Chloroplast genomes of Simarouba Aubl., molecular evolution and comparative analyses within Sapindales
Scientific Reports,
Journal Year:
2024,
Volume and Issue:
14(1)
Published: Sept. 12, 2024
Language: Английский
Intraspecific Chloroplast Genome Variation and Domestication Origins of Major Cultivars of Styphnolobium japonicum
Genes,
Journal Year:
2023,
Volume and Issue:
14(6), P. 1156 - 1156
Published: May 26, 2023
Styphnolobium
japonicum
is
a
significant
resource
of
ornamental
and
medicinal
plants.
In
this
study,
we
employed
high-throughput
sequencing
to
assemble
nine
chloroplast
genomes
S.
japonicum.
We
compared
reconstructed
the
phylogenetic
relationships
these
genomes,
along
with
three
publicly
available
genomes.
Our
results
showed
that
length
12
ranged
from
158,613
bp
158,837
bp,
all
containing
129
unique
functional
genes.
The
genetic
diversity
within
was
relatively
low,
π
=
0.00029,
Theta-W
0.00028,
an
indel
frequency
0.62
indels/1
kb.
Among
four
regions,
SSC
region
exhibited
highest
frequency,
while
IR
had
lowest.
Non-coding
regions
displayed
greater
variation
coding
few
highly
variable
identified.
tree
constructed
revealed
major
cultivars
originated
two
'sources.
'JinhuaiJ2'
independent
origin
close
relatedness
var.
violacea,
japonicum,
f.
oligophylla.
On
other
hand,
shared
common
were
closely
related
pendula.
This
study
highlights
variability
provides
insights
into
origins
their
different
varieties
forma.
Language: Английский
Decoding Evolution of Rubioideae: Plastomes Reveal Sweet Secrets of Codon Usage, Diagnostides, and Superbarcoding
Genes,
Journal Year:
2024,
Volume and Issue:
15(5), P. 562 - 562
Published: April 27, 2024
Galium
genus
belongs
to
the
Rubiaceae
family,
which
consists
of
approximately
14,000
species.
In
comparison
its
well-known
relatives,
plastomes
have
not
been
explored
so
far.
The
this
a
typical,
quadripartite
structure,
but
differ
in
gene
content,
since
infA
is
missing
palustre
and
trfidum.
An
evaluation
effectiveness
using
entire
chloroplast
genome
sequences
as
superbarcodes
for
accurate
plant
species
identification
revealed
high
potential
method
molecular
delimitation
within
tribe.
trnE-UUC—psbD
region
showed
biggest
number
diagnostides
(diagnostic
nucleotides)
might
be
new
barcodes,
only
Galium,
also
other
closely
related
genera.
Relative
synonymous
codon
usage
(RSCU)
appeared
connected
with
phylogeny
showing
that
during
evolution,
plants
started
preferring
specific
codons
over
others.
Language: Английский