bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: Dec. 20, 2024
Abstract
Horizontal
gene
transfer
(HGT)
is
less
frequent
in
eukaryotes
than
prokaryotes,
yet
can
have
strong
functional
implications
and
was
proposed
as
causal
factor
for
major
adaptations
several
eukaryotic
lineages.
Most
cases
of
eukaryote
HGT
reported
to
date
are
inter-domain
transfers
only
few
studies
investigated
eukaryote-to-eukaryote
HGTs.
Furthermore,
the
extent
which
has
contributed
repertoire
some
lineages
such
vertebrates
remains
unclear.
Here,
we
performed
a
large-scale
survey
among
242
species
ray-finned
fishes.
We
found
evidence
supporting
18
teleost-to-teleost
events
that
involve
17
different
genes
11
teleost
fish
orders.
The
involved
these
show
lower
synonymous
divergence
expected
under
vertical
transmission,
their
phylogeny
inconsistent
with
fishes,
high
nucleotide
similarity
on
between
donor
recipient
extends
non-coding
regions.
distribution
tree
heterogenous,
eight
occurring
same
two
orders
(Osmeriformes
Clupeiformes).
Besides
previously
an
antifreeze
protein,
most
transferred
play
roles
immunity,
suggesting
more
likely
others
confer
selective
advantage
species.
Overall,
our
work
shows
occurred
multiple
occasions
it
will
be
worth
further
quantifying
evaluating
impact
evolution
genomes
being
sequenced.
Scientific Reports,
Journal Year:
2025,
Volume and Issue:
15(1)
Published: March 18, 2025
Lettuce
(Lactuca
sativa
var.
ramosa
Hort)
is
an
important
leaf
vegetable
that
widely
cultivates
due
to
its
high-quality,
short
growth
cycle,
and
less
diseases.
L.
Hort
belongs
Asteraceae
family
evolutionary
relationships
with
related
species
of
are
not
completely
assessed
based
on
genome
sequences.
Here,
we
assembled
the
whole
mitochondrial
(mt)
Hort,
performed
a
comparative
other
species.
The
mt
has
typical
circular
structure
length
363,324
bp,
within
GC
content
accounted
for
45.35%.
In
total
71
genes,
comprising
35
protein-coding
genes
(PCGs),
6
rRNAs,
28
tRNAs,
2
pseudogenes
were
annotated.
Codon
preference,
RNA-editing
sites,
repetitive
sequences,
migrating
from
chloroplast
(cp)
genomes
investigated
in
genome.
Nucleotide
diversity
(Pi)
showed
was
relatively
conserved.
A
Bayesian
phylogenetic
tree
closely
capitata
virosa,
which
belonged
Lactuca
genus
family.
Our
findings
will
provide
useful
information
explore
genetic
variation,
diversity,
molecular
breeding
genus.
Frontiers in Ecology and Evolution,
Journal Year:
2024,
Volume and Issue:
12
Published: Aug. 29, 2024
The
mitochondrial
genome
is
recognized
for
its
utility
in
insect
molecular
research,
due
to
distinctive
features,
including
fast
evolutionary
rate,
low
recombination,
and
maternal
inheritance.
In
this
study,
we
explored
the
context
of
leafhopper
subfamily
Evacanthinae,
which
significant
agricultural
pest
sector
direct
indirect
damage
caused
plants
by
species.
We
present
complete
sequences
three
species:
Evacanthus
bivittatus
,
Carinata
ganga
recurvata
.
Comparative
analyses
nucleotide
composition,
codon
usage
protein
coding
genes
(PCGs),
diversity,
transfer
RNA
secondary
structure,
gene
overlap
were
conducted.
To
understand
phylogenetic
relationships
among
species,
constructed
trees
using
from
13
PCGs
genomes
newly
sequenced
study
alongside
other
available
sequences.
Phylogenetic
analysis
supported
monophyly
Evacanthinae
suggested
a
close
relationship
between
Evacanthini
Nirvanini
tribes.
Our
research
indicates
that
anticodon
differences
trnS1
are
insufficient
serve
as
taxonomic
markers
distinguishing
these
two
This
contributes
valuable
genetic
data
supporting
ongoing
investigations
into
evolution,
species
identification,
while
laying
groundwork
future
endeavors
within
Cicadellidae.
Frontiers in Genetics,
Journal Year:
2024,
Volume and Issue:
15
Published: Sept. 19, 2024
Polygonati
Rhizoma
and
odorati
Rhizoma,
known
as
“Huangjing”
“Yuzhu”
in
China,
are
medicinal
Polygonatum
species
resources
with
top-grade
medical
edible
properties.
The
chloroplast
(cp)
genome
has
been
used
to
study
diversity,
evolution,
breeding
of
for
applications
genetic
engineering.
Codon
usage
bias
(CUB),
a
common
complex
natural
phenomenon,
is
essential
studies
codon
optimization
exogenous
genes,
engineering,
molecular
evolution.
However,
the
CUB
genomes
not
systematically
studied.
In
our
study,
detailed
analysis
was
performed
genomes.
We
investigated
204
plastid
protein-coding
genes
(PCGs)
4
using
CodonW
CUSP
online
software.
Through
index,
we
found
that
had
weak
bias.
addition,
results
also
showed
high
preference
AT
bases
genomes,
use
AT-ending
codons
observed
these
neutrality
plot,
ENC
PR2-Bias
correspondence
compared
mutation
pressure,
selection
most
important
factor
CUB.
Based
on
comparative
high-frequency
expression
codons,
determined
10-11
optimal
investigative
species.
Furthermore,
result
RSCU-based
cluster
relationship
between
different
could
be
well
reflected.
This
provided
an
understanding
evolution
BMC Genomics,
Journal Year:
2024,
Volume and Issue:
25(1)
Published: Oct. 8, 2024
The
Halimedineae
are
marine
green
macroalgae
that
play
crucial
roles
as
primary
producers
in
various
habitats,
including
coral
reefs,
rocky
shores,
embayments,
lagoons,
and
seagrass
beds.
Several
tropical
species
have
calcified
thalli,
which
contribute
significantly
to
the
formation
of
reefs.
In
this
study,
we
investigated
codon
usage
patterns
main
factors
influencing
bias
16
chloroplast
genomes
suborder
Halimedineae.
Nucleotide
composition
analysis
revealed
codons
these
were
enriched
A/U
bases
preferred
end
bases,
distribution
GC
content
followed
a
trend
GC1
>
GC2
GC3.
30
optimal
encoding
17
amino
acids
identified,
most
all
over-expressed
preferentially
ended
with
A/U.
neutrality
plot,
effective
number
(ENc)
parity
rule
2
(PR2)
plot
indicated
natural
selection
played
major
role
shaping
species.
genetic
relationships
based
on
their
RSCU
values
protein-coding
genes
showed
closely
related
similar
patterns.
This
study
describes,
for
first
time,
characterization
genomes,
provides
new
insights
into
evolution
suborder.
Mitochondrial DNA Part B,
Journal Year:
2024,
Volume and Issue:
9(5), P. 657 - 662
Published: May 3, 2024
Tiegh.
1875
is
widely
used
in
a
variety
of
industries,
such
as
brewing,
wine
making,
baking,
and
medicine
production,
it
has
the
capability
to
break
down
proteins
generate
surface-active
agents.
To
date,
mitochondrial
genome
features
early
evolved
fungi
from
Mitochondrial DNA Part B,
Journal Year:
2024,
Volume and Issue:
9(6), P. 743 - 747
Published: June 2, 2024
(Lindner)
Klocker
1907
is
frequently
employed
in
the
fermentation
of
metabolites
such
as
citric
acid,
ethanol,
mannitol,
and
pyruvate.
Its
heat
tolerance
alcohol-producing
capabilities
during
make
it
a
desirable
option
for
bread
wine
production.
To
date,
mitochondrial
genome
Mitochondrial DNA Part B,
Journal Year:
2024,
Volume and Issue:
9(6), P. 845 - 849
Published: June 2, 2024
Lendn.
1930
has
been
widely
used
in
food
fermentation;
however,
its
mitochondrial
genome
characteristics
are
not
well
understood.
In
this
study,
the
complete
of
