Systematic Biology,
Journal Year:
2024,
Volume and Issue:
73(3), P. 613 - 622
Published: March 13, 2024
Abstract
Interspecific
interactions,
including
host–symbiont
associations,
can
profoundly
affect
the
evolution
of
interacting
species.
Given
phylogenies
host
and
symbiont
clades
knowledge
which
species
interact
with
symbiont,
two
questions
are
often
asked:
“Do
closely
related
hosts
symbionts?”
mirror
one
another?.”
These
intertwined
even
collapse
under
specific
situations,
such
that
they
confused
other.
However,
in
most
a
positive
answer
to
first
question,
hereafter
referred
as
“cophylogenetic
signal,”
does
not
imply
close
match
between
phylogenies.
It
suggests
only
past
evolutionary
history
has
contributed
shaping
present-day
arise,
for
example,
through
trait
matching,
or
from
single
ancient
vicariance
event
increases
probability
overlap
geographically.
A
second,
“phylogenetic
congruence,”
is
more
restrictive
it
phylogenies,
may
happen,
if
diversification
tracks
diversifications
were
subject
same
succession
events.
Here
we
apply
set
methods
(ParaFit,
PACo,
eMPRess),
whose
significance
interpreted
evidence
phylogenetic
congruence,
simulations
3
biologically
realistic
scenarios
event,
tracking
frequent
cospeciation
The
latter
scenario
generates
whereas
2
generate
cophylogenetic
signal
absence
congruence.
We
find
tests
global-fit
(ParaFit
PACo)
significant
scenarios,
event-based
(eMPRess)
tracking.
Therefore,
results
should
be
terms
congruence;
arise
when
symbionts
had
independent
histories.
Conversely,
suggest
strong
form
dependency
Clarifying
patterns
detected
by
different
key
understanding
how
interspecific
interactions
shape
shaped
evolution.
Science,
Journal Year:
2022,
Volume and Issue:
377(6612), P. 1328 - 1332
Published: Sept. 15, 2022
The
gut
microbiomes
of
human
populations
worldwide
have
many
core
microbial
species
in
common.
However,
within
a
species,
some
strains
can
show
remarkable
population
specificity.
question
is
whether
such
specificity
arises
from
shared
evolutionary
history
(codiversification)
between
humans
and
their
microbes.
To
test
for
codiversification
host
microbiota,
we
analyzed
paired
metagenomes
genomes
1225
individuals
Europe,
Asia,
Africa,
including
mothers
children.
Between
countries,
parallel
was
evident
Moreover,
displaying
the
strongest
independently
evolved
traits
characteristic
dependency,
reduced
oxygen
temperature
sensitivity.
These
findings
all
point
to
importance
understanding
potential
role
population-specific
microbiome-mediated
disease
phenotypes.
Cell,
Journal Year:
2023,
Volume and Issue:
186(14), P. 3111 - 3124.e13
Published: June 21, 2023
The
gut
microbiome
modulates
immune
and
metabolic
health.
Human
data
are
biased
toward
industrialized
populations,
limiting
our
understanding
of
non-industrialized
microbiomes.
Here,
we
performed
ultra-deep
metagenomic
sequencing
on
351
fecal
samples
from
the
Hadza
hunter-gatherers
Tanzania
comparative
populations
in
Nepal
California.
We
recovered
91,662
genomes
bacteria,
archaea,
bacteriophages,
eukaryotes,
44%
which
absent
existing
unified
datasets.
identified
124
gut-resident
species
vanishing
highlighted
distinct
aspects
related
to
situ
replication
rates,
signatures
selection,
strain
sharing.
Industrialized
microbes
were
found
be
enriched
genes
associated
with
oxidative
stress,
possibly
a
result
adaptation
inflammatory
processes.
This
unparalleled
view
provides
valuable
resource,
expands
capable
colonizing
human
gut,
clarifies
extensive
perturbation
induced
by
lifestyle.
Foods,
Journal Year:
2023,
Volume and Issue:
12(11), P. 2140 - 2140
Published: May 25, 2023
Various
fields
have
been
identified
in
the
"omics"
era,
such
as
genomics,
proteomics,
transcriptomics,
metabolomics,
phenomics,
and
metagenomics.
Among
these,
metagenomics
has
enabled
a
significant
increase
discoveries
related
to
microbial
world.
Newly
discovered
microbiomes
different
ecologies
provide
meaningful
information
on
diversity
functions
of
microorganisms
Earth.
Therefore,
results
metagenomic
studies
new
microbe-based
applications
human
health,
agriculture,
food
industry,
among
others.
This
review
summarizes
fundamental
procedures
recent
advances
bioinformatic
tools.
It
also
explores
up-to-date
study,
plant
research,
environmental
sciences,
other
fields.
Finally,
is
powerful
tool
for
studying
world,
it
still
numerous
that
are
currently
hidden
awaiting
discovery.
this
discusses
future
perspectives
Journal of Hematology & Oncology,
Journal Year:
2024,
Volume and Issue:
17(1)
Published: May 14, 2024
The
gut
microbiota
plays
a
critical
role
in
the
progression
of
human
diseases,
especially
cancer.
In
recent
decades,
there
has
been
accumulating
evidence
connections
between
and
cancer
immunotherapy.
Therefore,
understanding
functional
regulating
immune
responses
to
immunotherapy
is
crucial
for
developing
precision
medicine.
this
review,
we
extract
insights
from
state-of-the-art
research
decipher
complicated
crosstalk
among
microbiota,
systemic
system,
context
Additionally,
as
can
account
immune-related
adverse
events,
discuss
potential
interventions
minimize
these
effects
clinical
application
five
microbiota-targeted
strategies
that
precisely
increase
efficacy
Finally,
holds
promising
target
immunotherapeutics,
summarize
current
challenges
provide
general
outlook
on
future
directions
field.
Abstract
Gut
microbiota
is
essential
for
maintaining
local
and
systemic
immune
homeostasis
in
the
presence
of
bacterial
challenges.
It
has
been
demonstrated
that
play
contrasting
roles
cancer
development
as
well
anticancer
immunity.
Cancer
immunotherapy,
a
novel
therapy
relies
on
stimulation
host
immunity,
suffered
from
low
responding
rate
incidence
severe
immune‐related
adverse
events
(irAEs).
Previous
studies
have
diversity
composition
gut
were
associated
with
heterogeneity
therapeutic
effects.
Therefore,
alteration
taxa
can
lead
to
improved
clinical
outcomes
immunotherapy.
In
this
review,
we
determine
whether
or
microbiota‐derived
metabolites
are
linked
responses
immunotherapy
irAEs.
Moreover,
discuss
various
approaches
improve
efficacy
reduce
toxicities
by
modulating
composition.
Science,
Journal Year:
2024,
Volume and Issue:
385(6706)
Published: July 18, 2024
Many
species,
including
humans,
host
communities
of
symbiotic
microbes.
There
is
a
vast
literature
on
the
ways
these
microbiomes
affect
hosts,
but
here
we
argue
for
an
increased
focus
how
hosts
their
microbiomes.
Hosts
exert
control
over
symbionts
through
diverse
mechanisms,
immunity,
barrier
function,
physiological
homeostasis,
and
transit.
These
mechanisms
enable
to
shape
ecology
evolution
generate
natural
selection
microbial
traits
that
benefit
host.
Our
result
from
perpetual
tension
between
symbiont
evolution,
can
leverage
host's
evolved
abilities
regulate
microbiota
prevent
treat
disease.
The
study
will
be
central
our
ability
both
understand
manipulate
microbiotas
better
health.
