bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Ноя. 3, 2024
Abstract
Sleep
is
a
universally
conserved
behavior
with
an
elusive
origin
and
uncertain
evolutionary
purpose.
Leveraging
phylogenomics,
we
investigate
the
foundations
of
sleep
by
identifying
orthologs
Human
sleep-related
genes
in
Lokiarchaeota
Asgard
superphylum.
Our
findings
indicate
suite
associated
energy
metabolism
cellular
repair,
suggesting
primordial
role
maintenance.
This
data
lends
credence
to
idea
that
improves
organismal
fitness
across
time
acting
as
restorative
process.
Notably,
our
approach
demonstrates
phylogenomics
more
useful
than
standard
phylogenetics
for
clarifying
common
traits.
By
offering
insight
into
history
putting
forth
novel
model
framework
research
taxa,
these
contribute
growing
understanding
molecular
foundation
sleep.
study
lays
groundwork
further
investigations
importance
various
organisms,
which
could
have
consequences
human
health
deeper
comprehension
related
fundamental
processes
life.
Graphical
Molecular Biology and Evolution,
Год журнала:
2024,
Номер
41(9)
Опубликована: Авг. 13, 2024
Abstract
The
organization
of
genomes
into
chromosomes
is
critical
for
processes
such
as
genetic
recombination,
environmental
adaptation,
and
speciation.
All
animals
with
bilateral
symmetry
inherited
a
genome
structure
from
their
last
common
ancestor
that
has
been
highly
conserved
in
some
taxa
but
seemingly
unconstrained
others.
However,
the
evolutionary
forces
driving
these
differences
by
which
they
emerge
have
remained
largely
uncharacterized.
Here,
we
analyze
across
phylum
Annelida
using
23
chromosome-level
annelid
genomes.
We
find
while
many
lineages
maintained
bilaterian
structure,
Clitellata,
group
containing
leeches
earthworms,
possesses
completely
scrambled
develop
rearrangement
index
to
quantify
extent
evolution
show
that,
compared
bilaterians,
earthworms
among
most
rearranged
any
currently
sampled
species.
further
can
be
classified
two
distinct
categories—high
low
rearrangement—largely
influenced
presence
or
absence,
respectively,
chromosome
fission
events.
Our
findings
demonstrate
animal
variable
within
reveal
occur
both
gradual,
stepwise
fashion,
rapid,
all-encompassing
changes
over
short
timescales.
Systematic Entomology,
Год журнала:
2024,
Номер
unknown
Опубликована: Июль 18, 2024
Abstract
The
recent
advances
in
sequencing
technologies,
phylogenomics
and
divergence
dating
methods
call
for
an
integrative
review
of
the
current
state
Hymenoptera
systematics.
We
here
explore
impact
these
latest
developments
on
phylogeny
our
understanding
timing
evolution,
while
identifying
methodological
constraints
persistent
knowledge
gaps
that
warrant
further
investigation.
Our
highlights
lack
consensus
among
backbone
between
key
phylogenomic
studies,
as
higher
level
remains
unresolved
nodes
such
relationships
Eusymphyta,
within
Infraorder
Proctotrupomorpha
placements
superfamilies
Ichneumonoidea,
Ceraphronoidea
Vespoidea.
Furthermore,
we
underline
huge
variation
age
estimates
detect
several
major
and/or
disagreements
fossil
record
available
estimates,
either
due
to
poorly
studied
or
problematic
both.
To
better
understand
evolution
role
diversification
factors,
will
need
continuous
efforts
(i)
reconcile
conflicts
morphological
molecular
phylogenies,
by
improving
taxon
sampling
underrepresented
lineages,
applying
novel
techniques
study
morphology,
making
use
genome‐scale
data
critically
assessing
incongruences
genetic
markers;
(ii)
improve
record,
exercising
taxonomy
bringing
together
paleontologists
neontologists;
(iii)
relying
tip
approaches
bridge
fossils,
morphology
genomes
across
time.
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Фев. 16, 2024
Abstract
Groups
of
orthologous
genes
are
commonly
found
together
on
the
same
chromosome
over
vast
evolutionary
distances.
This
extensive
physical
gene
linkage,
known
as
macrosynteny,
is
seen
between
bilaterian
phyla
divergent
Chordata,
Echinodermata,
Mollusca,
and
Nemertea.
Here,
we
report
a
unique
pattern
genome
evolution
in
Bryozoa,
an
understudied
phylum
colonial
invertebrates.
Using
comparative
genomics,
reconstruct
chromosomal
history
five
bryozoans.
Multiple
ancient
fusions
followed
by
mixing
led
to
near-complete
loss
linkage
groups
ancestor
extant
A
second
wave
rearrangements,
including
fission,
then
occurred
independently
two
bryozoan
classes,
further
scrambling
genomes.
We
also
discover
at
least
derived
fusion
events
shared
bryozoans
brachiopods,
supporting
traditional
but
highly
debated
Lophophorata
hypothesis.
Finally,
show
that
fission
processes
partitioning
from
Hox
clusters
onto
multiple
chromosomes.
Our
findings
demonstrate
canonical
structure
has
been
lost
across
all
studied
representatives
entire
phylum;
reveal
group
can
occur
very
frequently
specific
lineages;
provide
powerful
source
phylogenetic
information.
Biological reviews/Biological reviews of the Cambridge Philosophical Society,
Год журнала:
2024,
Номер
unknown
Опубликована: Ноя. 6, 2024
ABSTRACT
Mollusca,
the
second‐most
diverse
animal
phylum,
is
estimated
to
have
over
100,000
living
species
with
great
genetic
and
phenotypic
diversity,
a
rich
fossil
record,
considerable
evolutionary
significance.
Early
work
on
molluscan
systematics
was
grounded
in
morphological
anatomical
studies.
With
transition
from
oligo
gene
Sanger
sequencing
cutting‐edge
genomic
technologies,
molecular
data
has
been
increasingly
utilised,
providing
abundant
information
for
reconstructing
phylogenetic
tree.
However,
relationships
among
within
most
major
lineages
of
Mollusca
long
contentious,
often
due
limited
markers,
insufficient
taxon
sampling
conflict.
Fortunately,
remarkable
progress
made
recent
years,
which
shed
light
how
groups
evolved.
In
this
review
systematics,
we
first
synthesise
current
understanding
Tree
Life
at
higher
taxonomic
levels.
We
then
discuss
micromolluscs,
adult
individuals
body
size
smaller
than
5
mm,
offer
unique
insights
into
Mollusca's
vast
diversity
deep
phylogeny.
Despite
advancements,
our
knowledge
phylogeny
still
needs
refinement.
Further
advancements
will
arise
integrating
comprehensive
sets,
including
genome‐scale
data,
exceptional
fossils,
digital
(including
internal
structures).
Enhanced
access
these
combined
increased
collaboration
morphologists,
palaeontologists,
developmental
biologists,
phylogeneticists,
significantly
advance
field.
Genome Research,
Год журнала:
2025,
Номер
35(1), С. 78 - 92
Опубликована: Янв. 1, 2025
Groups
of
orthologous
genes
are
commonly
found
together
on
the
same
chromosome
over
vast
evolutionary
distances.
This
extensive
physical
gene
linkage,
known
as
macrosynteny,
is
seen
between
bilaterian
phyla
divergent
Chordata,
Echinodermata,
Mollusca,
and
Nemertea.
Here,
we
report
a
unique
pattern
genome
evolution
in
Bryozoa,
an
understudied
phylum
colonial
invertebrates.
Using
comparative
genomics,
reconstruct
chromosomal
history
five
bryozoans.
Multiple
ancient
fusions
followed
by
mixing
led
to
near-complete
loss
linkage
groups
ancestor
extant
A
second
wave
rearrangements,
including
fission,
then
occurred
independently
two
bryozoan
classes,
further
scrambling
genomes.
We
also
discover
at
least
derived
fusion
events
shared
bryozoans
brachiopods,
supporting
traditional
but
highly
debated
Lophophorata
hypothesis
suggesting
macrosynteny
be
potentially
powerful
source
phylogenetic
information.
Finally,
show
that
rearrangements
dispersion
from
Hox
clusters
onto
multiple
chromosomes.
Our
findings
demonstrate
canonical
structure
has
been
lost
across
all
studied
representatives
entire
phylum,
reveal
group
fission
can
occur
very
frequently
specific
lineages.
