible marine resources based on seasonal and regional availability, food safety, nutrition, and sustainability, with community members, regional stakeholders, and experts in user experience design and web development. We conducted 48 interviews with a variety of people over 3 iterative cycles, assessing the prototype's ease of use with a validated measure, the System Usability Scale. Results. Community members, regional stakeholders, and other experts identified problematic elements in initial versions of the website (e.g., confusing symbols). We resolved issues and added features people identified as useful. Usability scores reached "best imaginable" for both the second and the third versions and did not differ significantly between sociodemographic groups. The final prototype includes a tool to explore each species and index cards to regroup accurate evidence relevant to each species. Conclusions. Engaging co-designers with different sociodemographic characteristics brought together a variety of perspectives. Several components would not have been included without co-designers' input; other components were greatly improved thanks to their feedback. Co-design approaches in research and intervention development are preferable to foster the inclusion of a variety of people. Once the prototype is programmed and available online, we hope to evaluate the website to determine its effects on food choices.
| S-EPMC9036343 | biostudies-literature
Project description:Lethal collisions with ships are limiting the recovery of several at-risk whale species worldwide. In the St. Lawrence Estuary (Quebec, Canada), the endangered blue whale and of special concern fin whale are among the migratory species subject to collisions with large ships. In 2011, a working group composed of representatives from the maritime industry, the government, non-governmental organizations, and academia was created to explore solutions to mitigate ship-whale collisions in the St. Lawrence Estuary. Adopting an adaptive risk management framework, the working group took advantage of the best available scientific data and tools to co-construct realistic collision mitigation options and evaluate their likely benefits for whale conservation and costs for the industry. In 2013, the working group recommended the implementation of voluntary measures to mitigate collision risks, consisting of a slow-down area, a no-go area, and a caution area; a recommended route was added in 2014. Along with the voluntary framework, the working group agreed to continuously monitor compliance with and assess effectiveness of these mitigation measures. After the fourth year of implementation, voluntary measures showed encouraging results, with a reduction of up to 40% of lethal collision risks with fin whales in the highest density area. This reduction in risk is mainly related to ship speed reduction in the slow-down area from 14.1 ± 2.6 knots in 2012 to 11.3 ± 1.7 knots since 2014. The presence of a mandatory pilotage area overlapping with the slow-down area was instrumental to facilitate communication about the mitigation measures, with the pilotage corporation sitting as a regular member of the working group. This resulted in significantly slower speeds in the slow-down area for ships with a pilot from the pilotage corporation onboard compared to those without (-0.8 knots, p-value < 0.001). It is also likely to explain the weaker compliance of the maritime industry with the no-go area located outside of the mandatory pilotage area. Other factors of success include: the continuous dedication of the government to a voluntary and transparent participatory process; the use of available data, tools and institutions; the presence of an environmental certification program representative in the working group; and the adoption by consensus of an adaptive risk management approach. The traditional regulatory approach to conservation is often blamed for its focus on deterring negative behaviors, doing nothing to encourage and reward positive ones. In agreement with other case studies, the benefits of the voluntary measures implemented in the St. Lawrence Estuary include the pro-active commitment from the industry (which is likely to reduce conflicts with regulators), the greater flexibility and freedom that allowed to come up with cost-effective and tailored-made mitigation measures, and the fast achievement of conservation gains. More importantly perhaps, the human and working capital built throughout the concertation process have the potential to be a fundamental cornerstone in dealing with more complex issues such as the chronically increasing level of underwater noise in whale habitats.
| S-EPMC6150506 | biostudies-literature
Project description:The ratio of men and women in the adult population, i.e. sex ratio, has long been recognized as a key demographic constraint for partnering behavior. However, the literature remains contradictory on how sex ratio imbalances influence partnering behavior, suggesting either higher or lower rates of male marriage being associated with male-skewed sex ratios. These contradictory findings are likely due to data limitations. Cross-sectional data or limited observation periods preclude studies from distinguishing sex ratio effects on timing from effects on the overall likelihood of marriage. In this paper, we use historical family reconstitution data to study the association of sex ratios with marriage patterns in the French colony of the St. Lawrence Valley in North America (1680-1750). The population experienced a substantial male-skew from sex-selective immigration during the early period of the colony. The long-running observation period allow for differentiating the timing and overall likelihood of marriage. Finally, the data enable us to study the effects of male-skews on the population-level as well as the regional and parish level. Cox proportional hazard models reveal that while male-skewed sex ratios are associated earlier marriage for women, the association with men's marital biographies is less clear-cut. We find that men marry later when sex ratios are more male-skewed, yet we do not find a substantial reduction in the overall likelihood of marriage for men. Our findings reveal that male-skewed sex ratios do not necessarily result in an increase of never married men. We discuss the implications of our findings for the sex ratio literature.
| S-EPMC9176776 | biostudies-literature
Project description:In an attempt to document the migratory pathways and the environmental conditions encountered by American eels during their oceanic migration to the Sargasso Sea, we tagged eight silver eels with miniature satellite pop-up tags during their migration from the St. Lawrence River in Québec, Canada. Surprisingly, of the seven tags that successfully transmitted archived data, six were ingested by warm-gutted predators, as observed by a sudden increase in water temperature. Gut temperatures were in the range of 20 to 25°C-too cold for marine mammals but within the range of endothermic fish. In order to identify the eel predators, we compared their vertical migratory behavior with those of satellite-tagged porbeagle shark and bluefin tuna, the only endothermic fishes occurring non-marginally in the Gulf of St. Lawrence. We accurately distinguished between tuna and shark by using the behavioral criteria generated by comparing the diving behavior of these two species with those of our unknown predators. Depth profile characteristics of most eel predators more closely resembled those of sharks than those of tuna. During the first days following tagging, all eels remained in surface waters and did not exhibit diel vertical migrations. Three eels were eaten at this time. Two eels exhibited inverse diel vertical migrations (at surface during the day) during several days prior to predation. Four eels were eaten during daytime, whereas the two night-predation events occurred at full moon. Although tagging itself may contribute to increasing the eel's susceptibility to predation, we discuss evidence suggesting that predation of silver-stage American eels by porbeagle sharks may represent a significant source of mortality inside the Gulf of St. Lawrence and raises the possibility that eels may represent a reliable, predictable food resource for porbeagle sharks.
| S-EPMC3474790 | biostudies-literature
Project description:Animal behavioral patterns can help us understand physiological and ecological constraints on animals and its influence on fitness. The surfacing patterns of aquatic air-breathing mammals constitute a behavioral pattern that has evolved as a trade-off between the need to replenish oxygen stores at the surface and the need to conduct other activities underwater. This study aims to better understand the surfacing pattern of a marine top predator, the minke whale (Balaenoptera acutorostrata), by investigating how their dive duration and surfacing pattern changes across their activity range. Activities were classified into resting, traveling, surface feeding and foraging at depth. For each activity, we classified dives into short and long dives and then estimated the temporal dependence between dive types. We found that minke whales modified their surfacing pattern in an activity-specific manner, both by changing the expression of their dives (i.e. density distribution) and the temporal dependence (transition probability) between dive types. As the depth of the prey layer increased between activities, the surfacing pattern of foraging whales became increasingly structured, going from a pattern dominated by long dives, when feeding at the surface, to a pattern where isolated long dives were followed by an increasing number of breaths (i.e. short dives), when the whale was foraging at depth. A similar shift in surfacing pattern occurred when prey handling time (inferred from surface corralling maneuvers) increased for surface feeding whales. The surfacing pattern also differed between feeding and non-feeding whales. Resting whales did not structure their surfacing pattern, while traveling whales did, possibly as a way to minimize cost of transport. Our results also suggest that minke whales might balance their oxygen level over multiple, rather than single, dive cycles.
| S-EPMC4430536 | biostudies-literature