Masaki Miya
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View article: Stemflow for detecting mammalian environmental DNA: a case study in a zoo
Stemflow for detecting mammalian environmental DNA: a case study in a zoo Open
As mammalian diversity declines, effective biodiversity monitoring tools are urgently needed. To address this issue, we assessed the detectability of mammalian environmental DNA (eDNA) using the eDNA metabarcoding method with stemflow. We …
View article: MitoNGS: an online platform to analyze fish metabarcoding data in high-resolution
MitoNGS: an online platform to analyze fish metabarcoding data in high-resolution Open
Environmental DNA (eDNA) metabarcoding has become a powerful tool for assessing fish biodiversity in aquatic ecosystems. However, accurate species-level identification remains challenging due to incomplete and contaminated reference databa…
View article: Environmental DNA reveals coastal fish biodiversity response across the Atlantic-Indian Ocean environmental transition gradient
Environmental DNA reveals coastal fish biodiversity response across the Atlantic-Indian Ocean environmental transition gradient Open
View article: μCeta: A Set of Cetacean‐Specific Primers for Environmental <scp>DNA</scp> Metabarcoding With Minimal Amplification of Non‐Target Vertebrates
μCeta: A Set of Cetacean‐Specific Primers for Environmental <span>DNA</span> Metabarcoding With Minimal Amplification of Non‐Target Vertebrates Open
Biodiversity monitoring is crucial for understanding ecosystem dynamics and species distributions, particularly in the context of anthropogenic impacts and climate change. Cetaceans, as key indicator species of marine ecosystems, face incr…
View article: Ecological interactions and genomic innovation fueled the evolution of ray-finned fish endothermy
Ecological interactions and genomic innovation fueled the evolution of ray-finned fish endothermy Open
Endothermy has independently evolved in several vertebrate lineages but remains rare among fishes. Using an integrated approach combining phylogenomic and ecomorphological data for 1051 ray-finned fishes, a time-dependent evolutionary mode…
View article: Influence of homogenization methods on lichen species detection from environmental DNA metabarcoding
Influence of homogenization methods on lichen species detection from environmental DNA metabarcoding Open
Environmental DNA (eDNA) techniques are increasingly employed in biodiversity monitoring of aquatic and terrestrial animals, plants, and fungi, holding great potential to revolutionize biodiversity assessments. However, sampling and basic …
View article: µCeta: a set of cetacean-specific primers for environmental DNA metabarcoding with minimal amplification of non-target vertebrates
µCeta: a set of cetacean-specific primers for environmental DNA metabarcoding with minimal amplification of non-target vertebrates Open
Biodiversity monitoring is crucial for understanding ecosystem dynamics and species distributions, particularly in the context of anthropogenic impacts and climate change. Cetaceans, as key indicator species of marine ecosystems, face incr…
View article: Development of Universal Pcr Primers for the Environmental DNA Metabarcoding of Cephalopod Diversity
Development of Universal Pcr Primers for the Environmental DNA Metabarcoding of Cephalopod Diversity Open
View article: Assessing the impact of tidal changes on fish environmental DNA metabarcoding in temperate and tropical coastal regions of Japan
Assessing the impact of tidal changes on fish environmental DNA metabarcoding in temperate and tropical coastal regions of Japan Open
Environmental DNA (eDNA) analysis is a valuable tool for detecting species presence in coastal environments. However, its effectiveness can be influenced by factors such as diffusion and degradation after being released by organisms. Under…
View article: Influence of homogenization methods on lichen species detection from environmental DNA metabarcoding
Influence of homogenization methods on lichen species detection from environmental DNA metabarcoding Open
Environmental DNA (eDNA) techniques are increasingly employed in biodiversity monitoring of terrestrial animals, plants, and fungi, holding great potential to revolutionize biodiversity assessments on land. However, sampling and basic labo…
View article: Reduced evolutionary constraint accompanies ongoing radiation in deep-sea anglerfishes
Reduced evolutionary constraint accompanies ongoing radiation in deep-sea anglerfishes Open
Colonization of a novel habitat is often followed by phenotypic diversification in the wake of ecological opportunity. However, some habitats should be inherently more constraining than others if the challenges of that environment offer fe…
View article: Influence of homogenization methods on lichen species detection from environmental DNA metabarcoding
Influence of homogenization methods on lichen species detection from environmental DNA metabarcoding Open
Environmental DNA (eDNA) techniques are increasingly employed in biodiversity monitoring of terrestrial animals, plants, and fungi, holding great potential to revolutionize biodiversity assessments on land. However, sampling and basic labo…
View article: Detecting kelp-forest associated metazoan biodiversity with eDNA metabarcoding
Detecting kelp-forest associated metazoan biodiversity with eDNA metabarcoding Open
View article: Sensitive and efficient surveillance of Japanese giant salamander (Andrias japonicus) distribution in western Japan using multi-copy nuclear DNA marker
Sensitive and efficient surveillance of Japanese giant salamander (Andrias japonicus) distribution in western Japan using multi-copy nuclear DNA marker Open
Japanese giant salamander ( Andrias japonicus ) is one of the largest amphibian species in the world and an iconic species in Japan. However, as its distribution has recently declined across the country, rapid and extensive monitoring of t…
View article: Environmental <scp>DNA</scp> biomonitoring in biodiversity hotspots: A case study of fishes of the Okavango Delta
Environmental <span>DNA</span> biomonitoring in biodiversity hotspots: A case study of fishes of the Okavango Delta Open
The Okavango Delta is the largest freshwater wetland in southern Africa and a recognized biodiversity hotspot and UNESCO World Heritage Site. The region is extremely rich in floral and faunal diversity, including a fish fauna of ~90 specie…
View article: Phylogenomics reveals the deep ocean as an accelerator for evolutionary diversification in anglerfishes
Phylogenomics reveals the deep ocean as an accelerator for evolutionary diversification in anglerfishes Open
Colonization of a novel habitat is often followed by radiation in the wake of ecological opportunity. Alternatively, some habitats should be inherently more constraining than others if the challenges of that environment have few evolutiona…
View article: Collection of environmental DNA from stemflow for monitoring arboreal biodiversity: Preliminary validation using lichens
Collection of environmental DNA from stemflow for monitoring arboreal biodiversity: Preliminary validation using lichens Open
View article: Author response: Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Author response: Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
Full text Figures and data Side by side Abstract eLife assessment eLife digest Introduction Materials and methods Results and discussion Data availability References Peer review Author response Article and author information Metrics Abstra…
View article: Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
The effects of temperature on interaction strengths are important for understanding and forecasting how global climate change impacts marine ecosystems; however, tracking and quantifying interactions of marine fish species are practically …
View article: Author Response: Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Author Response: Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
The effects of temperature on interaction strengths are important for understanding and forecasting how global climate change impacts marine ecosystems; however, tracking and quantifying interactions of marine fish species is practically d…
View article: Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
The effects of temperature on interaction strengths are important for understanding and forecasting how global climate change impacts marine ecosystems; however, tracking and quantifying interactions of marine fish species is practically d…
View article: Reviewer #1 (Public Review): Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Reviewer #1 (Public Review): Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
The effects of temperature on interaction strengths are important for understanding and forecasting how global climate change impacts marine ecosystems; however, tracking and quantifying interactions of marine fish species is practically d…
View article: Reviewer #2 (Public Review): Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Reviewer #2 (Public Review): Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
The effects of temperature on interaction strengths are important for understanding and forecasting how global climate change impacts marine ecosystems; however, tracking and quantifying interactions of marine fish species is practically d…
View article: Reviewer #1 (Public Review): Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Reviewer #1 (Public Review): Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
The effects of temperature on interaction strengths are important for understanding and forecasting how global climate change impacts marine ecosystems; however, tracking and quantifying interactions of marine fish species is practically d…
View article: Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
The effects of temperature on interaction strengths are important for understanding and forecasting how global climate change impacts marine ecosystems; however, tracking and quantifying interactions of marine fish species are practically …
View article: Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities
Temperature sensitivity of the interspecific interaction strength of coastal marine fish communities Open
The effects of temperature on interaction strengths are important for understanding and forecasting how global climate change impacts marine ecosystems; however, tracking and quantifying interactions of marine fish species is practically d…
View article: Pilot study of a comprehensive resource estimation method from environmental DNA using universal D-loop amplification primers
Pilot study of a comprehensive resource estimation method from environmental DNA using universal D-loop amplification primers Open
Many studies have investigated the ability of environmental DNA (eDNA) to identify the species. However, when individual species are to be identified, accurate estimation of their abundance using traditional eDNA analyses is still difficul…
View article: MitoFish, MitoAnnotator, and MiFish Pipeline: Updates in 10 Years
MitoFish, MitoAnnotator, and MiFish Pipeline: Updates in 10 Years Open
MitoFish, MitoAnnotator, and MiFish Pipeline are comprehensive databases of fish mitochondrial genomes (mitogenomes), accurate annotation software of fish mitogenomes, and a web platform for metabarcoding analysis of fish mitochondrial env…
View article: Sensitive and efficient surveillance of Japanese giant salamander (Andrias japonicus) distribution in Western Japan using multi-copy nuclear DNA marker
Sensitive and efficient surveillance of Japanese giant salamander (Andrias japonicus) distribution in Western Japan using multi-copy nuclear DNA marker Open
Japanese giant salamander ( Andrias japonicus ) is one of the largest amphibian species in the world and an iconic species in Japan. However, as its distribution has recently declined across the country, rapid and extensive monitoring of i…
View article: Where and when to sample: Investigating spatio-temporal variation of community assemblages in kelp forest systems with eDNA metabarcoding
Where and when to sample: Investigating spatio-temporal variation of community assemblages in kelp forest systems with eDNA metabarcoding Open
Environmental DNA metabarcoding is a powerful tool for monitoring marine biodiversity, yet several outstanding questions remain regarding the persistence of eDNA. In this study, we use fine-scale spatial (1 m, 8 m) and temporal sampling (e…