scholarly journals Physiological and gene transcription assays to assess responses of mussels to environmental changes

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e7800 ◽  
Author(s):  
Katrina L. Counihan ◽  
Lizabeth Bowen ◽  
Brenda Ballachey ◽  
Heather Coletti ◽  
Tuula Hollmen ◽  
...  
Keyword(s):  
National Parks ◽  
Gene Transcription ◽  
Ecosystem Health ◽  
Large Scale ◽  
Environmental Changes ◽  
Mytilus Trossulus ◽  
Reference Ranges ◽  
Remote Areas ◽  
Future Assessment ◽  
South Central

Coastal regions worldwide face increasing management concerns due to natural and anthropogenic forces that have the potential to significantly degrade nearshore marine resources. The goal of our study was to develop and test a monitoring strategy for nearshore marine ecosystems in remote areas that are not readily accessible for sampling. Mussel species have been used extensively to assess ecosystem vulnerability to multiple, interacting stressors. We sampled bay mussels (Mytilus trossulus) in 2015 and 2016 from six intertidal sites in Lake Clark and Katmai National Parks and Preserves, in south-central Alaska. Reference ranges for physiological assays and gene transcription were determined for use in future assessment efforts. Both techniques identified differences among sites, suggesting influences of both large-scale and local environmental factors and underscoring the value of this combined approach to ecosystem health monitoring.

scholarly journals Monitoring nearshore ecosystem health using Pacific razor clams (Siliqua patula) as an indicator species

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e8761
Author(s):  
Lizabeth Bowen ◽  
Katrina L. Counihan ◽  
Brenda Ballachey ◽  
Heather Coletti ◽  
Tuula Hollmen ◽  
...  
Keyword(s):  
National Parks ◽  
Gene Transcription ◽  
Ecosystem Health ◽  
Large Scale ◽  
Reference Ranges ◽  
Ecosystem Monitoring ◽  
Razor Clam ◽  
The Pacific ◽  
Razor Clams ◽  
Transcription Assays

An emerging approach to ecosystem monitoring involves the use of physiological biomarker analyses in combination with gene transcription assays. For the first time, we employed these tools to evaluate the Pacific razor clam (Siliqua patula), which is important both economically and ecologically, as a bioindicator species in the northeast Pacific. Our objectives were to (1) develop biomarker and gene transcription assays with which to monitor the health of the Pacific razor clam, (2) acquire baseline biomarker and gene transcription reference ranges for razor clams, (3) assess the relationship between physiological and gene transcription assays and (4) determine if site-level differences were present. Pacific razor clams were collected in July 2015 and 2016 at three sites within each of two national parks in southcentral Alaska. In addition to determining reference ranges, we found differences in biomarker assay and gene transcription results between parks and sites which indicate variation in both large-scale and local environmental conditions. Our intent is to employ these methods to evaluate Pacific razor clams as a bioindicator of nearshore ecosystem health. Links between the results of the biomarker and gene transcription assays were observed that support the applicability of both assays in ecosystem monitoring. However, we recognize the need for controlled studies to examine the range of responses in physiology and gene transcripts to different stressors.

scholarly journals Impact of the municipal merger on watershed management: a study of Lake Kasumigaura, Japan

2021 ◽  
Author(s):  
Takeshi Mizunoya ◽  
Noriko Nozaki ◽  
Rajeev Kumar Singh
Keyword(s):  
Watershed Management ◽  
Large Scale ◽  
Environmental Changes ◽  
Water Environment ◽  
Reduction Rate ◽  
Oxygen Demand ◽  
Policy Implications ◽  
Pollution Reduction ◽  
Lake Kasumigaura ◽  
The Impact

AbstractIn the early 2000s, Japan instituted the Great Heisei Consolidation, a national strategy to promote large-scale municipal mergers. This study analyzes the impact that this strategy could have on watershed management. We select the Lake Kasumigaura Basin, the second largest lake in Japan, for the case study and construct a dynamic expanded input–output model to simulate the ecological system around the Lake, the socio-environmental changes over the period, and their mutual dependency for the period 2012–2020. In the model, we regulate and control the following water pollutants: total nitrogen, total phosphorus, and chemical oxygen demand. The results show that a trade-off between economic activity and the environment can be avoided within a specific range of pollution reduction, given that the prefectural government implements optimal water environment policies, assuming that other factors constraining economic growth exist. Additionally, municipal mergers are found to significantly reduce the budget required to improve the water environment, but merger budget efficiency varies nonlinearly with the reduction rate. Furthermore, despite the increase in financial efficiency from the merger, the efficiency of installing domestic wastewater treatment systems decreases drastically beyond a certain pollution reduction level and eventually reaches a limit. Further reductions require direct regulatory instruments in addition to economic policies, along with limiting the output of each industry. Most studies on municipal mergers apply a political, administrative, or financial perspective; few evaluate the quantitative impact of municipal mergers on the environment and environmental policy implications. This study addresses these gaps.

scholarly journals Variability in larval gut pH regulation defines sensitivity to ocean acidification in six species of the Ambulacraria superphylum

2017 ◽  
Vol 284 (1864) ◽  
pp. 20171066 ◽  
Author(s):  
Marian Hu ◽  
Yung-Che Tseng ◽  
Yi-Hsien Su ◽  
Etienne Lein ◽  
Hae-Gyeong Lee ◽  
...  
Keyword(s):  
Ocean Acidification ◽  
Large Scale ◽  
Environmental Changes ◽  
Ph Regulation ◽  
Gastric Ph ◽  
Differential Sensitivity ◽  
Larval Stages ◽  
Regulatory Systems ◽  
Alkaline Conditions ◽  
Gut Ph

The unusual rate and extent of environmental changes due to human activities may exceed the capacity of marine organisms to deal with this phenomenon. The identification of physiological systems that set the tolerance limits and their potential for phenotypic buffering in the most vulnerable ontogenetic stages become increasingly important to make large-scale projections. Here, we demonstrate that the differential sensitivity of non-calcifying Ambulacraria (echinoderms and hemichordates) larvae towards simulated ocean acidification is dictated by the physiology of their digestive systems. Gastric pH regulation upon experimental ocean acidification was compared in six species of the superphylum Ambulacraria. We observed a strong correlation between sensitivity to ocean acidification and the ability to regulate gut pH. Surprisingly, species with tightly regulated gastric pH were more sensitive to ocean acidification. This study provides evidence that strict maintenance of highly alkaline conditions in the larval gut of Ambulacraria early life stages may dictate their sensitivity to decreases in seawater pH. These findings highlight the importance of identifying and understanding pH regulatory systems in marine larval stages that may contribute to substantial energetic challenges under near-future ocean acidification scenarios.

Changes of South‐Central Pacific Large‐Scale Environment Associated With Hydrometeors‐Radiation‐Circulation Interactions in a Coupled GCM

2021 ◽  
Vol 126 (17) ◽  
Author(s):  
J.‐L. F. Li ◽  
Kuan‐Man Xu ◽  
Wei‐Liang Lee ◽  
J. H. Jiang ◽  
Eric Fetzer ◽  
...  
Keyword(s):  
Large Scale ◽  
Central Pacific ◽  
Coupled Gcm ◽  
South Central

scholarly journals Assessing the Vulnerability of Marine Fisheries in China: Towards an Inter-Provincial Perspective

2018 ◽  
Vol 10 (11) ◽  
pp. 4302 ◽  
Author(s):  
Qi Chen ◽  
Weiteng Shen ◽  
Bing Yu
Keyword(s):  
Climate Change ◽  
Adaptive Capacity ◽  
Fisheries Management ◽  
Vocational Training ◽  
Large Scale ◽  
Environmental Changes ◽  
Marine Pollution ◽  
Marine Fisheries ◽  
Intergovernmental Panel ◽  
Adaptation Measures

China’s marine fisheries are undergoing large-scale environmental changes associated with climate change, marine pollution, and overfishing. The assessment of marine fisheries vulnerability has become extremely necessary for fisheries management and sustainable development. However, studies on China’s marine fisheries vulnerability remains sparse. This study aimed to provide an analysis of the inter-provincial level vulnerability of China’s marine fisheries under multiple disturbances. The vulnerability measure was composed of exposure, sensitivity, and adaptive capacity indicators specific to marine fisheries based on the Intergovernmental Panel on Climate Change (IPCC) definitions. Results showed that Liaoning, Hebei, Fujian, and Hainan provinces appeared to be the most vulnerable; Shanghai appeared to be less vulnerable among China’s 11 coastal provinces; and the key sources of vulnerability differed considerably among coastal regions. The high vulnerability regions could be divided into two different patterns according to the combination of exposure, sensitivity, and adaptive capacity, but they all had one thing in common: relatively low adaptive capacity. While some existing coercive measures to reduce dependence on fisheries were found to be helpful in China, the reality showed that appropriate adaptation measures such as improving fishermen’s education level and increasing vocational training may be helpful in enhancing the existing policy effectiveness.

scholarly journals Methods of Landscape Valorization and Possibilities of Its Application in Hunting Area Categorisation

2020 ◽  
Author(s):  
Szewczyk Grzegorz ◽  
Krzysztof Lipka ◽  
Piotr Wężyk ◽  
Karolina Zięba-Kulawik ◽  
Monika Winczek
Keyword(s):  
Natural Environment ◽  
Functional Role ◽  
Large Scale ◽  
Forest Cover ◽  
Agricultural Landscape ◽  
Environmental Changes ◽  
Environmental Values ◽  
Small Game ◽  
Forest Habitats

As a result of environmental changes, assessment indexes for the agricultural landscape have been changing dramatically. Being at the interface of human activity and the natural environment, hunting is particularly sensitive to environmental changes, such as increasing deforestation or large-scale farming. The classical categorisation of hunting grounds takes into account the area, forest cover, number of forest complexes, fertility of forest habitats, lack of continuity of areas potentially favourable to wild animals. Landscape assessment methods used in architecture often better reflect the actual breeding and hunting value of a given area, especially in relation to fields and forests. The forest-field mosaic, large spatial fragmentation as well as interweaving of natural environment elements with buildings do not have to be the factors that limit the numbers of small game. Identification of the constituents of architectural-landscape interiors: content and significance assessment, determination of the functional role or assessment based on the general environmental values being represented take into account factors important for the existence of game, in particular small game.

scholarly journals New kid on the block: Research of alpine-lake macroinvertebrates in the Tatra Mountains enhanced by DNA barcoding and metabarcoding

2021 ◽  
Vol 4 ◽  
Author(s):  
Ondrej Vargovčík ◽  
Zuzana Čiamporová-Zaťovičová ◽  
Fedor Čiampor Jr
Keyword(s):  
Large Scale ◽  
Environmental Changes ◽  
Human Impacts ◽  
Sampling Error ◽  
Alpine Lakes ◽  
Alpine Lake ◽  
Tatra Mountains ◽  
Aquatic Communities ◽  
Wide Range ◽  
The Tatra Mountains

State of ecosystems and biodiversity protection are becoming the key interests for modern society due to climate change and negative human impacts (Leese 2018). Environmental changes in freshwaters are indicated also by benthic communities, especially in sensitive ecosystems like alpine lakes (Fjellheim 2009). Moreover, remoteness and isolation of alpine lakes make them a source of biodiversity, which is worth conserving (Hamerlík 2014). A promising tool for efficient large-scale monitoring of aquatic communities is DNA metabarcoding (Leese 2018). In this study, we applied metabarcoding to analyse macrozoobenthos of 12 lakes in the Tatra Mountains, using benthic bulk samples and eDNA filtered from water (Fig. 1). In compliance with recent publications, eDNA amplified with BF3/BR2 primers resulted in high percentage of non-invertebrate reads (Leese 2021). Based on in silico tests with the obtained sequences, we confirm that the recently developed EPTDr2n primer enables minimizing non-target amplification even with eDNA filtered from alpine-lake water (Elbrecht and Leese 2017). This ability is facilitated by 3’ end of the primer and we observed the two important mismatches in non-target sequences from our study (Leese 2021). Thus, our future analyses of eDNA (and bulk-sample fixative) will benefit from the new primer. Concerning bulk samples, a wide range of invertebrate taxa was assigned to the OTUs and they showed good congruence with previous studies using morphological determination (e.g. Krno 2006). Certain differences with (and among) the previous records per lake were observed, which could suggest ecological changes, but at the moment the influence of sampling error cannot be excluded. In eDNA, several taxa were congruent with the previous records, but their amount and read abundance was considerably lower due to non-target amplification. Apart from that, filling gaps in barcoding databases remains one of our priorities, as identification to species or genus level was not yet possible for some invertebrate OTUs. In addition, we subjected the NGS data to denoising and abundance-filtering in order to explore haplotype-level diversity (Andújar 2021). Although more comprehensive conclusions will be possible only after obtaining data from more lakes and years, already the two metabarcoding experiments presented here enabled us to efficiently detect within-species genetic diversity and identify a large variety of taxa, including groups that would otherwise be omitted or very challenging to identify. This underlines the potential of DNA methods to provide valuable ecological and biodiversity data across the tree of life for modern biomonitoring. This study was realized with support from VEGA 2/0030/17 and VEGA 2/0084/21.

scholarly journals Origin identification of migratory pests (European Starling) using geochemical fingerprinting

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e8962
Author(s):  
Upama Khatri-Chhetri ◽  
John G. Woods ◽  
Ian R. Walker ◽  
P. Jeff Curtis
Keyword(s):  
British Columbia ◽  
Trace Elements ◽  
Large Scale ◽  
Geographic Origin ◽  
Dairy Farms ◽  
European Starling ◽  
Northern Region ◽  
Stepwise Discriminant Analysis ◽  
Natal Origin ◽  
South Central

The European Starling (Sturnidae: Sturnus vulgaris L.) is an invasive bird in North America where it is an agricultural pest. In British Columbia (Canada), the starling population increases in orchards and vineyards in autumn, where they consume and damage ripening fruits. Starlings also cause damage in dairy farms and feedlots by consuming and contaminating food and spreading diseases. Damage can be partly mitigated by the use of scare devices, which can disperse flocks until they become habituated. Large-scale trapping and euthanizing before starlings move to fields and farms could be a practical means of preventing damage, but requires knowledge of natal origin. Within a small (20,831 km2), agriculturally significant portion of south-central British Columbia, the Okanagan-Similkameen region, we used 21 trace elements in bone tissue to discriminate the spatial distribution of juvenile starlings and to reveal the geographic origin of the problem birds in fall. Stepwise discriminant analysis of trace elements classified juveniles to their natal origin (minimum discrimination distance of 12 km) with 79% accuracy. In vineyards and orchards, the majority (55%) of problem birds derive from northern portions of the valley; and the remaining 45% of problem birds were a mixture of local and immigrant/unassigned birds. In contrast, problem birds in dairy farms and feedlots were largely immigrants/unassigned (89%) and 11% were local from northern region of the valley. Moreover, elemental signatures can separate starling populations in the Valley yielding a promising tool for identifying the geographic origin of these migratory birds.

scholarly journals Long-term influence of stand thinning and repeated fertilization on forage production in young lodgepole pine forests

2017 ◽  
Vol 47 (8) ◽  
pp. 1123-1130 ◽  
Author(s):  
Pontus M.F. Lindgren ◽  
Thomas P. Sullivan ◽  
Douglas B. Ransome ◽  
Druscilla S. Sullivan ◽  
Lisa Zabek
Keyword(s):  
Pinus Contorta ◽  
Large Scale ◽  
Bos Taurus ◽  
Lodgepole Pine ◽  
Stand Density ◽  
Stand Age ◽  
Forage Production ◽  
South Central ◽  
Stand Thinning

Integration of trees with forage and livestock production as silvopastoralism is another potential component of intensive forest management. Stand thinning and fertilization may enhance growth of crop trees and understory forage for livestock. We tested the hypothesis that large-scale precommercial thinning (PCT) (particularly heavy thinning to ≤1000 stems·ha−1) and repeated fertilization, up to 20 years after the onset of treatments, would enhance production of graminoids, forbs, and shrubs as cattle (Bos taurus L.) forage. Results are from two long-term studies: (1) PCT (1988–2013) and (2) PCT with fertilization (PCT–FERT) (1993–2013) of lodgepole pine (Pinus contorta Dougl. ex Loud. var. latifolia Engelm.) stands in south-central British Columbia, Canada. Mean biomass estimates of graminoids, forbs, total herbs, and shrubs were not affected by stand density. However, fertilization enhanced mean biomass estimates of graminoids, forbs, and total herbs, but not shrubs. Thus, the density part of our hypothesis was not supported, but the nutrient addition part was supported at least for the herbaceous components. Biomass of the herbaceous understory was maintained as a silvopasture component for up to 20 years (stand age 13 to 33 years) in fertilized heavily thinned stands prior to canopy closure.

scholarly journals Structure and Migration in U.S. Blumeria graminis f. sp. tritici Populations

2016 ◽  
Vol 106 (3) ◽  
pp. 295-304 ◽  
Author(s):  
Christina Cowger ◽  
Ryan Parks ◽  
Evsey Kosman
Keyword(s):  
Ssr Markers ◽  
Large Scale ◽  
Isolation By Distance ◽  
Blumeria Graminis ◽  
Snp Markers ◽  
Eastern United States ◽  
Long Distance ◽  
Continental Scale ◽  
South Central ◽  
Haplotypic Diversity

While wheat powdery mildew occurs throughout the south-central and eastern United States, epidemics are especially damaging in the Mid-Atlantic states. The structure of the U.S. Blumeria graminis f. sp. tritici population was assessed based on a sample of 238 single-spored isolates. The isolates were collected from 16 locations in 12 states (18 site-years) as chasmothecial samples in 2003 or 2005, or as conidial samples in 2007 or 2010. DNA was evaluated using nine single nucleotide polymorphism (SNP) markers in four housekeeping genes, and 10 simple sequence repeat (SSR) markers. The SSR markers were variably polymorphic, with allele numbers ranging from 3 to 39 per locus. Genotypic diversity was high (210 haplotypes) and in eight of the site-years, every isolate had a different SSR genotype. SNP haplotypic diversity was lower; although 15 haplotypes were identified, the majority of isolates possessed one of two haplotypes. The chasmothecial samples showed no evidence of linkage disequilibrium (P = 0.36), while the conidial samples did (P = 0.001), but the two groups had nearly identical mean levels of genetic diversity, which was moderate. There was a weakly positive relationship between genetic distance and geographic distance (R2 = 0.25, P = 0.001), indicating modest isolation by distance. Most locations in the Mid-Atlantic and Great Lakes regions clustered together genetically, while Southeast locations formed a distinct but adjacent cluster; all of these were genetically separated from Southern Plains locations and an intermediate location in Kentucky. One-way migration was detected at a rate of approximately five individuals per generation from populations west of the Appalachian Mountains to those to the east, despite the fact that the Atlantic states experience more frequent and damaging wheat mildew epidemics. Overall, the evidence argues for a large-scale mosaic of overlapping populations that re-establish themselves from local sources, rather than continental-scale extinction and re-establishment, and a low rate of long-distance dispersal roughly from west to east, consistent with prevailing wind directions.

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