PLoS ONE,
Journal Year:
2015,
Volume and Issue:
10(3), P. e0119873 - e0119873
Published: March 18, 2015
Genome-wide
association
mapping
studies
(GWAS)
are
frequently
used
to
detect
QTL
in
diverse
collections
of
crop
germplasm,
based
on
historic
recombination
events
and
linkage
disequilibrium
across
the
genome.
Generally,
diversity
panels
genotyped
with
high
density
SNP
utilized
order
assay
a
wide
range
alleles
haplotypes
monitor
breakpoints
By
contrast,
GWAS
have
not
generally
been
performed
breeding
populations.
In
this
study
we
for
19
agronomic
traits
including
yield
components
population
elite
irrigated
tropical
rice
lines
so
that
results
would
be
more
directly
applicable
than
those
from
panel.
The
was
71,710
SNPs
using
genotyping-by-sequencing
(GBS),
explicit
goal
expediting
selection
program.
Using
panel
identified
52
11
traits,
large
effect
QTLs
flowering
time
grain
length/grain
width/grain-length-breadth
ratio.
We
also
can
select
plants
our
short
stature
(plant
height),
early
time,
yield,
thus
demonstrate
utility
populations
informing
decisions.
conclude
by
exploring
how
newly
significant
insights
into
genetic
architecture
these
quantitative
leveraged
build
genomic-assisted
models.
Journal of Experimental Botany,
Journal Year:
2015,
Volume and Issue:
66(12), P. 3477 - 3486
Published: March 28, 2015
Climate
change
has
generated
unpredictability
in
the
timing
and
amount
of
rain,
as
well
extreme
heat
cold
spells
that
have
affected
grain
yields
worldwide
threaten
food
security.
Sources
specific
adaptation
related
to
drought
heat,
associated
breeding
genetic
traits,
will
contribute
maintaining
dry
warm
years.
Increased
crop
photosynthesis
biomass
been
achieved
particularly
through
disease
resistance
healthy
leaves.
Similarly,
sources
extended
increased
would
also
greatly
benefit
improvement.
Wheat
landraces
cultivated
for
thousands
years
under
most
environmental
conditions.
They
lower
input
farming
systems
which
those
increase
duration
photosynthesis,
conserved.
Landraces
are
a
valuable
source
diversity
local
conditions
according
their
place
origin.
Evidence
supports
hypothesis
can
provide
thousand
kernel
weight,
both
important
traits
tolerate
heat.
Evaluation
wheat
stored
gene
banks
with
highly
beneficial
untapped
stress
adaptation,
once
characterized,
should
be
used
Unified
development
databases
promotion
data
sharing
among
physiologists,
pathologists,
quality
scientists,
national
programmes,
breeders
improvement
climate
worldwide.
Plant Breeding and Biotechnology,
Journal Year:
2014,
Volume and Issue:
2(3), P. 195 - 212
Published: Sept. 30, 2014
Recent
advances
in
next-generation
sequencing
(NGS)
and
single
nucleotide
polymorphism
(SNP)
genotyping
promise
to
greatly
accelerate
crop
improvement
if
properly
deployed.
High-throughput
SNP
offers
a
number
of
advantages
over
previous
marker
systems,
including
an
abundance
markers,
rapid
processing
large
populations,
variety
systems
meet
different
needs,
straightforward
allele
calling
database
storage
due
the
bi-allelic
nature
markers.
NGS
technologies
have
enabled
whole
genome
sequencing,
providing
extensive
discovery
pools
select
informative
markers
for
sets
germplasm.
Highly
multiplexed
fixed
array
platforms
powerful
approaches
such
as
genome-wide
association
studies.
On
other
hand,
routine
deployment
trait-specific
requires
flexible,
low-cost
smaller
numbers
SNPs
across
breeding
using
Fluidigm’s
Dynamic
Arrays™,
Douglas
Scientific’s
Array
Tape™,
LGC’s
automated
running
KASP™
At
same
time,
by
(GBS)
is
rapidly
becoming
popular
high-density
scans
through
sequencing.
This
review
will
discuss
range
options
available
modern
breeders
integrating
into
their
programs,
whether
outsourcing
service
providers
or
setting
up
in-house
facilities,
provide
example
rice
research
demonstrated
Genotyping
Services
Lab
at
International
Rice
Research
Institute.
Heredity,
Journal Year:
2016,
Volume and Issue:
116(4), P. 395 - 408
Published: Feb. 10, 2016
To
address
the
multiple
challenges
to
food
security
posed
by
global
climate
change,
population
growth
and
rising
incomes,
plant
breeders
are
developing
new
crop
varieties
that
can
enhance
both
agricultural
productivity
environmental
sustainability.
Current
breeding
practices,
however,
unable
keep
pace
with
demand.
Genomic
selection
(GS)
is
a
technique
helps
accelerate
rate
of
genetic
gain
in
using
whole-genome
data
predict
value
offspring.
Here,
we
describe
GS
model
combines
RR-BLUP
markers
fit
as
fixed
effects
selected
from
results
genome-wide-association
study
(GWAS)
on
training
data.
We
term
this
+
de
novo
GWAS.
In
tropical
rice,
GWAS
outperformed
six
other
models
for
variety
traits
environments.
On
basis
these
results,
propose
an
extended,
two-part
design
be
used
efficiently
integrate
novel
variation
into
elite
populations,
thus
expanding
diversity
enhancing
potential
sustainable
gains.
Frontiers in Plant Science,
Journal Year:
2015,
Volume and Issue:
6
Published: Aug. 11, 2015
Climate
change
affects
agricultural
productivity
worldwide.
Increased
prices
of
food
commodities
are
the
initial
indication
drastic
edible
yield
loss,
which
is
expected
to
surge
further
due
global
warming.
This
situation
has
compelled
plant
scientists
develop
climate
change-resilient
crops,
can
withstand
broad-spectrum
stresses
such
as
drought,
heat,
cold,
salinity,
flood
and
submergence,
pests
along
with
increased
productivity.
Genomics
appears
be
a
promising
tool
for
deciphering
stress
responsiveness
crop
species
adaptation
traits
or
in
wild
relatives
towards
identifying
underlying
genes,
alleles
quantitative
trait
loci.
Molecular
breeding
approaches
have
been
proven
helpful
enhancing
plants,
recent
advancement
next-generation
sequencing
high-throughput
phenotyping
platforms
transformed
molecular
genomics-assisted
(GAB).
In
view
this,
present
review
elaborates
progress
prospects
GAB
improving
resilience
plants
circumventing
insecurity.
Plant Biotechnology Journal,
Journal Year:
2016,
Volume and Issue:
15(2), P. 149 - 161
Published: Oct. 11, 2016
In
the
last
decade,
revolution
in
sequencing
technologies
has
deeply
impacted
crop
genotyping
practice.
New
methods
allowing
rapid,
high-throughput
of
entire
populations
have
proliferated
and
opened
door
to
wider
use
molecular
tools
plant
breeding.
These
new
genotyping-by-sequencing
(GBS)
include
over
a
dozen
reduced-representation
(RRS)
approaches
at
least
four
whole-genome
resequencing
(WGR)
approaches.
The
diversity
available,
each
often
producing
different
types
data
cost,
can
make
selection
best-suited
method
seem
daunting
task.
We
review
most
common
used
today
compare
their
suitability
for
linkage
mapping,
genomewide
association
studies
(GWAS),
marker-assisted
genomic
genome
assembly
improvement
crops
with
various
sizes
complexity.
Furthermore,
we
give
an
outline
bioinformatics
analysis
data.
WGR
is
well
suited
biparental
cross
complex,
small-
moderate-sized
genomes
provides
lowest
cost
per
marker
point.
RRS
differ
tasks,
but
demonstrate
similar
costs
are
generally
better
de
novo
applications
more
cost-effective
when
large
or
high
heterozygosity.
expect
that
although
will
remain
some
time,
become
widespread
as
continue
decrease.
Plant Science,
Journal Year:
2020,
Volume and Issue:
293, P. 110412 - 110412
Published: Jan. 15, 2020
Anthropogenic
increases
in
fossil
fuel
emissions
have
been
a
primary
driver
of
increased
concentrations
atmospheric
carbon
dioxide
([CO2])
and
other
greenhouse
gases
resulting
warmer
temperatures,
alterations
precipitation
patterns,
occurrence
extreme
weather
events
terrestrial
areas
across
the
globe.
In
agricultural
growing
regions,
climate
can
challenge
plant
productivity
ways
that
impact
ability
world
to
sustain
adequate
food
production
for
increasingly
affluent
population
with
shifting
access
affordable
nutritious
food.
While
knowledge
gap
exists
regarding
potential
change
impacts
is
large
agriculture,
it
especially
specialty
cropping
systems.
This
includes
fruit
vegetable
crops,
perennial
systems
which
also
contribute
(along
row
crops)
our
global
diet.
order
obtain
comprehensive
view
true
on
supply,
we
must
expand
narrow
focus
from
improving
yield
include
nutritional
value
these
crops.
address
questions,
need
multi-faceted
approach
integrates
physiology
genomics
tools
conducts
experiments
under
realistic
depictions
future
projected
climate.
review
describes
gaps
relation
responses,
questions
actions
are
needed
develop
sustainable
supply
light
change.