Unraveling the genomic diversity and admixture history of captive tigers in the United States
Proceedings of the National Academy of Sciences,
Journal Year:
2024,
Volume and Issue:
121(39)
Published: Sept. 19, 2024
Genomic
studies
of
endangered
species
have
primarily
focused
on
describing
diversity
patterns
and
resolving
phylogenetic
relationships,
with
the
overarching
goal
informing
conservation
efforts.
However,
few
investigated
genomic
housed
in
captive
populations.
For
tigers
(
Panthera
tigris
),
individuals
vastly
outnumber
those
wild,
but
their
remains
largely
unexplored.
Privately
owned
tiger
populations
remained
an
enigma
community,
some
believing
that
these
are
severely
inbred,
while
others
believe
they
may
be
a
source
now-extinct
diversity.
Here,
we
present
large-scale
genetic
study
private
(non-zoo)
population
United
States,
also
known
as
“Generic”
tigers.
We
find
Generic
has
admixture
fingerprint
comprising
all
six
extant
wild
subspecies.
Of
138
sequenced
for
purpose
this
study,
no
individual
had
ancestry
from
only
one
show
comparable
amount
relative
to
most
subspecies,
variants,
fewer
deleterious
mutations.
observe
inbreeding
coefficients
similar
populations,
although
there
within
both
substantially
inbred.
Additionally,
develop
reference
panel
can
used
imputation
accurately
distinguish
assign
ultralow
coverage
(0.25×)
data.
By
providing
cost-effective
alternative
whole-genome
sequencing
(WGS),
provides
resource
assist
efforts
ex-
situ
Language: Английский
Extreme in Every Way: Exceedingly Low Genetic Diversity in Snow Leopards Due to Persistently Small Population Size
bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2023,
Volume and Issue:
unknown
Published: Dec. 15, 2023
Abstract
Snow
leopards
(
Panthera
uncia
)
serve
as
an
umbrella
species
whose
conservation
benefits
their
high-elevation
Asian
habitat.
Their
numbers
are
believed
to
be
in
decline
due
numerous
Anthropogenic
threats;
however,
is
hindered
by
knowledge
gaps.
They
the
least
studied
genetically
of
all
big
cat
with
more
learn
regarding
population
structure,
historical
size,
and
current
levels
genetic
diversity.
Here,
we
use
whole-genome
sequencing
data
for
41
snow
(37
newly
sequenced)
offer
new
insights
into
these
unresolved
questions.
Among
our
samples,
find
evidence
a
primary
divide
between
northern
southern
part
range
around
Dzungarian
Basin,
previously
identified,
secondary
south
Kyrgyzstan
Taklamakan
Desert.
Most
noteworthy,
that
have
lowest
diversity
any
species,
persistently
small
size
(relative
other
species)
throughout
evolutionary
history
rather
than
recent
inbreeding.
Without
large
or
ample
standing
variation
help
buffer
them
from
forthcoming
challenges,
leopard
persistence
may
tenuous
currently
appreciated.
Language: Английский
Recommendations for Population and Individual Diagnostic SNP Selection in Non-Model Species
bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: July 6, 2024
Abstract
Despite
substantial
reductions
in
the
cost
of
sequencing
over
last
decade,
genetic
panels
remain
relevant
due
to
their
cost-effectiveness
and
flexibility
across
a
variety
sample
types.
In
particular,
single
nucleotide
polymorphism
(SNP)
are
increasingly
favored
for
conservation
applications.
SNP
often
used
because
adaptability,
effectiveness
with
low-quality
samples,
cost-efficiency
use
population
monitoring
forensics.
However,
selection
diagnostic
SNPs
assignment
individual
identification
can
be
challenging.
The
consequences
poor
under-powered
panels,
inaccurate
results,
monetary
loss.
Here,
we
develop
novel
user-friendly
pipeline
identification,
mPCRselect.
mPCRselect
allows
any
researcher,
who
has
sufficient
SNP-level
data,
design
successful
cost-effective
panel
species
concern.
Language: Английский