Genetic diversity and population structure studies of West African sweetpotato [Ipomoea batatas (L.) Lam] collection using DArTseq
PLoS ONE,
Год журнала:
2025,
Номер
20(1), С. e0312384 - e0312384
Опубликована: Янв. 3, 2025
Background
Sweetpotato
is
a
vegetatively
propagated
crop
cultivated
worldwide,
predominantly
in
developing
countries,
valued
for
its
adaptability,
short
growth
cycle,
and
high
productivity
per
unit
land
area.
In
most
sub-Saharan
African
(SSA)
it
widely
grown
by
smallholder
farmers.
Niger,
Nigeria,
Benin
have
huge
diversity
of
sweetpotato
accessions
whose
potential
has
not
fully
been
explored
to
date.
Diversity
Arrays
Technology
(DArTseq),
Genotyping
Sequencing
(GBS)
method,
developed
enables
genotyping
with
high-density
single
nucleotide
polymorphisms
(SNPs)
different
species.
The
aim
this
study
was
assess
the
genetic
population
structure
West
collection
using
through
(GBS).
Results
29,523
(DArTseq)
polymorphism
markers
were
used
genotype
271
accessions.
Genetic
analysis
revealed
an
average
polymorphic
information
content
(PIC)
value
0.39,
minor
allele
frequency
0.26,
observed
heterozygosity
10%.
highest
(0.41)
chromosomes
4,
while
proportion
heterozygous
(He)
(0.18)
11.
Molecular
values
sites
(Ps),
theta
(θ),
(π)
0.973,
0.158,
0.086,
respectively,
which
indicated
variation.
pairs
distances
range
from
0.08
0.47
overall
0.34.
Population
divided
into
four
populations
(population
1
characterised
mixture
all
countries;
2,
mostly
comprised
Nigerian
breeding
lines;
3
contained
exclusively
landraces
Benin;
4
composed
only
countries)
at
K
=
molecular
variance
(AMOVA)
based
on
PhiPT
showed
that
variation
explained
when
categorized
(25.25%)
cluster
(19.43%).
distance
group
(which
constituted
Niger
Benin)
genetically
distant
(0.428)
groups
2
(formed
75%
lines
Nigeria),
closest
(0.182)
2.
Conclusions
This
employed
7,591
DArTseq-based
SNP
markers,
revealing
extensive
within
between
populations.
Variability
among
countries
origin
(11.42%)
exceeded
biological
status
(9.13%)
storage
root
flesh
colour
(7.90%),
emphasizing
impact
migration
diversity.
principal
component
(PCA),
Neighbor-Joining
(NJ)
tree,
STRUCTURE
grouped
distinct
clusters,
irrespective
their
geographic
origins,
indicating
widespread
exchange.
Group
dominated
(95%),
significant
differentiation
(Nei’s
Gst
0.428)
mainly
comprising
lines,
suggesting
as
heterotic
initiatives
like
HEBS
or
ABS.
Язык: Английский
Genetic Diversity and Population Structure Analysis of Excellent Sugar Beet (Beta vulgaris L.) Germplasm Resources
Horticulturae,
Год журнала:
2024,
Номер
10(2), С. 120 - 120
Опубликована: Янв. 25, 2024
This
study
analyzed
the
genetic
diversity,
population
structure,
and
cluster
analysis
of
129
sugar
beet
germplasm
resources
to
screen
superior
germplasms
for
breeding
using
27
simple
sequence
repeat
(SSR)
33
pairs
insertion–deletion
(InDel)
molecular
markers.
After
integrating
phenotypic
variation
16
descriptive
4
qualitative
variables,
levels
germplasms’
traits
were
principal
component
(PCA),
correlation
analysis,
variance
methods.
The
diversity
examination
markers
showed
a
polymorphism
information
content
(PIC)
0.419–0.773
(mean
=
0.610).
Moreover,
mean
number
effective
alleles
detected
via
SSR
InDel
was
3.054
2.298,
respectively.
Meanwhile,
PIC
ranged
from
0.130
0.602
0.462).
structure
revealed
most
appropriate
K-value,
indicating
three
populations
(K
3).
distances
0.099
0.466
0.283).
results
demonstrated
that
grouped
into
primary
classes.
Based
on
variance,
two
features
with
highest
coefficients
petiole
width
(16.64%)
length
(17.11%).
trait
root
index
(1.395)
exhibited
greatest
diversity.
PCA
reduced
20
five
components,
contributing
51.151%.
this
provide
theoretical
foundation
future
selection
resources.
Язык: Английский
Genomic profiling reveals intraspecific divergence and interspecific diversity in Allium cepa L.
Genetic Resources and Crop Evolution,
Год журнала:
2024,
Номер
71(7), С. 3673 - 3695
Опубликована: Фев. 1, 2024
Язык: Английский
Exploring Genetic Diversity and Phylogenetic Relationships in Camellia reticulata Cultivars Using Novel Low-Copy Nuclear Gene Markers
Horticulturae,
Год журнала:
2024,
Номер
10(3), С. 303 - 303
Опубликована: Март 21, 2024
This
study
delves
into
the
exploration
of
genetic
diversity
and
phylogenetic
relationships
within
Camellia
reticulata
cultivars,
providing
a
vital
reference
for
horticultural
research
on
this
hetero-hexaploid
species.
Utilizing
available
transcriptome
data
from
C.
reticulata,
novel
low-copy
nuclear
gene
sequences
were
successfully
identified.
With
tailored
primer
design,
these
genes
amplified
sequenced
100
cultivars
originating
Kunming,
Chuxiong,
Dali,
Tengchong
in
China.
Five
distinct
found
to
collectively
span
3481
bp,
showcasing
71
polymorphic
mutation
sites
(Pi
=
0.0077)
91
haplotypes
(Hd
0.9974).
The
among
four
provenances
ranked
>
Dali
Kunming
Chuxiong.
AMOVA
analysis
revealed
that
96.50%
variation
exists
provenances.
Low
distance
differentiation
(Fst=
0.0199)
observed
Ninety-nine
clustered
clades,
corresponding
three
ancestors
(diploid
pitardii,
saluenensis).
sequence
markers
developed
provide
an
effective
tool
analyzing
diversity,
relationships,
origination
cultivars.
Язык: Английский
Phenotypic and molecular characterization of vernalization sensitivity and pre-mature bolting in onion (Allium cepa L.)
Genetic Resources and Crop Evolution,
Год журнала:
2024,
Номер
unknown
Опубликована: Май 27, 2024
Язык: Английский
Genetic diversity of a Silybum marianum (L.) Gaertn. germplasm collection revealed by DNA Diversity Array Technology (DArTseq)
PLoS ONE,
Год журнала:
2024,
Номер
19(8), С. e0308368 - e0308368
Опубликована: Авг. 7, 2024
Silybum
marianum
(L.)
Gaertn.
is
a
multipurpose
crop
native
to
the
Mediterranean
and
middle
east
regions
mainly
known
for
hepatoprotective
properties
of
fruit-derived
silymarin.
Despite
growing
interest
in
milk
thistle
as
versatile
with
medicinal
value,
its
potential
agroindustry
hindered
by
incomplete
domestication
limited
genomic
knowledge,
impeding
development
competitive
breeding
programs.
The
present
study
aimed
evaluate
genetic
diversity
panel
S.
accessions
(n
=
31),
previously
characterized
morphological
phytochemical
traits,
using
5,178
polymorphic
DArTseq
SNP
markers.
structure
investigated
both
parametric
non-parametric
approaches
(e.g.
PCA,
AWclust,
Admixture),
revealed
three
distinctive
groups
reflecting
geographical
origins.
Indeed,
Pop1
grouped
from
Central
Europe
UK,
Pop3
consisted
Italian
origin,
Pop2
included
different
areas.
Interestingly,
genotypes
showed
divergent
phenotypic
distribution,
particularly
fruit
oleic
linoleic
acid
content,
compared
other
two
groups.
Genetic
differentiation
among
groups,
computing
pairwise
fixation
index
(FST),
confirmed
greater
subpopulations,
also
based
on
indices
private
alleles,
heterozygosity).
Finally,
22
markers
were
declared
putatively
under
natural
selection,
which
seven
significantly
affected
some
important
traits
such
oleic,
arachidonic,
behenic
content.
These
findings
suggest
that
these
markers,
overall,
identified
within
Pop3,
could
be
exploited
specific
programs,
potentially
at
diversifying
use
thistle.
incorporating
material
haplotypes
carrying
selected
loci
into
populations
might
basis
developing
lines
higher
levels
acids,
lower
acid,
paving
new
avenues
enhancing
nutritional
agronomic
characteristics
Язык: Английский
Simple recurrent selection-mediated improvement in quantitative traits of white onion
Vegetos,
Год журнала:
2024,
Номер
unknown
Опубликована: Авг. 29, 2024
Язык: Английский
Breeding potential of red- and white-skinned onion ( Allium cepa L.) genotypes for economic traits using multivariate analysis
International Journal of Vegetable Science,
Год журнала:
2024,
Номер
unknown, С. 1 - 19
Опубликована: Ноя. 18, 2024
The
improvement
of
onion
(Allium
cepa
L.)
depends
on
the
characterization
and
evaluation
germplasm
to
find
superior
genotypes
with
desired
horticultural
qualities
utilization
diversity
in
future
breeding.
study
aimed
evaluate
advanced
breeding
lines
(consisting
both
red-
white-skinned
types)
through
genetic
component
analyses
divergence
using
multivariate
analysis
identify
that
can
be
utilized
for
table
dehydration
purposes,
respectively.
Genotypes
'(EM-AVT-2)
REC-21-48,'
'(RIET)
RVA-21-01,'
REC-21-46'
were
found
high
yielders.
Higher
estimates
genotypic
coefficient
variation,
heritability
advance
percentage
double
bulb,
total
soluble
solid,
reducing
sugar
contents
indicate
additive
gene
action,
selection
based
these
parameters
would
more
reliable.
plant
height,
polar
diameter,
equatorial
neck
thickness
emerged
as
important
indices.
Principal
components
such
number
leaves
per
plant,
bolting
bulb
had
values
>1,
accounting
81.73%
variation.
Based
mean
analysis,
(red-skinned),
REC-21-52'
'(WIET)
WVA-21-47'
(white-skinned),
'(WAVT-2)
WVC-21-74'
WVA-21-39'
(white-skinned)
'(WHTSS-AVT-2)
WTC-21-84'
could
potential
genitors
purpose.
Язык: Английский