Nanopore adaptive sampling to identify the NLR gene family in melon (Cucumis melo L.)
BMC Genomics,
Journal Year:
2025,
Volume and Issue:
26(1)
Published: Feb. 10, 2025
Nanopore
adaptive
sampling
(NAS)
offers
a
promising
approach
for
assessing
genetic
diversity
in
targeted
genomic
regions.
Here
we
designed
and
validated
an
experiment
to
enrich
set
of
resistance
genes
several
melon
cultivars
as
proof
concept.
Using
the
same
reference
guide
read
acceptance
or
rejection
with
NAS,
successfully
accurately
reconstructed
15
regions
two
newly
assembled
ssp.
melo
genomes
third
agrestis
cultivar.
We
obtained
fourfold
enrichment
regardless
tested
samples,
but
some
variations
according
enriched
The
accuracy
our
assembly
was
further
confirmed
by
PCR
discussed
parameters
that
could
influence
NAS
generated
assemblies.
Overall,
demonstrated
is
simple
efficient
exploring
complex
regions,
such
clusters
Nucleotide-binding
site
leucine-rich
repeat
(NLR)
genes.
These
are
characterized
containing
high
number
copy
variations,
presence-absence
polymorphisms
repetitive
elements.
features
make
accurate
challenging
crucial
study
due
their
central
role
plant
immunity
disease
resistance.
This
facilitates
gene
characterization
large
individuals,
required
when
breeding
new
suitable
agroecological
transition.
Language: Английский
Possibility of genome editing for melon breeding
Breeding Science,
Journal Year:
2024,
Volume and Issue:
74(1), P. 47 - 58
Published: Jan. 1, 2024
Genome
editing
technologies
are
promising
for
conventional
mutagenesis
breeding,
which
takes
a
long
time
to
remove
unnecessary
mutations
through
backcrossing
and
create
new
lines
because
they
directly
modify
the
target
genes
of
elite
strains.
In
particular,
this
technology
has
advantages
traits
caused
by
loss
function.
Many
efforts
have
been
made
utilize
technique
introduce
valuable
features
into
crops,
including
maize,
soybeans,
tomatoes.
Several
genome-edited
crops
already
commercialized
in
US
Japan.
Melons
an
important
vegetable
crop
worldwide,
produced
used
various
areas.
Therefore,
many
breeding
improve
its
fruit
quality,
resistance
plant
diseases,
stress
tolerance.
Quantitative
trait
loci
(QTL)
analysis
was
performed,
related
were
identified.
Recently,
several
studies
shown
that
CRISPR/Cas9
system
can
be
applied
melons,
resulting
possible
utilization
as
technique.
Focusing
on
two
productivity-related
traits,
disease
resistance,
review
introduces
progress
genetics,
examples
melon
genome
editing,
improvements
required
applications,
possibilities
breeding.
Language: Английский
Fine mapping and identification of candidate genes associated with powdery mildew resistance in melon (Cucumis melo L.)
Horticulture Research,
Journal Year:
2024,
Volume and Issue:
11(10)
Published: Aug. 12, 2024
Powdery
mildew
(PM),
a
common
disease
of
many
major
crop
species,
including
melon
(
Language: Английский
Uncovering the Mechanisms: The Role of Biotrophic Fungi in Activating or Suppressing Plant Defense Responses
Journal of Fungi,
Journal Year:
2024,
Volume and Issue:
10(9), P. 635 - 635
Published: Sept. 5, 2024
This
paper
discusses
the
mechanisms
by
which
fungi
manipulate
plant
physiology
and
suppress
defense
responses
producing
effectors
that
can
target
various
host
proteins.
Effector-triggered
immunity
effector-triggered
susceptibility
are
pivotal
elements
in
complex
molecular
dialogue
underlying
plant-pathogen
interactions.
Pathogen-produced
effector
molecules
possess
ability
to
mimic
pathogen-associated
patterns
or
hinder
binding
of
pattern
recognition
receptors.
Effectors
directly
nucleotide-binding
domain,
leucine-rich
repeat
receptors,
downstream
signaling
components
defense.
Interactions
between
these
receptor-like
kinases
plants
critical
this
process.
Biotrophic
adeptly
exploit
networks
key
hormones,
including
salicylic
acid,
jasmonic
abscisic
ethylene,
establish
a
compatible
interaction
with
their
hosts.
Overall,
highlights
importance
understanding
interplay
fungal
develop
effective
strategies
for
disease
management.
Language: Английский
Nanopore adaptive sampling to identify the NLR-gene family in melon (Cucumis meloL.)
bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2023,
Volume and Issue:
unknown
Published: Dec. 21, 2023
Abstract
Background
Nanopore
Adaptive
Sampling
(NAS)
offers
a
promising
approach
for
assessing
genetic
diversity
in
targeted
genomic
regions.
Herein,
we
design
and
validate
an
experiment
to
enrich
set
of
resistance
genes
several
melon
cultivars
as
proof
concept.
Results
We
showed
that
each
the
15
regions
identified
two
newly
assembled
genomes
(subspecies
melo
)
were
successfully
accurately
reconstructed
well
third
cultivar
from
agrestis
subspecies.
obtained
fourfold
enrichment,
independently
samples,
but
with
some
variations
according
enriched
In
cultivar,
further
confirmed
our
assembly
by
PCR.
discussed
parameters
can
influence
enrichment
accuracy
assemblies
generated
through
NAS.
Conclusions
Altogether,
demonstrated
NAS
simple
efficient
explore
complex
This
finally
unlocks
characterization
large
number
individuals,
required
breeding
new
responding
agroecological
transition.
Language: Английский
Recent advances of NLR receptors in vegetable disease resistance
Qing Wen,
No information about this author
S. P. Wang,
No information about this author
Xiaolan Zhang
No information about this author
et al.
Plant Science,
Journal Year:
2024,
Volume and Issue:
348, P. 112224 - 112224
Published: Aug. 12, 2024
Language: Английский
Nanopore adaptive sampling to identify the NLR gene family in melon (Cucumis melo L.)
Research Square (Research Square),
Journal Year:
2024,
Volume and Issue:
unknown
Published: Aug. 28, 2024
Abstract
Background
Nanopore
adaptive
sampling
(NAS)
offers
a
promising
approach
for
assessing
genetic
diversity
in
targeted
genomic
regions.
Here
we
designed
and
validated
an
experiment
to
enrich
set
of
resistance
genes
several
melon
cultivars
as
proof
concept.
Results
We
showed
that,
using
single
reference,
each
the
15
regions
identified
two
newly
assembled
genomes
(ssp.
melo)
was
also
successfully
accurately
reconstructed
third
ssp.
agrestis
cultivar.
obtained
fourfold
enrichment
regardless
tested
samples,
but
with
some
variations
according
enriched
The
accuracy
our
assembly
further
confirmed
by
PCR
discussed
parameters
that
could
influence
NAS
generated
assemblies.
Conclusions
Overall,
demonstrated
is
simple
efficient
exploring
complex
This
facilitates
gene
characterization
large
number
individuals,
required
when
breeding
new
suitable
agroecological
transition.
Language: Английский
Identification of Powdery Mildew Resistance-Related Genes in Butternut Squash (Cucurbita moschata)
Yiqian Fu,
No information about this author
Yanping Hu,
No information about this author
Jianjun Yang
No information about this author
et al.
International Journal of Molecular Sciences,
Journal Year:
2024,
Volume and Issue:
25(20), P. 10896 - 10896
Published: Oct. 10, 2024
Powdery
mildew
infection
is
a
significant
challenge
in
butternut
squash
(Cucurbita
moschata)
production
during
winter
Hainan,
China.
The
tropical
climate
of
Hainan
promotes
powdery
infection,
resulting
substantial
yield
losses.
By
utilizing
transcriptome
and
genome
sequencing
data,
SNPs
potential
genes
associated
with
resistance
were
identified.
analysis
differentially
expressed
(DEGs)
following
revealed
several
involved
resistance,
particular
focus
on
(R)
gene
cluster
that
may
be
linked
to
the
observed
resistance.
Two
MLO
clade
V
from
Cucurbita
moschata
not
directly
two
genotypes
studied.
These
findings
are
expected
contribute
development
genetic
tools
for
improving
crops,
thereby
reducing
losses
enhancing
sustainability
other
regions.
Language: Английский
Quantitative Trait Locus Mapping Combined with RNA Sequencing Identified Candidate Genes for Resistance to Powdery Mildew in Bitter Gourd (Momordica charantia L.)
Rukui Huang,
No information about this author
Jiazuo Liang,
No information about this author
Xixi Ju
No information about this author
et al.
International Journal of Molecular Sciences,
Journal Year:
2024,
Volume and Issue:
25(20), P. 11080 - 11080
Published: Oct. 15, 2024
Improving
the
powdery
mildew
resistance
of
bitter
gourd
is
highly
important
for
achieving
high
yield
and
quality.
To
better
understand
genetic
basis
in
gourd,
this
study
analyzed
300
lines
recombinant
inbred
(RILs)
formed
by
hybridizing
mildew-resistant
material
MC18
mildew-susceptible
MC402.
A
high-density
map
1222.04
cM
was
constructed
via
incorporating
1,996,505
SNPs
generated
resequencing
data
from
180
lines,
quantitative
trait
locus
(QTL)
positioning
performed
using
phenotypic
at
different
inoculation
stages.
total
seven
QTLs
related
to
were
identified
on
four
chromosomes,
among
which
qPm-3-1
detected
multiple
times
stages
after
inoculation.
By
selecting
18
KASP
markers
that
evenly
distributed
throughout
region,
250
parents
genotyped,
interval
narrowed
207.22
kb,
explained
13.91%
variation.
Through
RNA-seq
analysis
parents,
11,868
differentially
expressed
genes
(DEGs)
screened.
combining
analysis,
gene
coexpression,
sequence
comparison
extreme
materials,
two
candidate
controlling
(
Language: Английский