Bioinformatics,
Journal Year:
2024,
Volume and Issue:
40(11)
Published: Oct. 30, 2024
Estimating
genome
size
using
k-mer
frequencies,
which
plays
a
fundamental
role
in
designing
sequencing
and
analysis
projects,
has
remained
challenging
for
polyploid
species,
i.e.,
ploidy
p
>
2.
To
address
this,
we
introduce
"findGSEP,"
is
designed
based
on
iterative
curve
fitting
of
frequencies.
Precisely,
it
first
disentangles
up
to
normal
distributions
by
analyzing
frequencies
whole
the
focal
species.
Second,
computes
sizes
genomic
regions
related
1∼p
(homologous)
chromosome(s)
each
respective
fitting,
from
infers
full
average
haploid
size.
"findGSEP"
can
handle
any
level
p,
infer
more
accurate
than
other
well-known
tools,
as
shown
tests
simulated
real
data
various
species
including
octoploids.
Reviews in Aquaculture,
Journal Year:
2024,
Volume and Issue:
unknown
Published: Sept. 10, 2024
ABSTRACT
Global
aquaculture
production
has
been
rising
for
several
decades,
with
up
to
76%
of
the
total
from
fish.
However,
problem
fish
diseases
is
becoming
more
and
prominent
in
today's
context
pursuing
sustainable
aquaculture.
Since
first
genome
assembly
reported
2002,
genomic
approaches
have
successfully
implemented
breeding
enhance
disease
resistance
reduce
economic
losses
caused
by
diverse
diseases.
Here,
we
present
a
review
current
progress
genomics
its
application
disease‐resistance
breeding.
First,
data
all
publicly
available
genomes
were
curated
statistical
analysis
these
performed.
Subsequently,
genomics‐assisted
(including
quantitative
trait
loci
mapping,
genome‐wide
association
study,
marker‐assisted
selection,
gene
transfer,
editing)
that
applied
practical
disease–resistance
programs
are
outlined.
In
addition,
candidate
genetic
markers
could
possibly
be
utilized
summarized.
Finally,
remaining
challenges
further
directions
discussed.
summary,
this
provides
insight
into
disease‐resistant
varieties.
Biology,
Journal Year:
2025,
Volume and Issue:
14(5), P. 531 - 531
Published: May 11, 2025
Botiidae
is
a
small
family
of
freshwater
fishes
distributed
across
Southeast
Asia,
South
and
East
Asia.
It
comprises
two
subfamilies:
the
diploid
Leptobotiinae
tetraploid
Botiinae.
Whether
species
in
Botiinae
are
autotetraploids
or
allotetraploids
how
many
polyploidization
events
occurred
during
evolution
this
subfamily
remain
open
questions.
The
phylogenetic
relationships
biogeography
also
require
further
investigation.
In
current
study,
we
compared
trees
constructed
using
DNA
sequences
from
mitochondrial
genome
five
phased
nuclear
genes.
We
performed
whole
sequencing
for
species:
Chromobotia
macracanthus
Yasuhikotakia
modesta.
Genome
profiling
botiine
suggests
that
they
likely
allotetraploid
origin.
Nuclear
gene
tree
topologies
indicate
tetraploidization
only
once
common
ancestor
subfamily.
Although
possible
maternal
progenitor
paternal
cannot
be
determined,
can
excluded
as
progenitor.
built
study
generally
agree
on
following
sister
group
relationships:
Leptobotiinae/Botiinae,
Leptobotia/Parabotia,
Chromobotia/Botia,
Yasuhikotakia/Syncrossus,
Sinibotia/Ambastaia.
Clades
formed
by
last
generic
pairs
sisters
to
each
other.
Timetree
analyses
ancestral
range
reconstruction
suggest
might
have
originated
Asia
Mainland
approximately
51
million
years
ago
later
dispersed
islands
The Plant Journal,
Journal Year:
2024,
Volume and Issue:
119(1), P. 348 - 363
Published: April 12, 2024
SUMMARY
The
Phyllanthaceae
family
comprises
a
diverse
range
of
plants
with
medicinal,
edible,
and
ornamental
value,
extensively
cultivated
worldwide.
Polyploid
species
commonly
occur
in
Phyllanthaceae.
Due
to
the
rather
complex
genomes
evolutionary
histories,
their
speciation
process
has
been
still
lacking
research.
In
this
study,
we
generated
chromosome‐scale
haplotype‐resolved
two
octoploid
(
Phyllanthus
emblica
Sauropus
spatulifolius
)
family.
Combined
our
previously
reported
one
tetraploid
androgynus
diploid
cochinchinensis
from
same
family,
explored
history.
three
polyploid
were
all
identified
as
allopolyploids
subgenome
A/B.
Each
distinct
groups
various
was
uncovered
independently
share
common
ancestor
(Ancestor‐AA
Ancestor‐BB).
Via
different
routes,
comprising
scenarios
bifurcating
divergence,
allopolyploidization
(hybrid
polyploidization),
autopolyploidization,
they
finally
evolved
current
S.
,
P.
respectively.
We
further
discuss
variations
copy
number
alleles
potential
impacts
within
octoploids.
addition,
also
investigated
fluctuation
metabolites
medical
values
key
factor
its
biosynthesis
octoploids
species.
Our
study
reconstructed
history
these
species,
highlighting
critical
roles
polyploidization
hybridization
processes.
high‐quality
provide
valuable
genomic
resources
for
research
evolution
functional
genomics.
Animals,
Journal Year:
2024,
Volume and Issue:
14(16), P. 2343 - 2343
Published: Aug. 14, 2024
Elongases
of
very-long-chain
fatty
acids
(Elovls)
are
critical
rate-limiting
enzymes
that
involved
in
LC-PUFA
biosynthesis
through
catalyzing
the
two-carbon
elongation
a
pre-existing
acyl
chain.
Thus
far,
several
Elovls
have
been
extensively
studied
teleost.
However,
functional
and
physiological
roles
chondrichthyans
rarely
reported.
In
this
study,
we
identified
characterized
Fish Physiology and Biochemistry,
Journal Year:
2024,
Volume and Issue:
50(4), P. 1895 - 1910
Published: July 9, 2024
Abstract
Sturgeons
are
ancient
fish,
with
27
species
distributed
in
the
Northern
Hemisphere.
This
review
first
touches
upon
significance
of
sturgeons
context
their
biological,
ecological,
and
economic
importance,
highlighting
status
as
“living
fossils”
challenges
they
face
genomic
research
due
to
diverse
chromosome
numbers.
then
discusses
how
omics
technologies
(genomics,
transcriptomics,
proteomics,
metabolomics)
have
been
used
sturgeon
research,
which
so
far
has
only
done
on
Acipenser
species.
It
focuses
metabolomics
a
way
better
understand
work
react
environment.
Specific
studies
cited,
showing
investigate
various
aspects
biology,
such
growth,
reproduction,
stress
responses,
nutrition.
These
demonstrate
potential
improving
aquaculture
practices
conservation
efforts.
Overall,
suggests
that
metabolomics,
relatively
new
scientific
tool,
enhance
our
understanding
biology
aid
sustainable
aquaculture,
contributing
global
food
security
