A5078849066- Environmental DNA in Biodiversity Studies
- Identification and Quantification in Food
- Microbial Community Ecology and Physiology
- Fish Ecology and Management Studies
- Protist diversity and phylogeny
- Aquaculture disease management and microbiota
- Bacteriophages and microbial interactions
- Genomics and Phylogenetic Studies
- Isotope Analysis in Ecology
- Cytomegalovirus and herpesvirus research
- Species Distribution and Climate Change
- Viral Infections and Vectors
- Land Use and Ecosystem Services
- Parasite Biology and Host Interactions
- Physiological and biochemical adaptations
- Aquatic Invertebrate Ecology and Behavior
- Insect and Arachnid Ecology and Behavior
- Antibiotic Resistance in Bacteria
- Photoreceptor and optogenetics research
- Neurobiology and Insect Physiology Research
- Animal Disease Management and Epidemiology
- Urban Green Space and Health
- Pharmaceutical and Antibiotic Environmental Impacts
- Insect and Pesticide Research
- Herpesvirus Infections and Treatments
Kobe University
2016-2025
Research Institute for Humanity and Nature
2008-2023
Tokyo University of Agriculture and Technology
2022
Hokkaido University of Education
2020
Japan Science and Technology Agency
2015
Kyoto University
2002-2011
National Institute of Advanced Industrial Science and Technology
2005-2009
Tokyo Medical and Dental University
2009
Tohoku University
2009
University of Tsukuba
2009
We developed a set of universal PCR primers (MiFish-U/E) for metabarcoding environmental DNA (eDNA) from fishes. Primers were designed using aligned whole mitochondrial genome (mitogenome) sequences 880 species, supplemented by partial mitogenome 160 elasmobranchs (sharks and rays). The target hypervariable region the 12S rRNA gene (163-185 bp), which contains sufficient information to identify fishes taxonomic family, genus species except some closely related congeners. To test versatility...
Environmental DNA (eDNA) from aquatic vertebrates has recently been used to estimate the presence of a species. We hypothesized that fish release into water at rate commensurate with their biomass. Thus, concentration eDNA target species may be developed an method biomass common carp (Cyprinus carpio L.) using laboratory and field experiments. In aquarium, changed initially, but reached equilibrium after 6 days. Temperature had no effect on concentrations in aquaria. The was positively...
Knowledge of the presence an invasive species is critical to monitoring sustainability communities and ecosystems. Environmental DNA (eDNA), fragments that are likely be bound organic matters in water or shed cells, has been used monitor aquatic animals. Using eDNA-based method, we estimated bluegill sunfish, Lepomis macrochirus, 70 ponds located seven locales on Japanese mainland surrounding islands. We quantified concentration copies a 1 L sample using quantitative real-time polymerase...
Abstract Environmental DNA (eDNA) metabarcoding has emerged as a potentially powerful tool to assess aquatic community structures. However, the method hitherto lacked field tests that evaluate its effectiveness and practical properties biodiversity monitoring tool. Here, we evaluated ability of eDNA reveal fish structures in species-rich coastal waters. High-performance fish-universal primers systematic spatial water sampling at 47 stations covering ~11 km 2 revealed structure species...
The environmental DNA (eDNA) technique is expected to become a powerful, non-invasive tool for estimating the distribution and biomass of organisms. This was recently shown be applicable aquatic vertebrates by collecting extraorganismal floating in water or absorbed onto suspended particles. However, basic information on eDNA release rate lacking, despite it being essential practical applications. In this series experiments with bluegill sunfish (Lepomis macrochirus), we examined effect fish...
Summary Environmental DNA ( eDNA ) analysis for detecting the presence of aquatic and terrestrial organisms is an established method, concentration a species can reflect its abundance/biomass at site. However, attempts to estimate using concentrations in large stream river ecosystems have received little attention. We determined fish, Plecoglossus altivelis , by conducting snorkelling survey Saba River, Japan. Furthermore, we evaluated relationship between estimated P. spatial distribution...
An environmental DNA (eDNA) analysis method has been recently developed to estimate the distribution of aquatic animals by quantifying number target copies with quantitative real-time PCR (qPCR). A new technology, droplet digital (ddPCR), partitions reactions into thousands droplets and detects amplification in each droplet, thereby allowing direct quantification DNA. We evaluated accuracy qPCR ddPCR species abundance biomass using eDNA mesocosm experiments involving different numbers common...
Prompt and accurate methods for assessing the species composition of given areas are indispensable in addressing rapid loss biodiversity. Here, we propose a method surveillance fish freshwater using environmental DNA as markers. First, applicability was demonstrated through aquarium experiments. extracted from 120 ml water, degenerated primers targeting mitochondrial cytochrome b gene were used amplification. PCR-amplified fragments analysed by random cloning, all reared detected. Next, this...
Recent studies in streams and ponds have demonstrated that the distribution biomass of aquatic organisms can be estimated by detection quantification environmental DNA (eDNA). In more open systems such as seas, it is not evident whether eDNA represent because various factors (e.g., water flow) are expected to affect concentration. To test relationships between fish eDNA, we conducted a grid survey Maizuru Bay, Sea Japan, sampled surface bottom waters while monitoring Japanese jack mackerel...
Environmental DNA (eDNA) analysis has successfully detected organisms in various aquatic environments. However, there is little basic information on eDNA, including the eDNA shedding and degradation processes. This study focused water temperature fish biomass showed that shedding, degradation, size distribution varied depending biomass. The tank experiments consisted of four levels three levels. total size-fractioned from Japanese Jack Mackerels (Trachurus japonicus) were quantified before...
Environmental DNA (eDNA) has been used to investigate species distributions in aquatic ecosystems. Most of these studies use real-time polymerase chain reaction (PCR) detect eDNA water; however, PCR amplification is often inhibited by the presence organic and inorganic matter. In droplet digital (ddPCR), sample partitioned into thousands nanoliter droplets, inhibition may be reduced detection end-point each droplet, independent efficiency. addition, reagents can affect consequently alter...
Environmental DNA (eDNA) is shed by organisms into surrounding environments such as soil and water. The new methods using eDNA a marker for species detection are being rapidly developed. Here we explore basic knowledge regarding the dependence of degradation rate on time water temperature, relationship between bacterial abundance. This subject has not been well clarified, even though it essential improving reliability analysis. To determine time- temperature-dependent eDNA, river was sampled...
Summary To prevent the invasion of exotic species causing a decline in an endangered endemic species, it is important to determine distribution both at early stage, when density still low, and manage immediately. However, distinguishing between closely related difficult because they share similar characteristics. The identification DNA fragments sampled from body water (environmental ) has become popular technique for rapidly determining target species. In this study, we analysed...
Abstract Environmental DNA (eDNA)‐based assessments of macro‐organisms have now become an essential approach for biomonitoring. eDNA survey methods a number advantages over conventional methods. However, the value data that will accumulate would be greatly enhanced by standardizing analysis methods, which allow us to compare from multiple monitoring sites at different points in time. The Society ( http://ednasociety.org/en/about ), whose founding members consist Japanese researchers...
Abstract Environmental DNA (eDNA) consists of fragments shed from organisms into the environment, and can be used to identify species presence abundance. This study aimed reveal dispersion degradation processes eDNA in sea. Caged fish were set off end a pier Maizuru Bay, Sea Japan, their was traced at sampling stations located cage 10, 30, 100, 300, 600 1000 m distances along two transect lines. surface water collected each station 0, 2, 4, 8, 24 48 h after setting cage, again removing cage....
Environmental DNA (eDNA) analysis is a powerful tool within ecology for the study of distribution or abundance aquatic species, although simplification water sampling required enabling light and fast field to expand further application eDNA analysis. Here, certain candidate chemicals belonging group cationic surfactants were examined their effectiveness as preservatives samples by simply adding suppress degradation eDNA. The quaternary ammonium compound benzalkonium chloride (BAC) at final...
The advent of environmental DNA (eDNA) analysis methods has enabled rapid and wide-range ecological monitoring in aquatic ecosystems, but there is a dearth information on eDNA degradation. results previous studies suggest that the decay rate varies depending length fragments. To examine this hypothesis, we compared temporal change copy number long fragments (719 bp) with short (127 bp). First, isolated rearing water from target fish species, Japanese Jack Mackerel (Trachurus japonicus), then...
Effective ecosystem conservation and resource management require quantitative monitoring of biodiversity, including accurate descriptions species composition temporal variations abundance. Therefore, biodiversity has been performed for many ecosystems, but it is often time- effort-consuming costly. Recent studies have shown that environmental DNA (eDNA), which released to the environment from macro-organisms living in a habitat, contains information about identity Thus, analyzing eDNA would...
The invasion of non-native species that are closely related to native can lead competitive elimination the and/or genomic extinction through hybridization. Such invasions often become serious before they detected, posing unprecedented threats biodiversity. A Japanese strain common carp (Cyprinus carpio) has endangered owing strains introduced from Eurasian continent. Here, we propose a rapid environmental DNA-based approach quantitatively monitor genotypes. Using this system, developed...
Recent development of environmental DNA (eDNA) analysis allows us to survey underwater macro-organisms easily and cost effectively; however, there have been no reports on eDNA detection or quantification for jellyfish. Here we present the first report an marine jellyfish using Japanese sea nettle (Chrysaora pacifica) as a model species by combining tank experiment with spatial temporal distribution surveys. We performed monitoring concentrations over range time intervals after introduction...
Abstract Aqueous environmental DNA (eDNA) analysis has been applied to the monitoring of various ecosystems and taxa, characteristics aqueous eDNA have previously studied. In contrast, although sedimentary used restore past information, are not well understood. this study, we compared properties macro‐organisms. First, clarify preservation ability sediments, difference in decay rates between using samples collected from a biotope (an artificial pond prepared with concrete). Next, biological...
Recent studies demonstrated the use of environmental DNA (eDNA) from fishes to be appropriate as a non-invasive monitoring tool. Most these employed disk fiber filters collect eDNA water samples, although number microbial in aquatic environments have filter cartridges, because cartridge has advantage accommodating large volumes and overall ease use. Here we provide protocol for filtration samples using extraction without having cut open housing. The main portions this consists 1) (water ≤4 L...