Journal of The Royal Society Interface,
Journal Year:
2024,
Volume and Issue:
21(214)
Published: May 1, 2024
Simple
models
have
been
used
to
describe
ecological
processes
for
over
a
century.
However,
the
complexity
of
systems
makes
simple
subject
modelling
bias
due
simplifying
assumptions
or
unaccounted
factors,
limiting
their
predictive
power.
Neural
ordinary
differential
equations
(NODEs)
surged
as
machine-learning
algorithm
that
preserves
dynamic
nature
data
(Chen
et
al.
2018
Adv.
Inf.
Process.
Syst.
).
Although
preserving
dynamics
in
is
an
advantage,
question
how
NODEs
perform
forecasting
tool
communities
unanswered.
Here,
we
explore
this
using
simulated
time
series
competing
species
time-varying
environment.
We
find
provide
more
precise
forecasts
than
autoregressive
integrated
moving
average
(ARIMA)
models.
also
untuned
similar
accuracy
long-short
term
memory
neural
networks
and
both
are
outperformed
precision
by
empirical
dynamical
.
generally
outperform
all
other
methods
when
evaluating
with
interval
score,
which
evaluates
terms
prediction
intervals
rather
pointwise
accuracy.
discuss
ways
improve
performance
NODEs.
The
power
such
it
can
insights
into
population
should
thus
broaden
approaches
studying
communities.
Reviews of Geophysics,
Journal Year:
2024,
Volume and Issue:
62(1)
Published: Feb. 11, 2024
Abstract
Lake
thermal
dynamics
have
been
considerably
impacted
by
climate
change,
with
potential
adverse
effects
on
aquatic
ecosystems.
To
better
understand
the
impacts
of
future
change
lake
and
related
processes,
use
mathematical
models
is
essential.
In
this
study,
we
provide
a
comprehensive
review
water
temperature
modeling.
We
begin
discussing
physical
concepts
that
regulate
in
lakes,
which
serve
as
primer
for
description
process‐based
models.
then
an
overview
different
sources
observational
data,
including
situ
monitoring
satellite
Earth
observations,
used
field
classify
various
available,
discuss
model
performance,
commonly
performance
metrics
optimization
methods.
Finally,
analyze
emerging
modeling
approaches,
forecasting,
digital
twins,
combining
deep
learning,
evaluating
structural
differences
through
ensemble
modeling,
adapted
management,
coupling
This
aimed
at
diverse
group
professionals
working
fields
limnology
hydrology,
ecologists,
biologists,
physicists,
engineers,
remote
sensing
researchers
from
private
public
sectors
who
are
interested
understanding
its
applications.
Journal of Biogeography,
Journal Year:
2025,
Volume and Issue:
unknown
Published: Feb. 24, 2025
ABSTRACT
Aim
This
study
employs
a
novel
modelling
approach
to
analyse
and
project
global
transformations
in
trophic
structures
driven
by
21st‐century
climate
change.
The
objective
is
assess
the
impacts
of
these
changes
on
dynamics,
providing
insights
inform
future
research
biodiversity
conservation
strategies.
Location
A
total
14,520
terrestrial
grid
cells
1°
×
globally.
Time
Period
uses
1990
as
baseline
reference
projects
current
(2018)
conditions
for
2040,
2060,
2080
2100
under
three
Shared
Socioeconomic
Pathways
(SSPs).
Major
Taxa
Studied
Trophic
were
assessed
15,265
species,
including
9993
non‐marine
birds
5272
mammals,
across
9
predefined
guilds.
Methods
spatially
explicit
community
structure
model
was
implemented
using
extreme
gradient
boosting
algorithm
(Xgboost).
trained
climatic
data
subset
6610
continental
partially
or
fully
overlapping
with
protected
areas.
It
subsequently
used
Pathways:
SSP2‐45,
SSP3‐70
SSP5‐85.
Results
Xgboost
showed
high
predictive
accuracy
(86%,
kappa
=
0.91).
Projections
reveal
extinction
pressures
concentrated
tropical
subtropical
regions,
disproportionately
affecting
specialised
guilds
such
frugivores
invertivores,
while
colonisation
predominantly
occur
boreal,
temperate
high‐altitude
Andes
Himalayas,
favouring
plant‐invertivores
granivores.
By
end
century,
significant
reorganisations
are
projected,
potentially
leading
homogenisation
structures.
Main
Conclusions
Climate
change
driving
communities
globally,
uneven
effects
regions
These
highlight
vulnerability
potential
expansion
more
generalist
ones.
Integrating
models
(CTSMs)
into
strategies
essential
complement
species
distribution
models,
comprehensive
framework
that
integrates
both
dynamics
individual
responses
their
environment.
reinforces
importance
biogeography
key
subdiscipline
within
biogeography,
offering
actionable
mitigating
guiding
efforts.
Frontiers in Ecology and the Environment,
Journal Year:
2023,
Volume and Issue:
21(3), P. 112 - 113
Published: April 1, 2023
The
21st
century
continues
to
be
characterized
by
major
changes
the
environment
and
ecosystem
services
upon
which
society
depends.
Anticipating
responding
these
requires
that
scientists
explicitly
forecast
future
conditions
in
real
time
(Dietze
et
al.
2018).
Ecological
forecasting,
like
weather
epidemiological
involves
integrating
data
models
generate
quantitative
predictions
of
state
ecological
systems
before
observations
are
collected.
iterative
cycle
creating
forecasts,
evaluating
them
with
new
observations,
updating
models,
then
making
forecasts
has
potential
accelerate
learning
across
many
subdisciplines.
This
builds
on
openly
available
data,
often
published
soon
after
collection,
as
is
increasingly
common
observatory
networks,
such
National
Observatory
Network
(NEON).
To
improvements
we
designed
launched
NEON
Forecasting
Challenge
(hereafter,
"Challenge")
(Figure
1),
an
open
platform
for
science
communities
they
forecasting
community
interested
using
advance
theory
(Lewis
2023)
translating
natural
resource
management
(Enquist
2017).
By
analyzing
a
catalog
developed
range
systems,
spatiotemporal
scales,
environmental
gradients,
can
begin
address
fundamental
questions
ecology.
Initiative
Research
Coordination
(EFI-RCN)
–
funded
US
Science
Foundation
(NSF)
invites
broad
ecology
help
build
this
data.
powerful
support
challenge
because
it
provides
standardized
reported
uncertainties
span
levels
biological
organization
terrestrial
freshwater
US.
was
input
from
academic,
government,
private
sectors
through
workshops
working
groups.
We
call
"Challenge"
because,
despite
its
similarities
competitions
(Makridakis
2021),
empowering
do
more
than
just
submit
also
collaboratively
developing
software,
training
materials,
best
practices.
In
May
2020,
Challenge's
design
at
virtual
conference
over
200
attendees
(Peters
Thomas
2021).
Attendees
prioritized
five
"themes"
draw
questions,
have
decision
management:
(1)
temperature,
dissolved
oxygen,
chlorophyll-a;
(2)
carbon
fluxes
evapotranspiration;
(3)
plant
canopy
phenology;
(4)
tick
populations;
(5)
beetle
communities.
Themes
were
identified
meeting,
smaller
teams
detailed
theme-specific
protocols.
protocols
defined
timing
submissions
(when
how
due)
horizons
(how
far
extend
into
future).
With
place,
team
participants
code
convert
products
time-series
ready
modeling
evaluation.
Simultaneously,
EFI-RCN
standards
group
assembled
define
format
metadata
themes
2023).
Likewise,
steering
committee
worked
each
ensure
consistent
(eg
all
quantify
uncertainty
predictions).
Challenge,
created
software
workflows
provisioning
model
inputs
processing
outputs
leverage
modern
cloud
storage
computing
1).
improve
efficiency
downloading
while
facilitating
analysis
exceed
computer
memory
(Boettiger
Other
end-user
tools
easy-to-use
time-series,
process
submitted
score
probabilistic
visualize
submissions.
Every
day
automatically
downloading,
processing,
sharing
NOAA
numerical
ensemble
sites,
eliminating
need
users
so
themselves.
All
technologies
source
generalized
applicable
beyond
Challenge.
hope
everyone
who
participating
feels
empowered
individuals
or
teams.
reduce
barriers,
curated
resources
(documentation,
workflow
examples,
videos)
train
computational
skills
needed
development
submission.
Participants
contribute
any
site
theme,
type
framework
empirical,
process-based,
machine
learning).
set
simple
serve
benchmarks
foundation
forecasting.
Teaching
undergraduate
classrooms
improves
students'
systems-level
thinking
literacy
(Carey
2020).
Similarly,
expands
understanding
complex
concepts
(Moore
2022).
ideal
project
graduate
students
courses
workshops.
rapid,
feedback
inherent
inspires
student
engagement
improvement
evaluated
daily
accepted
become
available.
transform
predictive
providing
generation
delivery.
part
NEON's
mission,
empowers
lead
charge
accomplishing
mission.
However,
extends
well
NEON,
engaging
researchers
not
previously
considered
seeking
approaches.
It
testing
ground
novel
techniques
rapidly
applied
outcomes
conservation.
fosters
creation
workforce
inspiration
blueprint
other
networks
globe.
2021,
beta
round
resulted
2516
contributed
54
different
teams,
ranging
composition
companies.
At
stage
contributions
critical
refining
identifying
educational
materials.
Today,
fully
operational
actively
contributions.
If
you
becoming
involved
more,
see
www.neon4cast.org
(Thomas
aim
further
enable
innovations,
provide
valuable
training,
spark
among
ecologists.
supported
NSF
(DEB-1926388)
provided
NSF-funded
Jetstream2
(OAC-2005506).
program
sponsored
operated
under
cooperative
agreement
Battelle.
material
based
work
NEON.
Any
use
trade,
firm,
product
names
descriptive
purposes
only
does
imply
endorsement
Government.
WebPanel
1
Please
note:
publisher
responsible
content
functionality
supporting
information
supplied
authors.
queries
(other
missing
content)
should
directed
corresponding
author
article.
Biological Conservation,
Journal Year:
2024,
Volume and Issue:
292, P. 110555 - 110555
Published: March 25, 2024
Fire
influences
plant
survival,
reproduction,
and
establishment.
Consequently,
plants
exhibit
fire-related
traits.
Grouping
species
with
similar
traits
into
Plant
Functional
Types
(PFTs)
enables
predictions
of
fire–related
change
based
on
ecological
mechanisms.
However,
if
PFTs
are
to
advance
conservation
decision-making,
we
must
know
robust.
We
developed
a
PFT
approach
predict
how
relative
abundance
changes
as
function
time
since
fire,
tested
empirically.
First,
used
trait
databases
knowledge
assign
Second,
graphical
in
abundance.
Third,
collected
data
at
57
sites,
across
an
81–year
post–fire
chronosequence.
Finally,
using
non–linear
regression
models.
Predictions
the
direction
(increase
or
decrease
from
0
81
years
fire)
were
correct
for
18
24
modelled.
shape
not
accurate,
but
still
useful:
13
out
showed
'excellent'
conformity
predictions,
7
'good'
conformity,
4
'poor'.
Broader
functional
groupings
commonly
ecology,
such
facultative
resprouter,
inadequately
captured
An
this
study
is
that
trajectory
can
be
predicted
deductive
represent
population
processes.
This
suggests
generalize
fire
responses
share
traits,
thus
inform
biodiversity
management.
Ecosphere,
Journal Year:
2023,
Volume and Issue:
14(11)
Published: Nov. 1, 2023
Abstract
This
paper
summarizes
the
open
community
conventions
developed
by
Ecological
Forecasting
Initiative
(EFI)
for
common
formatting
and
archiving
of
ecological
forecasts
metadata
associated
with
these
forecasts.
Such
standards
are
intended
to
promote
interoperability
facilitate
forecast
communication,
distribution,
validation,
synthesis.
For
output
files,
we
first
describe
convention
conceptually
in
terms
global
attributes,
dimensions,
forecasted
variables,
ancillary
indicator
variables.
We
then
illustrate
application
this
two
file
formats
that
currently
preferred
EFI,
netCDF
(network
data
form),
comma‐separated
values
(CSV),
but
note
is
extensible
future
formats.
metadata,
EFI's
identifies
a
subset
conventional
variables
required
(e.g.,
temporal
resolution
variables)
focuses
on
developing
framework
storing
information
about
uncertainty
propagation,
assimilation,
model
complexity,
which
aims
cross‐forecast
The
initial
expands
upon
Metadata
Language
(EML),
commonly
used
standard
ecology.
To
adoption,
also
provide
Github
repository
containing
validator
tool
several
vignettes
R
Python
how
both
write
read
EFI
standard.
Lastly,
guidance
archiving,
making
an
important
distinction
between
short‐term
dissemination
long‐term
while
touching
code
workflows.
Overall,
living
document
can
continue
evolve
over
time
through
process.
New Phytologist,
Journal Year:
2023,
Volume and Issue:
239(2), P. 466 - 476
Published: May 18, 2023
Summary
Interannual
variability
of
seed
production,
known
as
masting,
has
far‐reaching
ecological
impacts
including
effects
on
forest
regeneration
and
the
population
dynamics
consumers.
Because
relative
timing
management
conservation
efforts
in
ecosystems
dominated
by
masting
species
often
determines
their
success,
there
is
a
need
to
study
mechanisms
develop
forecasting
tools
for
production.
Here,
we
aim
establish
production
new
branch
discipline.
We
evaluate
predictive
capabilities
three
models
–
foreMast,
Δ
T
,
sequential
model
designed
predict
trees
using
pan‐European
dataset
Fagus
sylvatica
The
are
moderately
successful
recreating
dynamics.
availability
high‐quality
data
prior
improved
model's
power,
suggesting
that
effective
monitoring
methods
crucial
creating
tools.
In
terms
extreme
events,
better
at
predicting
crop
failures
than
bumper
crops,
likely
because
factors
preventing
understood
processes
leading
large
reproductive
events.
summarize
current
challenges
provide
roadmap
help
advance
discipline
encourage
further
development
mast
forecasting.
PLoS Computational Biology,
Journal Year:
2024,
Volume and Issue:
20(4), P. e1012032 - e1012032
Published: April 29, 2024
Public
health
decisions
must
be
made
about
when
and
how
to
implement
interventions
control
an
infectious
disease
epidemic.
These
should
informed
by
data
on
the
epidemic
as
well
current
understanding
transmission
dynamics.
Such
can
posed
statistical
questions
scientifically
motivated
dynamic
models.
Thus,
we
encounter
methodological
task
of
building
credible,
data-informed
based
stochastic,
partially
observed,
nonlinear
This
necessitates
addressing
tradeoff
between
biological
fidelity
model
simplicity,
reality
misspecification
for
models
at
all
levels
complexity.
We
assess
approaches
these
issues
via
a
case
study
2010-2019
cholera
in
Haiti.
consider
three
developed
expert
teams
advise
vaccination
policies.
evaluate
previous
methods
used
fitting
models,
demonstrate
modified
analysis
strategies
leading
improved
fit.
Specifically,
present
diagnosing
consequent
development
Additionally,
utility
recent
advances
likelihood
maximization
high-dimensional
enabling
likelihood-based
inference
spatiotemporal
incidence
using
this
class
Our
workflow
is
reproducible
extendable,
facilitating
future
investigations
system.
Ecology Letters,
Journal Year:
2025,
Volume and Issue:
28(1)
Published: Jan. 1, 2025
ABSTRACT
With
many
species
interacting
in
nature,
determining
which
interactions
describe
community
dynamics
is
nontrivial.
By
applying
a
computational
modeling
approach
to
an
extensive
field
survey,
we
assessed
the
importance
of
from
plants
(both
inter‐
and
intra‐specific),
pollinators
insect
herbivores
on
plant
performance
(i.e.,
viable
seed
production).
We
compared
inclusion
interaction
effects
as
aggregate
guild‐level
terms
versus
specific
taxonomic
groups.
found
that
continuum
positive
negative
interactions,
containing
mostly
few
strong
taxonomic‐specific
effects,
was
sufficient
performance.
While
with
intraspecific
varied
weakly
positive,
heterospecific
mainly
promoted
competition
facilitated
plants.
The
consistency
these
empirical
findings
over
3
years
suggests
including
groups
rather
than
all
pairwise
high‐order
can
be
for
accurately
describing
variation
across
natural
communities.