Animals,
Год журнала:
2023,
Номер
13(18), С. 2963 - 2963
Опубликована: Сен. 19, 2023
The
yak
(Bos
grunniens)
was
domesticated
in
the
high-altitude
QTP.
Research
about
their
genetic
diversity
and
population
structure
is
limited.
In
this
study,
we
resequenced
genome
of
494
domestic
yaks
using
Specific-Locus
Amplified
Fragment
Sequencing
(SLAF-seq).
survey
conducted
on
six
populations
sampled
from
isolated
locations
China
order
to
analyze
diversity.
These
were
clearly
grouped
into
two
independent
clusters,
with
Jinchuan,
Changtai,
Jiulong
showing
a
tight
relationship
wild
yak.
Nerve
development
pathways
enriched
GO
enrichment
analysis
334
genes.
Major
genomic
regions
associated
differentiation
detected.
findings
provide
preliminary
information
variability,
useful
understand
characteristics
different
Domestic
yak,
cattle,
and
their
hybrids
are
fundamental
to
herder
survival
at
high
altitudes
on
the
Tibetan
Plateau.
However,
little
is
known
about
history.
Journal of Animal Science,
Год журнала:
2024,
Номер
102
Опубликована: Янв. 1, 2024
Subei
yak
is
an
essential
local
in
the
Gansu
Province,
which
genetic
resource
has
recently
been
discovered.
It
a
meat-milk
dual-purpose
variety
with
high
fecundity
and
relatively
stable
population
structure.
However,
its
structure
diversity
are
yet
to
be
reported.
Therefore,
this
study
aimed
identify
molecular
markers
of
genome
by
whole-genome
resequencing,
analyze
yak.
This
screened
12,079,496
single
nucleotide
polymorphism
(SNP)
20
yaks
using
resequencing
technology.
Of
these
SNPs,
32.09%
were
located
intronic
region
genome.
Principal
component
analysis,
phylogenetic
analysis
revealed
that
belonged
independent
group
domestic
population.
A
selective
clearance
was
carried
out
on
other
yaks,
genes
under
positive
selection
annotated.
The
functional
enrichment
showed
possessed
prominent
characteristics
terms
external
environment
perception,
hypoxia
adaptation,
muscle
development.
Furthermore,
excellent
fat
deposition
meat
quality
traits.
Thus,
will
serve
as
reference
for
discovering
structure,
evolution,
unique
traits
expanding
variation
catalog
yaks.
Animals,
Год журнала:
2025,
Номер
15(6), С. 849 - 849
Опубликована: Март 15, 2025
The
Bazhou
yak,
a
major
native
meat
yak
breed
in
Xinjiang,
China,
is
renowned
for
its
fast
growth
rate,
strong
adaptability,
and
particularly
high
intramuscular
fat
(IMF)
content.
However,
limited
knowledge
regarding
phylogenetic
history
genomic
composition
has
hindered
long-term
conservation
utilization.
This
study
evaluated
the
genetic
diversity,
population
phylogenetics,
genome-wide
selective
sweep
analysis
(GWSA)
of
100
newly
obtained
yaks
through
genome
resequencing,
as
well
340
public
genomes
from
nine
other
populations
on
Qinghai–Tibet
Plateau.
results
revealed
moderate
lower
inbreeding
levels,
rapid
linkage
disequilibrium
(LD)
decay
yaks.
Principal
component
(PCA)
showed
clear
separation
populations,
indicating
an
independent
population.
Furthermore,
less
differentiation
was
found
between
Huanhu
while
ADMIXTURE
common
ancestral
lineage
yaks,
important
contribution
Qinghai
to
GWSA
identified
total
833
selected
genes
using
top
5%
interaction
windows
both
parameters
(FST,
Pi
ratio,
XP-EHH).
A
significant
number
these
are
related
synthesis
deposition,
such
MTOR,
APOA1,
GPAT4.
In
summary,
this
sheds
light
status
distinctive
features
which
facilitates
our
understanding
basis
IMF
phenotype
Abstract
Background
Yaks
are
a
vital
livestock
in
the
Qinghai-Tibetan
Plateau
area
for
providing
food
products,
maintaining
sustainable
ecosystems,
and
promoting
cultural
heritage.
Because
of
uncontrolled
mating,
it
is
impossible
to
estimate
inbreeding
level
yak
populations
using
pedigree-based
approaches.
With
aims
accurately
evaluate
two
Chinese
(Maiwa
Jiulong),
we
obtained
genome-wide
single
nucleotide
polymorphisms
(SNPs)
by
DNA
sequencing
calculated
five
SNP-by-SNP
estimators
(
$$\:{F}_{HOM}$$
,
$$\:{F}_{L\&H}$$
$$\:{F}_{VR1}$$
$$\:{F}_{VR2}$$
$$\:{F}_{YAN}$$
),
as
well
segment-based
runs
homozygosity
(ROH,
$$\:{F}_{ROH}$$
)
homozygous-by-descent
(HBD,
$$\:{F}_{HBD}$$
).
Functional
implications
were
analyzed
positional
candidate
genes
located
within
related
genomic
regions.
Results
A
total
151,675
190,955
high-quality
SNPs
from
71
Maiwa
30
Jiulong
yaks,
respectively.
had
greater
genetic
diversity
than
terms
allele
frequency
diversity.
The
could
be
genetically
distinguished
principal
component
analysis,
with
mean
differentiation
index
(Fst)
0.0054.
levels
yaks
consistently
supported
all
estimators.
Based
on
simple
proportion
homozygous
lower
was
indicated
three
successfully
sequenced
old
leather
samples
that
may
represent
historical
about
generations
ago.
There
3304
ROH
detected
among
samples,
median
length
1.97
Mb
1.0
Mb,
94
HBD
segments
found
whereas
92
them
belonged
shortest
class
10.9
Kb.
estimates
however,
there
no
difference
between
yaks.
Within
regions
significant
Fst
or
enriched
ROH,
several
pathways
have
been
reported
diverse
production
traits
farm
animals.
Conclusions
We
evaluated
populations.
Although
different
resulted
inconsistent
conclusions
their
levels,
our
results
helpful
implement
conservation
utilization
programs
Frontiers in Genetics,
Год журнала:
2024,
Номер
15
Опубликована: Май 30, 2024
The
Sichuan-Yunnan
region
is
the
main
production
area
of
yaks
in
southwestern
China,
with
rich
genetic
resources
Yaks.
Nevertheless,
there
have
been
limited
study
on
characteristics
entire
yak
populations
Tibet
and
China.
In
this
study,
we
performed
whole-genome
resequencing
to
identify
variation
information
a
total
198
individuals
from
six
breeds
(populations)
Sichuan
(Muli
yak,
Jinchuan
Changtai
Maiwa
yak),
Yunnan
(Zhongdian
(Tibetan
yak).
aim
was
investigate
diversity,
population
structure,
genome
selection
signatures.
We
observed
that
all
exhibit
abundant
diversity.
Except
for
Tibetan
yaks,
which
showed
low
nucleotide
diversity
(0.00104),
remaining
generally
displayed
high
(0.00129–0.00153).
Population
structure
analysis
revealed
that,
among
populations,
Muli
exhibited
greater
differentiation
other
formed
distinct
cluster
independently.
complex
gene
exchange
yaks.
Positive
signals
were
detected
candidate
genes
associated
growth
(
GNB4
,
HMGA2
TRPS1
LTBP1
),
reproduction
PI4KB
DYNC1I1
GRIP1
immunity
CD200
IL1RAP
lactation
SNX13
CPM
hypoxia
adaptation
NDUFB6
PRKN
MRPS9
hair
KRT24
KRT25
KRT26
meat
quality
SUCLG2
digestion
absorption
CLDN1
pigment
deposition
OCA2
)
using
integrated
Pi
F
ST
methods.
This
provides
significant
insights
into
understanding
British Poultry Science,
Год журнала:
2024,
Номер
65(6), С. 652 - 664
Опубликована: Июнь 26, 2024
1.
This
study
combined
genome-wide
selection
signal
analysis
with
RNA-sequencing
to
identify
candidate
genes
associated
high
altitude
adaptation
and
egg
production
performance
in
Nixi
chickens
(NXC).2.
Based
on
the
whole-genome
data
from
20
NXC
(♂:10;
♀:10),
population
was
analysed
by
sliding
window
analysis.
The
selected
were
screened
combination
differentiation
statistic
(
