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River ecosystems host a continuum of various discontinuities, such as dams and tributary inflows, which shape the habitats of aquatic organisms; this makes it important to evaluate the interactions among discontinuities and effects of a single discontinuity point. Herein, we focused on tributaries in dammed rivers to elucidate a manner to mediate discontinuities and hypothesized that the effects of the tributary inflow on the downstream river were mediated by the (1) distance between the dam and tributary inflow, (2) size ratio between the dam and tributary, and (3) ability of the tributary to transport fine sediments, such as sand and gravel. We conducted field investigations to measure 24 environmental factors, including the water column, riverbed, and river topography, along eight dammed rivers to test the three hypotheses. Only five factors differed significantly between the upstream and downstream sites of the tributary confluence, whereas 12 factors differed significantly between the tributary and mainstem. We also classified the variation pattern using principal component analysis (PCA). The correlation between each PCA axis and environmental factors suggests that the modifications of the water quality factors by tributary inflow were significantly correlated with the distance between the dam and the tributary inflow, and that the flux of various riverbed factors, that is, was significantly correlated with the ability to resupply of fine riverbed sediments by the tributary. Overall, tributary‐inflow downstream of a dam has the potential to be applicable in environmental restoration, especially in terms of resupplying fine sediment. [ABSTRACT FROM AUTHOR]

Environmental DNA (eDNA) has recently been developed for detecting the distribution of macroorganisms in aquatic systems and for estimating biomass/abundance. Although positive relationships between eDNA concentrations of species and biomass/abundance have been observed in previous studies, estimation of total biomass in a particular ecosystem based on eDNA concentration has not been investigated.To test this, we sampled eDNA from the littoral and pelagic zones of eight small ponds in Japan. Then, we drained ponds to capture all fish inhabiting each pond. We compared the eDNA copies measured by quantitative real‐time polymerase chain reaction analysis with the captured biomass of three dominant fish species (common carp, bluegill sunfish, and largemouth bass) obtained by direct capture. Differences in eDNA concentrations were compared between the littoral and pelagic zones of each pond.We found positive relationships between the eDNA copies and the whole captured biomass of all target species using Type II logarithmic equations, and the eDNA copies appeared to be saturated at a higher total biomass.We found positive correlations between the total number of eDNA copies and the total captured biomass of three fish species. This demonstrated the first step in estimating the population biomass of target fish species under natural conditions using eDNA measurement. [ABSTRACT FROM AUTHOR]

Aim: Natural disaster risk reduction (DRR) is becoming a more important function of protected area (PAs) for current and future global warming. However, biodiversity conservation and DRR have been handled separately and their interrelationship has not been explicitly addressed. This is mainly because, due of prevailing strategies and criteria for PA placement, a large proportion of PAs are currently located far from human‐occupied areas, and habitats in human‐occupied areas have been largely ignored as potential sites for conservation despite their high biodiversity. If intensely developed lowland areas with high flooding risk overlap with important sites for biodiversity conservation, it would be reasonable to try to harmonize biodiversity conservation and human development in human‐inhabited lowland areas. Here, we examined whether extant PAs can conserve macroinvertebrate and freshwater fish biodiversity and whether human‐inhabited lowland flood risk management sites might be suitable to designate as freshwater protected areas (FPAs). Location: Across Japan. Methods: We examined whether extant PAs can conserve macroinvertebrate and freshwater fish biodiversity and analysed the relationship between candidate sites for new FPAs and flood disaster risk and land use intensity at a national scale across Japan based on distribution data for 131 freshwater fish species and 1395 macroinvertebrate species. Results: We found that extant PAs overlapped with approximately 30% of conservation‐priority grid cells (1 km2) for both taxa. Particularly for red‐listed species, only one species of freshwater fish and three species of macroinvertebrate achieved the representation target within extant PAs. Moreover, more than 40% of candidate conservation‐priority grid cells were located in flood risk and human‐occupied areas for both taxa. Main conclusions: Floodplain conservation provides suitable habitat for many freshwater organisms and helps control floodwaters, so establishing new FPAs in areas with high flood risk could be a win‐win strategy for conserving freshwater biodiversity and enhancing ecosystem‐based DRR (eco‐DRR). [ABSTRACT FROM AUTHOR]

Dam‐mediated biological invasions are a serious problem all over the world. Once established in reservoirs, the invasive species have catastrophic impacts on the river ecosystems downstream, and thus, rapid monitoring of invasive species is an urgent issue for the effective removal of them and the conservation management of native ecosystems. Here, we verified the utility of environmental DNA (eDNA) analysis as a tool to effectively monitor three invasive fish species (bluegill, largemouth bass, and smallmouth bass) in reservoirs using multiplex real‐time PCR. First, to determine the optimal sampling location and season to detect eDNA from these species, we analyzed the eDNA in water samples from shore and offshore sites in three reservoirs all year around. We found that eDNA detection rates either did not differ between sampling locations or were higher for shore than offshore sites. In addition, eDNA detection rates were higher in spring (breeding season of target species) and/or summer than winter. Second, we extensively surveyed the distribution of the three species in 30 reservoirs in Japan using eDNA analysis. Consequently, a single eDNA‐based surveillance in summer allowed to match approximately 90% of the presence/absence of the invasive fish species known from 27 yr of administrative capture‐based surveillances. Given these results, we recommend collecting the replicated water samples from shore sites in summer or the breeding season for the effective detection of invasive fish eDNA in reservoirs. Our eDNA assays with multiplex real‐time PCR enable the rapid and sensitive monitoring of invasive fish distribution in reservoirs. [ABSTRACT FROM AUTHOR]

The recent development of the environmental DNA (eDNA) technique has dramatically facilitated investigations of the distribution and abundance of macroorganisms in the natural environment. Various real‐time polymerase chain reaction (PCR)‐based methods have been proposed for the detection and quantification of eDNA by independent researchers or groups. Although several eDNA reviews have outlined the critical requirements for experimental processes and provided guidelines for best practice, clear standardization of eDNA protocols is lacking. Here, we collected the PCR conditions of previous eDNA studies using real‐time PCR (n = 190), that is, the volume of the DNA template, PCR cycles, number of PCR replicates and PCR inhibition tests. Then, we synthesized the current development of real‐time PCR techniques for eDNA studies. Our synthesis has identified the critical issues that need to be addressed to design standardized protocols for eDNA monitoring that will enable broader uptake of eDNA technology. [ABSTRACT FROM AUTHOR]

Environmental DNA (eDNA) analysis has seen rapid development in the last decade, as a novel biodiversity monitoring method. Previous studies have evaluated optimal strategies, at several experimental steps of eDNA metabarcoding, for the simultaneous detection of fish species. However, optimal sampling strategies, especially the season and the location of water sampling, have not been evaluated thoroughly. To identify optimal sampling seasons and locations, we performed sampling monthly or at two‐monthly intervals throughout the year in three dam reservoirs. Water samples were collected from 15 and nine locations in the Miharu and Okawa dam reservoirs in Fukushima Prefecture, respectively, and five locations in the Sugo dam reservoir in Hyogo Prefecture, Japan. One liter of water was filtered with glass‐fiber filters, and eDNA was extracted. By performing MiFish metabarcoding, we successfully detected a total of 21, 24, and 22 fish species in Miharu, Okawa, and Sugo reservoirs, respectively. From these results, the eDNA metabarcoding method had a similar level of performance compared to conventional long‐term data. Furthermore, it was found to be effective in evaluating entire fish communities. The number of species detected by eDNA survey peaked in May in Miharu and Okawa reservoirs, and in March and June in Sugo reservoir, which corresponds with the breeding seasons of many of fish species inhabiting the reservoirs. In addition, the number of detected species was significantly higher in shore, compared to offshore samples in the Miharu reservoir, and a similar tendency was found in the other two reservoirs. Based on these results, we can conclude that the efficiency of species detection by eDNA metabarcoding could be maximized by collecting water from shore locations during the breeding seasons of the inhabiting fish. These results will contribute in the determination of sampling seasons and locations for fish fauna survey via eDNA metabarcoding, in the future. [ABSTRACT FROM AUTHOR]

Environmental DNA (eDNA) techniques utilizing DNA fragments from water have recently been developed to investigate the distribution and abundance/biomass of aquatic organisms. The eDNA technique is based on the analysis of DNA fragments in sampled water; thus, an unmanned aerial vehicle (UAV; drone) would be a useful way of collecting water for eDNA sampling, and may consequently allow us to extend eDNA surveys both spatially and temporally. Here, we developed a new method of water collection by using UAV with bleachable equipment, to avoid DNA contamination. To test the performance and contamination risk of UAV water sampling in eDNA surveys, we sampled water from a dam reservoir, detected eDNA from two fish species, and compared the water samples obtained by UAV with those obtained by boat. Additionally, we investigated contamination using blank samples. The results revealed that our UAV water sampling method performed similar to the boat sampling method. No positive signals were detected in the blank samples, including those used for UAV sampling, transportation, filtering, and PCR blanks. Our UAV method can be used to investigate species distributions using eDNA. Combinations of UAV technologies, including remote and thermal sensing, will enable efficient environmental monitoring in various waterbodies. [ABSTRACT FROM AUTHOR]

Predator diversity and abundance are under strong human pressure in all types of ecosystems. Whereas predator potentially control standing biomass and species interactions in food webs, their effects on prey biomass and especially prey biodiversity have not yet been systematically quantified. Here, we test the effects of predation in a cross-system meta-analysis of prey diversity and biomass responses to local manipulation of predator presence. We found 291 predator removal experiments from 87 studies assessing both diversity and biomass responses. Across ecosystem types, predator presence significantly decreased both biomass and diversity of prey across ecosystems. Predation effects were highly similar between ecosystem types, whereas previous studies had shown that herbivory or decomposition effects differed fundamentally between terrestrial and aquatic systems based on different stoichiometry of plant material. Such stoichiometric differences between systems are unlikely for carnivorous predators, where effect sizes on species richness strongly correlated to effect sizes on biomass. However, the negative predation effect on prey biomass was ameliorated significantly with increasing prey richness and increasing species richness of the manipulated predator assemblage. Moreover, with increasing richness of the predator assemblage present, the overall negative effects of predation on prey richness switched to positive effects. Our meta-analysis revealed strong general relationships between predator diversity, prey diversity and the interaction strength between trophic levels in terms of biomass. This study indicates that anthropogenic changes in predator abundance and diversity will potentially have strong effects on trophic interactions across ecosystems. [ABSTRACT FROM AUTHOR]

1. The vertical and horizontal distribution of unionoid mussels (Pronodularia japanensis) were examined in spring, late summer and winter for different size classes, including juveniles (<20 mm) and large adults (>50 mm), in an agricultural drainage channel in Central Japan. 2. A large number of small-sized juveniles were found at the surface (0-3 cm depth) in spring, whereas approximately half of the adults remained in the deep layer (3-8 cm depth). Most individuals were found in the surface layer irrespective of size classes in summer, and approximately 70% of all individuals descended to the deep layer in winter. 3. Horizontal distribution did not substantially change across seasons and high density patches were consistently found in the areas where substrate appeared to be stable or hydraulically sheltered. Spatial distribution of small juveniles was relatively well predicted by the abundance of adults. 4. The size-frequency distribution was multi-modal in three seasons and estimated numbers of newly recruited juveniles were highly variable in recent years, suggesting that juveniles were rarely found owing to irregular reproduction and/or recruitment not the overlooked habitat preferred by small-sized juveniles. 5. As P. japanensis is characterized by the behaviour of burrowing down to a depth of ∼10 cm, maintaining the processes of sediment deposition appears to be one of the critical criteria for the conservation of mussel habitats in agricultural drainage channel systems, which are commonly lined with smooth concrete materials. [ABSTRACT FROM AUTHOR]

Climate change is inducing changes in the phenological timings of organisms. Genetic diversity could influence phenological responses to climate change, but empirical evidence is very limited. We estimated the regional variation across Japan in flowering and leaf budburst dates of plants based on a dataset of phenological timings from 1953 to 2005. The observed plants' genetic diversities varied according to human cultivation. The within-species variations of phenological response to temperature as well as regional variations were less in the plant populations with lower genetic diversity. Thus, genetic diversity influences the variation in phenological responses of plant populations. Under increased temperatures, low variation in phenological responses may allow drastic changes in the phenology of plant populations with synchronized phenological timings. Our findings indicate that we should pay attention to maintaining genetic diversity of populations to alleviate changes in phenology due to future climate change. [ABSTRACT FROM AUTHOR]

To maximize their growth, grazers should shift their behavior to balance the cues from predators and periphyton in the field. As a stream grazer seeks periphyton that are heterogeneously distributed, a shift in its behavior on the basis of the intensity of microalgal cues would be beneficial as it would allow the grazer to feed on more periphyton. Using a caddisfly grazer, Glossosoma larvae, we conducted a laboratory channel experiment with upstream experimental plates having four levels of periphyton abundance (control, low, medium, and high), and we recorded the movement behavior of the larvae. As periphyton abundance increased, both larval crawling time and the total crawling distance to the periphyton patch significantly decreased and the directness of the crawling path significantly increased. That is, larvae crawled in various directions as they approached a relatively low-abundance periphyton patch, whereas they crawled straight to the high-abundance periphyton patch in a short time. The behavior change was likely due to the detection of some microalgal cue, which should intensify with an increase in upstream periphyton abundance. [ABSTRACT FROM AUTHOR]