Article
Environmental Sciences
Rachel A. Pence, Thomas R. Cianciolo, Damion R. Drover, Daniel L. McLaughlin, David J. Soucek, Anthony J. Timpano, Carl E. Zipper, Stephen H. Schoenholtz
Summary: Benthic macroinvertebrate community assessments are commonly used to characterize aquatic systems and identify impairments caused by various stressors. This study compared two sampling and enumeration methods in detecting macroinvertebrate responses to freshwater salinization. Results showed that full-enumeration assessments may provide a more complete characterization of macroinvertebrate communities and their response to increased salinization.
ENVIRONMENTAL MONITORING AND ASSESSMENT
(2021)
Article
Ecology
Allison Swartz, Dana Warren
Summary: Many headwaters in temperate North America have mid-succession riparian forests, which are recovering from historic land clearing. These young forests have simple structures compared to late-succession forests. Creating canopy gaps in the riparian forest can enhance structural complexity and provide productivity hotspots in streams, potentially increasing apex predator abundances. However, increased light may also affect stream temperature, which is important for coldwater fish. A study found that creating gaps in the riparian forest had small positive effects on adult cutthroat trout and total vertebrate biomass in streams.
RESTORATION ECOLOGY
(2023)
Article
Ecology
Jarno Turunen, Vasco Elbrecht, Dirk Steinke, Jukka Aroviita
Summary: The study found that riparian forests in agricultural headwater streams can improve ecosystem functions, mitigate adverse impacts of agriculture on biota, and have a significant effect on water temperatures.
FRESHWATER BIOLOGY
(2021)
Article
Geosciences, Multidisciplinary
Tomas Galia, Radek Tichavsky, Andrea Fabianova, Vilem Spalovsky
Summary: Research focused on the recruitment and distribution patterns of large wood (LW) in headwater streams of forested mountain regions, where disturbances play a crucial role in determining the final distribution of LW. Analysis revealed that streams impacted by blowdowns had the highest LW volume and a uniform longitudinal distribution, while streams affected by high-magnitude cascade recruitment-transport processes had the lowest LW volume and irregular distribution. Dendroecological dating further showed that a significant percentage of LW died during specific periods due to disturbances, with different growth patterns observed in response to varying levels of disturbance intensity.
Article
Marine & Freshwater Biology
Vivian de Mello Cionek, Fabio Nascimento Oliveira Fogaca, Timothy Peter Moulton, Laryssa Helena Ribeiro Pazianoto, Guilherme Okuda Landgraf, Evanilde Benedito
Summary: Headwater streams with higher environmental quality have faster leaf breakdown rates, while habitat simplification resulting from environmental degradation negatively affects invertebrate community structure and microbial biomass. In less disturbed streams, the mining-chironomid Stenochironomus sp. may play a significant role in leaf processing.
Article
Biodiversity Conservation
Aryanna James, Rachel Pence, Gregory Pond, Stephen Schoenholtz, Anthony Timpano, Carl Zipper, Sally Entrekin
Summary: Many ecosystems are experiencing biodiversity loss, but the extent of this loss, particularly for diverse insects, remains uncertain due to incomplete sampling. This study used modeling techniques to estimate the upper bounds of diversity in benthic freshwater insects, finding that some species are declining rapidly while others are increasing.
ECOLOGICAL INDICATORS
(2022)
Review
Green & Sustainable Science & Technology
Gabriela Costea, Martin T. Pusch, Doru Banaduc, Diana Cosmoiu, Angela Curtean-Banaduc
Summary: Hydropower is booming in southeast Europe, with Romania having between 545 and 674 hydropower plants. Many of these plants are located in protected areas or water bodies with good or very good ecological status. However, the construction of hydropower plants has significantly impacted fish populations in Romania's headwater streams, leading to the disappearance of certain species. Efforts to mitigate these environmental impacts are lacking, posing a threat to aquatic biodiversity in the country.
RENEWABLE & SUSTAINABLE ENERGY REVIEWS
(2021)
Article
Marine & Freshwater Biology
Jason B. Alexander, Michael J. Marnane, Justin I. McDonald, Sherralee S. Lukehurst, Travis S. Elsdon, Tiffany Simpson, Shawn Hinz, Michael Bunce, Euan S. Harvey
Summary: This study analyzes the challenges of monitoring marine diversity using environmental DNA (eDNA) metabarcoding methods. It suggests that water sampling may not effectively detect taxa from adjacent epibenthic substrates. The study compares different sampling methods targeting the water column and epibenthic substrate and finds that most methods are able to detect community shifts associated with depth. The study also highlights the importance of substrate selection and multiple sampling methods for comprehensive characterization of diversity using eDNA.
ESTUARINE COASTAL AND SHELF SCIENCE
(2023)
Article
Meteorology & Atmospheric Sciences
Alexandru Antal, Pedro M. P. Guerreiro, Sorin Cheval
Summary: The study compared the performance of seven interpolation methods for estimating the mean annual precipitation over mainland Portugal, with EBKR showing the best spatial distribution performance, and the PSE results indicating an increase in prediction accuracy from south to north within mainland Portugal.
THEORETICAL AND APPLIED CLIMATOLOGY
(2021)
Article
Environmental Sciences
Feilong Li, Shuping Wang, Yuan Zhang, Nan Zhang, Yanpeng Cai, Zhifeng Yang
Summary: This study used DNA metabarcoding to investigate the biodiversity changes and ecological thresholds in 12 different headwater streams in the Liao River of northeast China. The results showed that human impacts significantly influenced the community composition and structure of the headwater streams, with 5-day biological oxygen demand and ammonia nitrogen being the key variables explaining the variation. The study also identified indicative taxa that negatively responded to BOD5 and NH3-N, and determined the threshold values for these pollutants.
ENVIRONMENTAL POLLUTION
(2022)
Article
Ecology
Juliette Becquet, Nicolas Lamouroux, Thomas Condom, Isabelle Gouttevin, Maxence Forcellini, Bertrand Launay, Antoine Rabatel, Sophie Cauvy-Fraunie
Summary: Ongoing hydrological alterations due to climate change and anthropogenic uses of water have significant implications for freshwater biodiversity, and quantifying the relative effects of environmental variables on macroinvertebrates is crucial for predicting their responses. This study in the French Alps examined the impact of physico-chemistry, hydraulics, and hydrology on the distribution of alpine macroinvertebrate communities and taxa. The results showed that these environmental variables significantly influenced the composition and structure of macroinvertebrate communities.
FRESHWATER BIOLOGY
(2022)
Article
Ecology
Payton Phillips, Melissa M. Clark, Suraj Baral, Erin L. Koen, Jeff Bowman
Summary: The study compared three omnidirectional connectivity methods and validated their effectiveness using simulated resistance grids and snow-track data of Canadian lynx. The results showed that the current density maps generated by these methods were highly correlated in most cases, but varied in uniform resistance grids.
Article
Materials Science, Multidisciplinary
Chad R. Foster
Summary: This article discusses the use of log-normal distributions in stereological material characterization and how spherical distribution parameters can be estimated by measuring cross-section circle diameters. The article defines a randomization method and creates an unambiguous distribution that avoids Bertrand's paradox. Two specific randomizations are demonstrated and verified through simulation.
METALLURGICAL AND MATERIALS TRANSACTIONS A-PHYSICAL METALLURGY AND MATERIALS SCIENCE
(2022)
Article
Environmental Sciences
Cornelia S. Oedekoven, Tiago A. Marques, Danielle Harris, Len Thomas, Aaron M. Thode, Susanna B. Blackwell, Alexander S. Conrad, Katherine H. Kim
Summary: This study summarizes three methods for passive acoustic density estimation: plot sampling, DS, and SECR. Through simulation and a case study, it was found that discrepancies between estimates derived using SECR and other methods were primarily caused by manual detection procedures and errors in estimated distances between detected calls and sensors.
ENVIRONMENTAL AND ECOLOGICAL STATISTICS
(2022)
Article
Computer Science, Artificial Intelligence
Peng Jia, Pinghui Wang, Junzhou Zhao, Jing Tao, Ye Yuan, Xiaohong Guan
Summary: This paper studies the problem of computing the cumulative distribution for different cardinalities in the stream of entity-identifier pairs. To address the limitations of previous methods, a memory-efficient method called EV-HLL is proposed and its performance is evaluated on real-world datasets. Experimental results show that EV-HLL effectively reduces memory usage while maintaining high accuracy.
IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING
(2022)
Article
Biodiversity Conservation
Ryohei Nishizawa, Ryohei Nakao, Atushi Ushimaru, Toshifumi Minamoto
Summary: Paddy ecosystems are highly diverse, but can be degraded due to consolidation or abandonment. Understanding snake distribution is crucial for paddy biodiversity conservation. This study developed environmental DNA (eDNA) detection assays to easily survey snakes in paddy ecosystems. Specific assays were designed for three common snake species, and their DNA was successfully identified in field samples. Land-use type was found to affect the detection of one of the snake species. This study is the first to use eDNA analysis to survey snakes in paddy ecosystems and contributes to paddy ecosystem monitoring.
LANDSCAPE AND ECOLOGICAL ENGINEERING
(2023)
Article
Biodiversity Conservation
Teruhiko Takahara, Katsuya Fukui, Daisuke Hiramatsu, Hideyuki Doi, Masato Fujii, Toshifumi Minamoto
Summary: This study developed species-specific primer-probe sets for detecting and quantifying environmental DNA (eDNA) of Hypomesus nipponensis and Salangichthys microdon. The results showed that these assays were effective in accurately monitoring the presence and seasonal changes of the fish species, and could potentially be used as a useful tool for fisheries management.
LANDSCAPE AND ECOLOGICAL ENGINEERING
(2023)
Article
Biodiversity Conservation
Nao Shiozuka, Izumi Katano, Hideyuki Doi, Masatoshi Nakamura, Tomoyasu Shirako, Hidetaka Ichiyanagi
Summary: The effectiveness of eDNA testing methods for semi-aquatic organisms, such as the Japanese water shrew, remains unclear. This study designed a species-specific primer-probe set and found that eDNA was mainly detected at night, suggesting the importance of adjusting the sampling time for efficient eDNA testing.
LANDSCAPE AND ECOLOGICAL ENGINEERING
(2023)
Article
Ecology
Luhan Wu, Qianqian Wu, Takashi Inagawa, Jiro Okitsu, Shogo Sakamoto, Toshifumi Minamoto
Summary: This study investigates the feasibility of using eDNA analysis to monitor the spawning activity of freshwater fish. Field eDNA surveys were conducted in conjunction with traditional surveys, and a model was established to estimate the periods of spawning activity. This method allows for continuous monitoring of the reproduction of rare, invasive, or important fishery species, reducing the laboriousness of traditional surveys.
FRESHWATER BIOLOGY
(2023)
Article
Fisheries
Teruhiko Takahara, Hideyuki Doi, Toshihiro Kosuge, Nanae Nomura, Nobutaka Maki, Toshifumi Minamoto, Katsutoshi Watanabe
Summary: This study established an effective eDNA method for an endangered Japanese bagrid catfish by considering its ecological characteristics. The addition of BAC reagent for water sample storage was found to be effective. There was no difference in eDNA concentration between different sampling times and different sampling locations in the field. The study also suggested that water samples can be collected during the daytime to reduce the risk of water accidents associated with field eDNA surveys of nocturnal species.
ICHTHYOLOGICAL RESEARCH
(2023)
Article
Chemistry, Analytical
Qianqian Wu, Toshifumi Minamoto
Summary: In recent years, the application of eDNA technology in water environments has become more widespread. This study compares different seawater preservation solutions (RNAlater or ATL) to improve the recovery yields of eDNA. The results show that ATL treatment significantly increases eDNA yields for both vertebrate and invertebrate species compared to RNAlater treatment. Additionally, preservation methods do not significantly affect the number of detected species and species composition according to metabarcoding analysis.
ANALYTICAL SCIENCES
(2023)
Article
Chemistry, Analytical
Masayuki K. K. Sakata, Daiki Takeshita, Ryohei Nishizawa, Takuya Sato, Toshifumi Minamoto
Summary: Loss of biodiversity is a major concern, especially for amphibians. Many small salamanders in Japan are endangered. Environmental DNA analysis is an effective method for monitoring these rare species.
ANALYTICAL SCIENCES
(2023)
Article
Ecology
Rio Souma, Izumi Katano, Hideyuki Doi, Teruhiko Takahara, Toshifumi Minamoto
Summary: Environmental DNA (eDNA) has proved to be a useful tool for detecting the presence and abundance of macroorganisms in aquatic systems. In this study, eDNA was sampled from different zones of eight small ponds in Japan, and the captured biomass of three dominant fish species was compared with the eDNA copies obtained through quantitative real-time polymerase chain reaction analysis. Positive correlations were found between the eDNA copies and the total captured biomass of all target fish species, indicating the potential of eDNA measurement for estimating population biomass under natural conditions.
FRESHWATER BIOLOGY
(2023)
Article
Ecology
Hideyuki Doi, Shunsuke Matsuoka, Shin-ichiro S. Matsuzaki, Mariko Nagano, Hirotoshi Sato, Hiroki Yamanaka, Saeko Matsuhashi, Satoshi Yamamoto, Toshifumi Minamoto, Hitoshi Araki, Kousuke Ikeda, Atsuko Kato, Kouichi Kumei, Nobutaka Maki, Takashi Mitsuzuka, Teruhiko Takahara, Kimihito Toki, Natsuki Ueda, Takeshi Watanabe, Kanji Yamazoe, Masaki Miya
Summary: Although eDNA metabarcoding is a valuable tool for biodiversity monitoring, the influence of organism traits and ecosystem characteristics on its performance remains unclear. To address this knowledge gap, we conducted a nationwide study on fish communities in 18 Japanese lakes. Our results indicate that certain organism traits, such as body size and habitat preference, as well as ecosystem size, can affect eDNA detection. These findings highlight the importance of considering species traits and ecosystem characteristics in broad-scale eDNA metabarcoding monitoring.
FRESHWATER BIOLOGY
(2023)
Article
Ecology
Takeshi Miki, Hiroki Yamanaka, Atsushi Sogabe, Koji Omori, Yasuhisa Saito, Toshifumi Minamoto, Kimiko Uchii, Mie N. N. Honjo, Alata A. A. Suzuki, Yukihiro Kohmatsu, Zen'ichiro Kawabata
Summary: For ectotherms, the temperature of their habitat plays a crucial role in disease dynamics. This study investigated how host behavior in response to fluctuating temperature affects disease dynamics using both modeling and field surveys. The results showed that the temperature preferences of individual carp influenced the severity of CyHV-3 infection, and increasing the fraction of warmer coastal areas mitigated the impact of the disease by promoting immunity acquisition. These findings highlight the importance of the thermal regime and host behavior in regulating infectious disease in ectothermic animals.
THEORETICAL ECOLOGY
(2023)
Article
Multidisciplinary Sciences
Kensuke Mori, Akio Imamura, Itsuki Hirayama, Toshifumi Minamoto
Summary: Environmental DNA (eDNA) is used for surveillance and early detection of pathogens and parasites. A new primer-probe set was designed and tested to detect E. multilocularis DNA in eDNA samples collected from streams in Japan. The detection rate was low (0.78%), but repurposed eDNAs may still be useful for surveillance in newly introduced areas. Further research is needed to improve the effectiveness of using eDNA for E. multilocularis detection.
Article
Environmental Sciences
Ippei Aoshima, Ryohei Nakao, Toshifumi Minamoto, Atushi Ushimaru, Masayuki Sato
Summary: This study examined how urban residents perceive the biodiversity of rivers and whether it is influenced by their nature experiences. Quantitative data measured by environmental DNA were used to indicate biodiversity, while a social survey determined residents' perceptions and nature experiences. Regression analysis of 312 responses showed that residents with more childhood nature experiences were more satisfied with waterfront areas as river biodiversity increased. However, those with fewer nature experiences preferred concrete paved rivers for recreational value rather than biodiverse rivers.
CITY AND ENVIRONMENT INTERACTIONS
(2023)
Article
Biochemistry & Molecular Biology
Luhan Wu, Tomonori Osugi, Takashi Inagawa, Jiro Okitsu, Shogo Sakamoto, Toshifumi Minamoto
Summary: Periodic monitoring is important for the protection of endangered fish, sustainable use of fishery resources, and management of alien species. This study developed a quantitative metabarcoding approach to simultaneously quantify the eDNA concentration of an entire fish assemblage in a small reservoir. The results showed that this approach is highly consistent with traditional fish monitoring methods and can provide valuable information for the ecological monitoring of multiple fish species.
MOLECULAR ECOLOGY RESOURCES
(2023)
Article
Economics
Masayuki Sato, Toshifumi Minamoto, Atushi Ushimaru
Summary: This study proposes an interdisciplinary approach to policies for the conservation of suburban and peri-urban ecosystems, emphasizing the importance of evidence-based assessment, investigation from multiple perspectives, and consensus building. Using Satoyama development as a case study, an economic analysis was conducted to understand citizen preferences and needs, and to discuss the consistency between policy targets and citizens' evaluation.
INTERNATIONAL JOURNAL OF ECONOMIC POLICY STUDIES
(2023)
