Environmental DNA,
Journal Year:
2024,
Volume and Issue:
6(6)
Published: Nov. 1, 2024
ABSTRACT
Environmental
DNA
(eDNA)
sampling
is
a
powerful
method
for
detecting
aquatic
species
at
low
densities.
However,
eDNA
may
remain
close
to
the
source
in
lentic
systems,
decreasing
effectiveness
of
surveys.
We
conducted
cage
experiments
with
salamanders
and
simultaneous
detailed
hydrologic
wind
measurements
investigate
influence
physical
environment
on
detection
patterns
ponds.
found
much
higher
rates
surface
layer
than
depth,
that
vegetation
reduced
produced
open
water
by
80%–94%.
Within
mixed
layer,
were
highest
direction
flow
bottom
half
detections
farthest
from
occurred
when
velocities
this
sublayer
high.
Detections
near
zero
even
was
flowing
fast
away
point.
The
lower
negatively
correlated
most
study.
These
spatial
temporal
dynamics
indicate
transport
processes
ponds
are
highly
complex.
Sampling
vegetation,
upwind
potential
sources,
addition
many
locations
within
pond
considering
patterns,
improve
rare
species.
This
work
contributes
growing
body
literature
characterizing
variability
systems.
Aquatic Conservation Marine and Freshwater Ecosystems,
Journal Year:
2023,
Volume and Issue:
33(12), P. 1401 - 1412
Published: Oct. 30, 2023
Abstract
Wildlife
surveys
are
central
to
the
conservation
and
restoration
management
of
wetland
habitats;
however,
often
laborious
costly
nature
traditional
survey
methods
can
constrain
spatial
temporal
extent
replication
efforts.
Environmental
DNA
(eDNA)
technologies
now
provide
opportunity
reduce
some
these
limitations,
but
applications
in
temporary
permanent
freshwater
marshes
meadows
(herein
referred
as
‘wetland
habitats’)
remain
limited.
This
study
investigates
performance
single‐time‐point
eDNA
for
characterizing
fish,
amphibian
bird
assemblages
habitats
south‐eastern
Australia.
Comparisons
were
made
between
coastal
inland
wetlands,
wetlands
varying
condition
surveys.
Findings
show
that
comprehensive
descriptions
faunal
associated
with
habitats,
resolution
similar
provided
by
approaches.
Analyses
also
revealed
significant
differences
patterns
biodiversity
types
(coastal
vs.
inland)
not
condition.
Overall,
this
confirms
a
reliable
option
undertaking
assessments
aimed
at
improving
data
coverage
otherwise
deficient
wetlands.
Environmental DNA,
Journal Year:
2024,
Volume and Issue:
6(1)
Published: Jan. 1, 2024
Abstract
Moor
frogs
(
Rana
arvalis
)
are
protected
by
the
European
Union's
Habitats
Directive,
often
making
them
a
target
for
environmental
impact
assessments.
However,
moor
frog
detection
with
traditional
method
using
their
mating
calls
is
difficult,
time‐consuming,
and
limited
to
short
season.
Environmental
DNA
(eDNA)‐based
methods
could
be
beneficial
in
since
shy
co‐occurring
common
R.
temporaria
morphologically
similar.
Additionally,
eDNA‐based
even
extend
period
of
frogs.
We
tested
two
different
isolation
eDNA
methods,
Sanger
sequencing
quantitative
PCR
(qPCR),
compared
results
call
survey
method.
In
addition,
we
whether
linear
polyacrylamide
treatment
would
improve
detection.
sampled
27
sites
Finland,
which
were
detected
17
acoustic
method,
20
sequencing‐based
21
qPCR‐based
water
bodies
during
3–4
weeks
after
end
Our
show
that
both
(Sanger
qPCR)
can
used
detect
at
least
weeks,
but
qPCR
slightly
outperforms
sequencing.
Linear
did
not
results.
Detection
probabilities
similar
or
higher
than
as
also
heard.
Based
on
our
results,
highly
monitoring
presence
complement
surveys.
Environmental DNA,
Journal Year:
2024,
Volume and Issue:
6(5)
Published: Sept. 1, 2024
Abstract
Environmental
DNA
(eDNA)
analysis
is
a
promising
tool
for
monitoring
wild
animal
populations
and,
more
recently,
their
genetic
variability.
In
this
study,
we
used
the
mitochondrial
Cytochrome
B
gene
to
develop
and
apply
new
eDNA
metabarcoding
assays
targeting
amphibian
families
genera
in
order
estimate
both
inter‐
intraspecific
diversity.
We
designed
tested
seven
primer
pairs
(a)
silico
against
an
reference
database
based
on
target
genera;
(b)
vitro
tissue
samples
of
species;
(c)
situ
water
from
38
wetlands
Province
Trento
(Italy).
Overall,
most
species
were
amplified
successfully,
although
some
markers
also
non‐target
species.
addition,
complete
workflow,
compared
performance
three
different
bioinformatic
pipelines
(namely,
MICCA
with
VSEARCH,
OBITools
using
ecotag
or
metabinkit),
retrieving
reads
exact
sequence
variants
datasets.
pipeline
retrieved
reads,
but
less
putative
haplotypes
amphibians.
After
comparing
these
sequences
previously
known
tissue‐based
studies,
when
aim
decrease
probability
detecting
false
retrieve
highest
number
suggest
MICCA+VSEARCH,
unless
direct
comparison
data
possible.
Environmental DNA,
Journal Year:
2024,
Volume and Issue:
6(6)
Published: Nov. 1, 2024
ABSTRACT
Environmental
DNA
(eDNA)
sampling
is
a
powerful
method
for
detecting
aquatic
species
at
low
densities.
However,
eDNA
may
remain
close
to
the
source
in
lentic
systems,
decreasing
effectiveness
of
surveys.
We
conducted
cage
experiments
with
salamanders
and
simultaneous
detailed
hydrologic
wind
measurements
investigate
influence
physical
environment
on
detection
patterns
ponds.
found
much
higher
rates
surface
layer
than
depth,
that
vegetation
reduced
produced
open
water
by
80%–94%.
Within
mixed
layer,
were
highest
direction
flow
bottom
half
detections
farthest
from
occurred
when
velocities
this
sublayer
high.
Detections
near
zero
even
was
flowing
fast
away
point.
The
lower
negatively
correlated
most
study.
These
spatial
temporal
dynamics
indicate
transport
processes
ponds
are
highly
complex.
Sampling
vegetation,
upwind
potential
sources,
addition
many
locations
within
pond
considering
patterns,
improve
rare
species.
This
work
contributes
growing
body
literature
characterizing
variability
systems.
