Complete mitochondrial genome of Melia azedarach L., reveals two conformations generated by the repeat sequence mediated recombination
BMC Plant Biology,
Год журнала:
2024,
Номер
24(1)
Опубликована: Июль 8, 2024
Abstract
Melia
azedarach
is
a
species
of
enormous
value
pharmaceutical
industries.
Although
the
chloroplast
genome
M.
has
been
explored,
information
mitochondrial
(Mt
genome)
remains
surprisingly
limited.
In
this
study,
we
used
hybrid
assembly
strategy
BGI
short-reads
and
Nanopore
long-reads
to
assemble
Mt
.
The
characterized
by
two
circular
chromosomes
with
350,142
bp
290,387
in
length,
respectively,
which
encodes
35
protein-coding
genes
(PCGs),
23
tRNA
genes,
3
rRNA
genes.
A
pair
direct
repeats
(R1
R2)
were
associated
recombination,
resulting
conformations
based
on
Sanger
sequencing
Oxford
sequencing.
Comparative
analysis
identified
19
homologous
fragments
between
genome,
longest
fragment
12,142
bp.
phylogenetic
PCGs
consist
latest
classification
Angiosperm
Phylogeny
Group.
Notably,
total
356
potential
RNA
editing
sites
predicted
PCGs,
events
lead
formation
stop
codon
rps
10
gene
start
codons
nad
4L
atp
9
verified
PCR
amplification
Taken
together,
exploration
gap-free
provides
new
insight
into
evolution
research
complex
mitogenome
architecture.
Язык: Английский
Kekerabatan Pacar Cina (Aglaia odorata) Berdasarkan Gen rbcL Menggunakan Metode BLAST dan Filogenetik
SRIWIJAYA BIOSCIENTIA,
Год журнала:
2025,
Номер
6(01), С. 14 - 19
Опубликована: Фев. 24, 2025
Pacar
Cina
termasuk
kedalam
genus
Aglaia
yang
merupakan
cukup
besar,
sehingga
terdapat
beberapa
karakteristik
spesies
didalamnya.
Analisis
kekerabatan
dengan
didalam
sendiri
masih
sedikit
dilakukan,
hal
ini
perlu
dilakukan
untuk
melihat
bagai
mana
ada
antara
dan
lainnya
Aglaia.
Beberapa
gen
biasa
digunakan
melakukan
analisis
antar
tumbuhan
tingkat
tinggi
adalah
Gen
rbcL.
Metode
bisa
mencari
dalam
metode
Basic
Local
Alignment
Search
Tool
(BLAST)
di
websiteNational
Center
for
Biotechnology
Information
(NCBI)
telah
banyak
molekuler
rekonstruksi
pohon
filogenetik
spesies.
Hasil
menunjukkan
bahwa
BLAST
sampel
memiliki
dekat
odorata
dapat
menjelaskan
spesies-spesies
Kata
kunci:
odorata,
rbcL
Gene,
Phylogenetic
Decoding the mitogenome of rosemary (Salvia rosmarinus): insights into genome evolution, structural dynamics and prospects for mitochondrial engineering
BMC Plant Biology,
Год журнала:
2025,
Номер
25(1)
Опубликована: Апрель 17, 2025
Rosemary
(Salvia
rosmarinus),
an
aromatic
evergreen
shrub
of
the
Salvia
(Lamiaceae),
is
native
to
Mediterranean
region,
thriving
in
rocky
or
arid
soils.
Widely
used
food,
pharmaceuticals,
and
cosmetics,
its
clonal
reproduction
poses
significant
challenges
for
breeding
germplasm
innovation.
While
mitogenome
engineering
holds
promise
introducing
heritable
mutations,
incomplete
information
rosemary
has
hindered
such
efforts.
This
study
addresses
this
gap
by
assembling
analyzing
complete
S.
rosmarinus,
focusing
on
structure,
repetitive
sequences,
RNA
editing
events,
intracellular
gene
transfer
(IGT),
phylogenetic
relationships.
The
rosmarinus
spans
384,113
bp
with
a
GC
content
44.8%,
containing
34
unique
protein-coding
genes
114
simple
sequence
repeats.
Comparative
analysis
revealed
28
homologous
segments
shared
between
plastome,
totaling
18,675
length.
Furthermore,
fragments
nuclear
organellar
genomes
were
identified,
including
1,069,255
organelle-derived
sequences
genome,
194,689
from
plastid
DNA
transfers
(NUPTs)
15,192
mitochondrial
(NUMTs).
NUPTs
more
abundant
contributed
significantly
total
Synteny
eight
Lamiales
species
extensive
mitogenomic
recombination
structural
rearrangements.
These
findings
highlight
dynamic
nature
mitogenomes,
offering
insights
into
genome
evolution
supporting
future
programs
enhance
genetic
diversity
adaptability
rosmarinus.
provides
first
revealing
dispersed
repeats,
editing,
horizontal
organelle
genomes.
exhibits
typical
circular
structure
evidence
frequent
recombination,
providing
valuable
genetics,
evolution,
molecular
biology.
Язык: Английский
Comprehensive analysis of the first complete mitogenome and plastome of a traditional Chinese medicine Viola diffusa
BMC Genomics,
Год журнала:
2024,
Номер
25(1)
Опубликована: Дек. 2, 2024
Viola
diffusa
is
used
in
the
formulation
of
various
Traditional
Chinese
Medicines
(TCMs),
including
antiviral,
antimicrobial,
antitussive,
and
anti-inflammatory
drugs,
due
to
its
richness
flavonoids
triterpenoids.
The
biosynthesis
these
compounds
largely
mediated
by
cytochrome
P450
enzymes,
which
are
primarily
located
membranes
mitochondria
endoplasmic
reticulum.
This
study
presents
complete
assembly
mitogenome
plastome
diffusa.
circular
spans
474,721
bp
with
a
GC
content
44.17%
encodes
36
unique
protein-coding
genes,
21
tRNA,
3
rRNA.
Except
for
RSCU
values
1
observed
start
codon
(AUG)
tryptophan
(UGG),
mitochondrial
genes
exhibited
usage
bias,
most
estimates
deviating
from
1,
similar
patterns
closely
related
species.
Analysis
repetitive
sequences
demonstrated
potential
homologous
recombination
repeats.
Sequence
transfer
analysis
revealed
24
shared
between
plastome,
nine
full-length
genes.
Collinearity
was
among
species
within
other
members
Malpighiales
order,
indicated
presence
fragments.
length
arrangement
collinear
blocks
varied,
high
frequency
gene
rearrangement.
We
present
first
diffusa,
highlighting
implications
pharmacological,
evolutionary,
taxonomic
studies.
Our
research
underscores
multifaceted
importance
comprehensive
analysis.
Язык: Английский