scholarly journals Environmental DNA method for estimating salamander distribution in headwater streams, and a comparison of water sampling methods

PLoS ONE ◽  
2017 ◽  
Vol 12 (5) ◽  
pp. e0176541 ◽  
Author(s):  
Izumi Katano ◽  
Ken Harada ◽  
Hideyuki Doi ◽  
Rio Souma ◽  
Toshifumi Minamoto
Keyword(s):  
Sampling Methods ◽  
Headwater Streams ◽  
Environmental Dna ◽  
Water Sampling

scholarly journals Evaluating sediment and water sampling methods for the estimation of deep-sea biodiversity using environmental DNA

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Miriam I. Brandt ◽  
Florence Pradillon ◽  
Blandine Trouche ◽  
Nicolas Henry ◽  
Cathy Liautard-Haag ◽  
...  
Keyword(s):  
Deep Sea ◽  
Sampling Methods ◽  
Alpha Diversity ◽  
Environmental Dna ◽  
Size Class ◽  
Sampling Strategies ◽  
Water Sampling ◽  
Dna Metabarcoding ◽  
Genetic Assessment

AbstractDespite representing one of the largest biomes on earth, biodiversity of the deep seafloor is still poorly known. Environmental DNA metabarcoding offers prospects for fast inventories and surveys, yet requires standardized sampling approaches and careful choice of environmental substrate. Here, we aimed to optimize the genetic assessment of prokaryote (16S), protistan (18S V4), and metazoan (18S V1–V2, COI) communities, by evaluating sampling strategies for sediment and aboveground water, deployed simultaneously at one deep-sea site. For sediment, while size-class sorting through sieving had no significant effect on total detected alpha diversity and resolved similar taxonomic compositions at the phylum level for all markers studied, it effectively increased the detection of meiofauna phyla. For water, large volumes obtained from an in situ pump (~ 6000 L) detected significantly more metazoan diversity than 7.5 L collected in sampling boxes. However, the pump being limited by larger mesh sizes (> 20 µm), only captured a fraction of microbial diversity, while sampling boxes allowed access to the pico- and nanoplankton. More importantly, communities characterized by aboveground water samples significantly differed from those characterized by sediment, whatever volume used, and both sample types only shared between 3 and 8% of molecular units. Together, these results underline that sediment sieving may be recommended when targeting metazoans, and aboveground water does not represent an alternative to sediment sampling for inventories of benthic diversity.

scholarly journals Assessment of vadose zone sampling methods for detection of preferential herbicide transport

2009 ◽  
Vol 6 (6) ◽  
pp. 7247-7285 ◽  
Author(s):  
N. P. Peranginangin ◽  
B. K. Richards ◽  
T. S. Steenhuis
Keyword(s):  
Vadose Zone ◽  
Preferential Flow ◽  
Sampling Methods ◽  
Sandy Loam ◽  
Silty Clay ◽  
Water Sampling ◽  
Herbicide Transport ◽  
Flow Mechanisms ◽  
Ceramic Cups ◽  
Zone Sampling

Abstract. Accurate soil water sampling is needed for monitoring of pesticide leaching through the vadose zone, especially in soils with significant preferential flowpaths. We assessed the effectiveness of wick and gravity pan lysimeters as well as ceramic cups (installed 45–60 cm deep) in strongly-structured silty clay loam (Hudson series) and weakly-structured fine sandy loam (Arkport series) soils. Simulated rainfall (10–14 cm in 4 d, approximately equal to a 10-yr, 24 h storm) was applied following concurrent application of agronomic rates (0.2 g m−2) of atrazine (6-chloro-N2-ethyl-N4-isopropyl-1,3,5-triazine-2,4-diamine) and 2,4-D (2,4-dichloro-phenoxy-acetic acid) immediately following application of a chloride tracer (22–44 g m−2). Preferential flow mechanisms were observed in both soils, with herbicide and tracer mobility greater than would be predicted by uniform flow. Preferential flow was more dominant in the Hudson soil, with earlier breakthroughs observed. Mean wick and gravity pan sampler percolate concentrations at 60 cm depth ranged from 96 to 223 μg L−1 for atrazine and 54 to 78 μg L−1 for 2,4-D at the Hudson site, and from 7 to 22 μg L−1 for atrazine and 0.5 to 2.8 μg L−1 for 2,4-D at the Arkport site. Gravity and wick pan lysimeters had comparably good collection efficiencies at elevated soil moisture levels, whereas wick pan samplers performed better at lower moisture contents. Cup samplers performed poorly with wide variations in collections and solute concentrations.

scholarly journals SEASONAL CHANGES IN ENVIRONMENTAL DNA IN SEAGRASS BEDS AND EXAMINATION OF WATER SAMPLING PROCEDURE

2020 ◽  
Vol 76 (2) ◽  
pp. I_943-I_948
Author(s):  
Maiko AKATSUKA ◽  
Yuriko TAKAYAMA ◽  
Edwin MUCHEVBE ◽  
Kazunori ITO ◽  
Kenta WATANABE ◽  
...  
Keyword(s):  
Seasonal Changes ◽  
Environmental Dna ◽  
Sampling Procedure ◽  
Seagrass Beds ◽  
Water Sampling

A review of marine water sampling methods for trace metals

2020 ◽  
Vol 21 (3-4) ◽  
pp. 267-290 ◽  
Author(s):  
A. E. Noble ◽  
C. B. Tuit ◽  
J. P. Maney ◽  
A. D. Wait
Keyword(s):  
Trace Metals ◽  
Sampling Methods ◽  
Marine Water ◽  
Water Sampling

Baltimore Water Sampling Methods

1948 ◽  
Vol 40 (6) ◽  
pp. 625-630
Author(s):  
George W. Schucker
Keyword(s):  
Sampling Methods ◽  
Water Sampling

Water sampling for environmental DNA surveys by using an unmanned aerial vehicle

2017 ◽  
Vol 15 (11) ◽  
pp. 939-944 ◽  
Author(s):  
Hideyuki Doi ◽  
Yoshihisa Akamatsu ◽  
Yutaka Watanabe ◽  
Masuji Goto ◽  
Ryutei Inui ◽  
...  
Keyword(s):  
Unmanned Aerial Vehicle ◽  
Environmental Dna ◽  
Water Sampling ◽  
Aerial Vehicle

scholarly journals Environmental DNA facilitates accurate, indigenous-led, inexpensive, and multi-year population estimates of millions of Eulachon fish

2019 ◽  
Author(s):  
Meredith Pochardt ◽  
Jennifer M. Allen ◽  
Ted Hart ◽  
Sophie D. L. Miller ◽  
Douglas W. Yu ◽  
...  
Keyword(s):  
Area Under The Curve ◽  
Cost Savings ◽  
Environmental Dna ◽  
Population Monitoring ◽  
Population Estimates ◽  
Water Sampling ◽  
Mark Recapture ◽  
Temporal Sampling ◽  
The Relationship

AbstractAlthough environmental DNA shed from an organism is now widely used for species detection in a wide variety of contexts, mobilizing environmental DNA for management requires estimation of population size and trends rather than simply assessing presence or absence. However, the efficacy of environmental-DNA-based indices of abundance for long-term population monitoring have not yet been assessed. Here we report on the relationship between six years of mark-recapture population estimates for eulachon (Thaleichthys pacificus) and ‘eDNA rates,’ which are calculated from the product of stream flow and DNA concentration. Eulachon are a culturally and biologically important anadromous fish that have significantly declined in the southern part of their range but were historically rendered into oil and traded. Both the peak eDNA rate and the area under the curve of the daily eDNA rate were highly predictive of the mark-recapture population estimate, explaining 84.96% and 92.53% of the deviance respectively. Even in the absence of flow correction, the peak of the daily eDNA concentration explained an astonishing 89.53% while the area under the curve explained 90.74% of the deviance. These results support the use of eDNA to monitor eulachon population trends and represent a >80% cost savings over mark-recapture, which could be further increased with automated water sampling, reduced replication, and focused temporal sampling. Due to its logistical ease and affordability, eDNA sampling can facilitate monitoring a larger number of rivers and in remote locations where mark-recapture is infeasible.

scholarly journals eDNAir: proof of concept that animal DNA can be collected from air sampling

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e11030
Author(s):  
Elizabeth L. Clare ◽  
Chloe K. Economou ◽  
Chris G. Faulkes ◽  
James D. Gilbert ◽  
Frances Bennett ◽  
...  
Keyword(s):  
Sampling Methods ◽  
Air Sampling ◽  
Research Programme ◽  
Environmental Dna ◽  
Aquatic Systems ◽  
Ecological Research ◽  
Proof Of Concept ◽  
Confined Space ◽  
Substantial Interest

Environmental DNA (eDNA) is one of the fastest developing tools for species biomonitoring and ecological research. However, despite substantial interest from research, commercial and regulatory sectors, it has remained primarily a tool for aquatic systems with a small amount of work in substances such as soil, snow and rain. Here we demonstrate that eDNA can be collected from air and used to identify mammals. Our proof of concept successfully demonstrated that eDNA sampled from air contained mixed templates which reflect the species known to be present within a confined space and that this material can be accessed using existing sampling methods. We anticipate this demonstration will initiate a much larger research programme in terrestrial airDNA sampling and that this may rapidly advance biomonitoring approaches. Lastly, we outline these and potential related applications we expect to benefit from this development.

scholarly journals Efficacy of environmental DNA to detect and quantify stream tadpoles of Odorrana splendida

2019 ◽  
Vol 6 (1) ◽  
pp. 181798 ◽  
Author(s):  
Noriko Iwai ◽  
Kiyomi Yasumiba ◽  
Teruhiko Takahara
Keyword(s):  
Water Samples ◽  
Environmental Dna ◽  
Absolute Amount ◽  
Water Sampling ◽  
Relationship Patterns ◽  
Field Surveys ◽  
Lotic Systems ◽  
Frog Species ◽  
Different Seasons ◽  
The Relationship

Environmental DNA (eDNA) can be used to detect and estimate the density of rare or secretive species, especially in aquatic systems. However, the efficacy of eDNA method has not been validated in lotic systems. We examined the efficacy of the eDNA method to detect and estimate abundance and biomass of a stream-dwelling frog species, Odorrana splendida . We conducted eight field surveys over 2 years and obtained 53 water samples from 10 streams with known distribution of O. splendida tadpoles. The eDNA method accurately detected the presence of O. splendida in 79.2% of survey samples. The amount of O. splendida eDNA (copies s −1 ) in the water samples fluctuated seasonally and each site showed different peaks during different seasons. The relationship between the abundance or biomass of tadpoles and the amount of eDNA was significantly positive, but was not strong, probably because of a large difference in the relationship patterns among streams. In lotic systems, water flow might prevent even distribution of eDNA and thus make it difficult to obtain eDNA reflecting its total amount in the water. Sampling a larger amount of water or higher number of subsamples might more accurately reflect the presence and absolute amount of eDNA in water.

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