scholarly journals Estimating fish population abundance by integrating quantitative data on environmental DNA and hydrodynamic modelling

2018 ◽  
Author(s):  
Keiichi Fukaya ◽  
Hiroaki Murakami ◽  
Seokjin Yoon ◽  
Kenji Minami ◽  
Yutaka Osada ◽  
...  
Keyword(s):  
Environmental Dna ◽  
Cost Effective ◽  
Population Monitoring ◽  
Fish Population ◽  
Abundance Estimation ◽  
Population Abundance ◽  
Jack Mackerel ◽  
Non Invasive ◽  
Quantitative Measurements ◽  
Japanese Jack Mackerel

AbstractWe propose a general framework of abundance estimation based on spatially replicated quantitative measurements of environmental DNA in which production, transport, and degradation of DNA are explicitly accounted for. Application to a Japanese jack mackerel (Trachurus japonicus) population in Maizuru Bay revealed that the method gives an estimate of population abundance comparable to that of a quantitative echo sounder method. These findings indicate the ability of environmental DNA to reliably reflect population abundance of aquatic macroorganisms and may offer a new avenue for population monitoring based on the fast, cost-effective, and non-invasive sampling of genetic information.

scholarly journals Environmental DNA as a ‘Snapshot’ of Fish Distribution: A Case Study of Japanese Jack Mackerel in Maizuru Bay, Sea of Japan

PLoS ONE ◽  
2016 ◽  
Vol 11 (3) ◽  
pp. e0149786 ◽  
Author(s):  
Satoshi Yamamoto ◽  
Kenji Minami ◽  
Keiichi Fukaya ◽  
Kohji Takahashi ◽  
Hideki Sawada ◽  
...  
Keyword(s):  
Sea Of Japan ◽  
Environmental Dna ◽  
Fish Distribution ◽  
Jack Mackerel ◽  
Japanese Jack Mackerel

scholarly journals Droplet digital PCR applied to environmental DNA, a promising method to estimate fish population abundance from humic‐rich aquatic ecosystems

2020 ◽  
Author(s):  
Eric Capo ◽  
Göran Spong ◽  
Shuntaro Koizumi ◽  
Isolde Puts ◽  
Fredrik Olajos ◽  
...  
Keyword(s):  
Aquatic Ecosystems ◽  
Environmental Dna ◽  
Digital Pcr ◽  
Fish Population ◽  
Droplet Digital Pcr ◽  
Promising Method ◽  
Population Abundance

scholarly journals Estimation of wolf population density using spatial capture-recapture: refining methods for monitoring cryptic species

2016 ◽  
Author(s):  
Gretchen H Roffler ◽  
Jason N Waite ◽  
Rodney W Flynn ◽  
Kristian R Larson
Keyword(s):  
Traditional Approach ◽  
Cost Effective ◽  
Population Monitoring ◽  
Population Abundance ◽  
Wolf Population ◽  
Southeast Alaska ◽  
Capture Recapture ◽  
Odocoileus Hemionus Sitkensis ◽  
Fragmented Forests ◽  
Hair Snares

Wolves (Canis lupus) in Southeast Alaska have been proposed for listing under the U.S. Endangered Species Act first in 1993, and more recently in 2011. Reports of declining wolf populations sparked concern, in addition to high rates of logging and broad-scale succession patterns predicted to negatively impact Sitka black-tailed deer (Odocoileus hemionus sitkensis), the primary ungulate prey species of wolves in Southeast Alaska. Given the recurring interest of wolf viability in the region, and in order to manage wolves and their prey sustainably, it is imperative to obtain regular and reliable population estimates. However, monitoring wolves in temperate rainforests is challenging because the landscape obscures visibility and lowers success of traditional methods such as aerial surveys and radio collar mark-recapture. We used hair snares to collect DNA samples and spatially-explicit capture-recapture (SECR) models to estimate fall wolf density during 2012–2015 on northcentral Prince of Wales Island (POW), Alaska. We incorporated covariates including sex, behavioral responses, and site-specific changes in effectiveness of detection probability by fitting hybrid mixture models to the data. We also incorporated into our models landscape variables including forest habitats in various management conditions and succession stages to relate to wolf habitat selection. We concurrently implemented a traditional approach for comparison to the DNA-based SECR method using radiocollared wolf data to estimate population abundance with minimum counts and the size of wolf packs and pack territories. The results of the DNA-based SECR method proved to be more reliable, efficient, cost-effective, and robust than the traditional method, which was sensitive to violations of model assumptions. Our efforts to improve SECR density estimate precision by increasing the hair sampling intensity and area resulted in more wolf hair detections and redetections, and increased the number of unique wolves redetected. Based on multiple lines of evidence, we report a decline in wolf population abundance over the past 2 decades in northcentral POW. We conclude that DNA-based SECR is an effective tool for regular population monitoring, as is required in situations of elevated concern for the persistence of a population, and may simultaneously provide information on heterogeneous landscape use, an important wildlife management consideration in fragmented forests.

scholarly journals Development of a 16S metabarcoding assay for the environmental DNA (eDNA) detection of aquatic reptiles across northern Australia

2020 ◽  
Author(s):  
Katrina West ◽  
Matthew Heydenrych ◽  
Rose Lines ◽  
Tony Tucker ◽  
Sabrina Fossette ◽  
...  
Keyword(s):  
Simultaneous Detection ◽  
Environmental Dna ◽  
Cost Effective ◽  
Distribution Data ◽  
Freshwater Turtles ◽  
Northern Australia ◽  
Non Invasive ◽  
Sea Snakes ◽  
Reptile Species ◽  
Species Specific

AbstractA severe lack of distribution data for aquatic reptiles in northern Australia leaves many taxa vulnerable to extirpation and extinction. Environmental DNA (eDNA) technologies offer sensitive and non-invasive genetic alternatives to trapping and visual surveys and are increasingly employed for the detection of aquatic and semi-aquatic reptiles. However, at present, these studies have largely applied species-specific primers which do not provide a cost-effective avenue for the simultaneous detection of multiple reptilian taxa. Here, we present a 16S rRNA metabarcoding assay for the broad detection of aquatic and semi-aquatic reptile species. This assay is tested on water samples collected at multiple sampling sites at two tropical locations: 12 marine/estuarine sites in Roebuck Bay, Western Australia, and 4 estuarine sites in Cooktown, Queensland, Australia. A total of nine reptile taxa were detected from 10 of the 16 sampled sites, including marine and freshwater turtles, aquatic and semi-aquatic/terrestrial snakes, and terrestrial skinks. However, inconsistencies in the detection of previously observed aquatic reptiles at our sampled sites, such as saltwater crocodile and sea snakes, indicates that further research is required to assess the reliability, strengths and limitations of eDNA methods for aquatic reptile detection before it can be integrated as a broad-scale bioassessment tool.

scholarly journals Estimating fish population abundance by integrating quantitative data on environmental DNA and hydrodynamic modelling

2020 ◽  
Author(s):  
Keiichi Fukaya ◽  
Hiroaki Murakami ◽  
Seokjin Yoon ◽  
Kenji Minami ◽  
Yutaka Osada ◽  
...  
Keyword(s):  
Quantitative Data ◽  
Environmental Dna ◽  
Fish Population ◽  
Hydrodynamic Modelling ◽  
Population Abundance

scholarly journals Transgenes of genetically modified animals detected non-invasively via environmental DNA

PLoS ONE ◽  
2021 ◽  
Vol 16 (8) ◽  
pp. e0249439
Author(s):  
Charles C. Y. Xu ◽  
Claire Ramsay ◽  
Mitra Cowan ◽  
Mehrnoush Dehghani ◽  
Paul Lasko ◽  
...  
Keyword(s):  
Genetically Modified ◽  
Pcr Amplification ◽  
Environmental Dna ◽  
Cost Effective ◽  
Laboratory Mice ◽  
Non Invasive ◽  
Aquarium Water ◽  
Food Media ◽  
Gm Animals ◽  
Genetically Modified Animals

We demonstrate that simple, non-invasive environmental DNA (eDNA) methods can detect transgenes of genetically modified (GM) animals from terrestrial and aquatic sources in invertebrate and vertebrate systems. We detected transgenic fragments between 82–234 bp through targeted PCR amplification of environmental DNA extracted from food media of GM fruit flies (Drosophila melanogaster), feces, urine, and saliva of GM laboratory mice (Mus musculus), and aquarium water of GM tetra fish (Gymnocorymbus ternetzi). With rapidly growing accessibility of genome-editing technologies such as CRISPR, the prevalence and diversity of GM animals will increase dramatically. GM animals have already been released into the wild with more releases planned in the future. eDNA methods have the potential to address the critical need for sensitive, accurate, and cost-effective detection and monitoring of GM animals and their transgenes in nature.

scholarly journals Correction: Environmental DNA as a 'Snapshot' of Fish Distribution: A Case Study of Japanese Jack Mackerel in Maizuru Bay, Sea of Japan

PLoS ONE ◽  
2016 ◽  
Vol 11 (4) ◽  
pp. e0153291 ◽  
Author(s):  
Satoshi Yamamoto ◽  
Kenji Minami ◽  
Keiichi Fukaya ◽  
Kohji Takahashi ◽  
Hideki Sawada ◽  
...  
Keyword(s):  
Sea Of Japan ◽  
Environmental Dna ◽  
Fish Distribution ◽  
Jack Mackerel ◽  
Japanese Jack Mackerel

scholarly journals Estimation of wolf population density using spatial capture-recapture: refining methods for monitoring cryptic species

2016 ◽  
Author(s):  
Gretchen H Roffler ◽  
Jason N Waite ◽  
Rodney W Flynn ◽  
Kristian R Larson
Keyword(s):  
Traditional Approach ◽  
Cost Effective ◽  
Population Monitoring ◽  
Population Abundance ◽  
Wolf Population ◽  
Southeast Alaska ◽  
Capture Recapture ◽  
Odocoileus Hemionus Sitkensis ◽  
Fragmented Forests ◽  
Hair Snares

Wolves (Canis lupus) in Southeast Alaska have been proposed for listing under the U.S. Endangered Species Act first in 1993, and more recently in 2011. Reports of declining wolf populations sparked concern, in addition to high rates of logging and broad-scale succession patterns predicted to negatively impact Sitka black-tailed deer (Odocoileus hemionus sitkensis), the primary ungulate prey species of wolves in Southeast Alaska. Given the recurring interest of wolf viability in the region, and in order to manage wolves and their prey sustainably, it is imperative to obtain regular and reliable population estimates. However, monitoring wolves in temperate rainforests is challenging because the landscape obscures visibility and lowers success of traditional methods such as aerial surveys and radio collar mark-recapture. We used hair snares to collect DNA samples and spatially-explicit capture-recapture (SECR) models to estimate fall wolf density during 2012–2015 on northcentral Prince of Wales Island (POW), Alaska. We incorporated covariates including sex, behavioral responses, and site-specific changes in effectiveness of detection probability by fitting hybrid mixture models to the data. We also incorporated into our models landscape variables including forest habitats in various management conditions and succession stages to relate to wolf habitat selection. We concurrently implemented a traditional approach for comparison to the DNA-based SECR method using radiocollared wolf data to estimate population abundance with minimum counts and the size of wolf packs and pack territories. The results of the DNA-based SECR method proved to be more reliable, efficient, cost-effective, and robust than the traditional method, which was sensitive to violations of model assumptions. Our efforts to improve SECR density estimate precision by increasing the hair sampling intensity and area resulted in more wolf hair detections and redetections, and increased the number of unique wolves redetected. Based on multiple lines of evidence, we report a decline in wolf population abundance over the past 2 decades in northcentral POW. We conclude that DNA-based SECR is an effective tool for regular population monitoring, as is required in situations of elevated concern for the persistence of a population, and may simultaneously provide information on heterogeneous landscape use, an important wildlife management consideration in fragmented forests.

A novel use of contrast-enhanced ultrasound in uterine artery embolization

2020 ◽  
Vol 4 ◽  
pp. 8
Author(s):  
Jemianne Bautista Jia ◽  
Eric Mastrolonardo ◽  
Mateen Soleman ◽  
Ilya Lekht
Keyword(s):  
Uterine Artery Embolization ◽  
Uterine Artery ◽  
Imaging Modality ◽  
Cost Effective ◽  
Contrast Enhanced Ultrasound ◽  
Artery Embolization ◽  
Non Invasive ◽  
Contrast Enhanced

Contrast-enhanced ultrasound (CEUS) is a cost-effective, quick, and non-invasive imaging modality that has yet to be incorporated in uterine artery embolization (UAE). We present two cases that demonstrate the utility of CEUS in UAE for the identification of uterine-ovarian collaterals which otherwise can result in ineffective fibroid treatment and non-target embolization.

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