Journal of Mammalogy,
Год журнала:
2024,
Номер
unknown
Опубликована: Ноя. 15, 2024
Abstract
Concerning
metabolic
demands,
powered
flight
stands
out
as
a
mode
of
locomotion
characterized
by
exceptionally
high
energy
requirements.
Bats
exhibit
distinct
anatomical
and
physiological
features
associated
with
flight,
prompting
the
anticipation
adaptive
evolution
in
protein-coding
genes
within
their
mitochondrial
genomes
crucial
for
oxidative
phosphorylation
pathway.
In
this
study,
complete
mitogenomes
3
Myotis
species
endemic
to
Mexico
were
obtained
evaluated
obtain
signatures
encoding
proteins.
The
span
17,147;
17,148;
17,171
bp
size
M.
findleyi,
vivesi,
planiceps,
respectively.
A
phylogenetic
analysis
focusing
on
13
supports
delimitation
several
clades
included
genus
Myotis.
Notably,
Branch
Models
propose
that
Cox1,
Cytb,
Nad4
may
be
subject
more
robust
purifying
selection
compared
other
genes,
while
Nad5
gene
likely
experiences
positive
pressure.
statistical
Branch-Site
contribute
insights
into
5
featuring
amino
acid
sites
potentially
under
Further
revealed
episodic
diversifying
Cox3
diversifying/positive
genes.
This
research
significantly
advances
our
understanding
chiropterans,
shedding
light
potential
role
sustaining
active
flight.
Phylogenetic
gaps
of
public
databases
reference
sequences
are
a
major
obstacle
for
comparative
genomics
and
management
marine
resources,
particularly
in
the
Global
South,
where
economically
important
fisheries
conservation
flagship
species
often
lack
closely-related
references.
We
applied
target-enrichment
to
obtain
complete
mitochondrial
genomes
ichthyofauna
from
Brazilian
coast
selected
based
on
economic
significance,
status
phylogenetically-close
These
included
sardines
(Dorosomatidae,
Alosidae),
mackerels
(Scombridae)
croakers
(Sciaenidae),
groupers
(Epinephelidae)
snappers
(Lutjanidae).
Scientific Reports,
Год журнала:
2025,
Номер
15(1)
Опубликована: Фев. 25, 2025
Mitochondria
are
semi-autonomous
organelles
that
play
a
crucial
role
in
the
energy
budget
of
animal
cells
and
closely
related
to
locomotor
abilities
animals.
Equidae
is
renowned
for
including
two
domesticated
species
with
distinct
purposes:
endurance-oriented
donkey
power-driven
horse,
making
it
an
ideal
system
studying
relationship
between
mitochondria
abilities.
In
this
study,
cover
genetic
diversity
donkeys,
we
sequenced
assembled
six
new
mitochondrial
genomes
from
China.
Meanwhile,
downloaded
published
all
within
Equus
conducted
comprehensive
pan-mitochondrial
genome
analysis.
We
found
highly
conserved,
each
encoding
37
genes,
13
protein-coding
genes
(PCGs).
Phylogenetic
analysis
based
on
supports
previous
research,
indicating
extant
divided
into
three
main
branches:
horses,
zebras.
Specifically,
761
variants
were
identified
donkeys
68
which
non-synonymous
mutations
PCGs,
potentially
linked
their
different
Structural
protein
modeling
indicated
despite
differences,
overall
structures
horses
remain
similar.
This
study
revealed
variation
patterns
animals,
offering
novelty
perspectives
domestication
imprints.
Additionally,
provides
reliable
candidate
molecular
markers
identification
horses.
Abstract
Mitochondria
provide
most
of
energy
in
animal
cells
through
oxidative
phosphorylation;
therefore,
the
evaluation
selective
pressures
on
mitochondrial
genome
can
yield
valuable
insights
into
evolution
adaptations
to
different
requirements
within
unique
environments.
The
distribution
East
African
shrews
is
directly
related
an
altitudinal
gradient,
implying
their
high
level
adaptive
divergence
and
making
them
a
model
for
revealing
molecular
mechanisms
adaptation.
Here
we
analysed
signs
17
mitogenomes
endemic
Ethiopian
white-toothed
(three
ecotypes
Crocidura
glassi
s.l.)
that
replace
each
other
adjacent
belts
Bale
Massif,
possibly
indicating
large
divergence.
To
test
this
hypothesis,
used
combination
methods
besides
classic
tests
selection;
also
physicochemical
changes
amino
acid
properties
protein-coding
genes.
None
analyses
yielded
significant
results
positive
selection.
We
theorize
purifying
selection
might
have
been
common
pattern
genes
C.
s.l.
ecotypes.
Finally,
environmental
–
reflecting
organisms’
various
strategies
important
are
discussed.
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Янв. 23, 2024
Abstract
Mitochondrial
(mt)
genes
are
the
subject
of
many
adaptive
hypotheses
due
to
key
role
mitochondria
in
energy
production
and
metabolism.
One
widespread
hypothesis
is
that
selection
imposed
by
life
at
high
elevation
leads
rapid
fixation
beneficial
alleles
mtDNA,
reflected
increased
rates
mtDNA
evolution
documented
high-elevation
species.
However,
assumption
fast
caused
positive,
rather
than
relaxed
purifying
has
rarely
been
tested.
Here,
we
calculated
d
N
/
S
ratio,
a
metric
nonsynonymous
substitution
bias,
explicitly
tested
for
over
700
species
terrestrial
vertebrates,
freshwater
fishes,
arthropods,
with
information
on
latitudinal
range
limits,
sizes,
body
sizes.
We
confirmed
mitochondrial
genomes
taxa
have
slightly
higher
ratios
compared
low-elevation
relatives.
High-elevation
tend
smaller
ranges,
which
predict
more
across
clades,
while
absolute
latitude
do
not
.
also
find
positive
relationship
between
mass
,
supporting
small
effective
population
size
leading
selection.
conclude
mt
among
likely
reflect
ranges
reduced
adaptation
environment.
Our
results
highlight
importance
rigorously
testing
stories
against
non-adaptive
alternative
hypotheses,
especially
genomes.
Molecular Ecology Resources,
Год журнала:
2024,
Номер
unknown
Опубликована: Окт. 15, 2024
ABSTRACT
Complete
mitochondrial
genomes
have
become
markers
of
choice
to
explore
phylogenetic
relationships
at
multiple
taxonomic
levels
and
they
are
often
assembled
using
whole
genome
short‐read
sequencing.
Herein,
three
species
sea
chubs
as
an
example,
we
explored
the
accuracy
chromosomes
Oxford
Nanopore
Technology
(ONT)
Kit
14
R10.4.1
long
reads
different
sequencing
depths
(high,
low
very
or
skimming)
by
comparing
them
‘gold’
standard
reference
Illumina
NovaSeq
short
reads.
In
two
chubs,
Girella
nigricans
Kyphosus
azureus
,
ONT
long‐read
high
(>
25×
[nuclear]
genome)
were
identical
their
respective
genomes.
Not
a
single
‘homopolymer
insertion’,
deletion’,
‘simple
substitution’,
‘single
‘short
deletion’
detected
in
after
aligning
each
one
counterparts.
turn,
third
species,
Medialuna
californiensis
depth
was
nucleotides
longer
than
its
counterpart.
The
difference
total
length
between
latter
assemblies
due
presence
motif
bp
that
repeated
(twice)
read
but
not
assembly.
Read
subsampling
1×
resulted
assembly
partial
complete
with
numerous
errors,
including,
among
others,
simple
indels,
indels
homopolymer
regions.
At
3×
5×
subsampling,
(perfect)
almost
(quasiperfect,
99.5%
over
16,500
bp)
assemblies.
newly
exhibit
gene
composition
organisation
compared
cofamilial
phylomitogenomic
analysis
based
on
translated
protein‐coding
genes
suggested
family
Kyphosidae
is
monophyletic.
same
possible
cases
misidentification
deposited
GenBank.
This
study
demonstrates
perfect
(complete
fully
accurate)
quasiperfect
few
errors)
can
be
25×)
(3–5×)
(1×,
latest
chemistries
(Kit
flowcells
SUP
basecalling).
annotated
used
environmental
DNA
studies
focusing
bioprospecting
biomonitoring
these
other
coastal
experiencing
insult.
Given
small
size
device
cost,
argue
technology
has
potential
improve
access
high‐throughput
technologies
low‐
moderate‐income
countries.
Mitochondrial DNA Part A,
Год журнала:
2024,
Номер
unknown, С. 1 - 9
Опубликована: Окт. 17, 2024
Different
animal
groups
with
varying
locomotion
modes
may
have
unique
energy
requirements.
Mitochondria
produce
adenosine
triphosphate
(ATP)
and
reactive
oxygen
species
via
oxidative
phosphorylation
to
support
organisms
The
tribes
Pteromyini
(flying
squirrels)
Sciurini
(tree
squirrels),
two
closely
related
taxa
within
the
family
Sciuridae,
exhibit
distinct
modes,
requirements,
likely
face
different
selective
pressures
on
mitochondrial
protein-coding
genes
(PCGs).
We
analysed
13
genome
sequences
from
belonging
tribe
117
Sciurini.
Phylogenetic
analysis
revealed
formed
a
sister
relationship
Sciuridae.
Among
PCGs,
