Complete mitochondrial genome of critically endangered catfish Hemibagrus punctatus (Jerdon, 1849) and comparative analysis for insights into the phylogeny of hemibagrids through mitogenomic approach
Molecular Biology Reports,
Год журнала:
2024,
Номер
51(1)
Опубликована: Май 1, 2024
Язык: Английский
Phylogenetic relationship analysis of leafhopper subfamily Iassinae (Hemiptera: Cicadellidae) based on low-coverage whole-genome data
Arthropod Systematics & Phylogeny,
Год журнала:
2025,
Номер
83, С. 31 - 41
Опубликована: Фев. 25, 2025
Iassinae,
a
widely
distributed
group
of
herbivorous
pest
insects,
is
subfamily
Cicadellidae.
Previous
studies
on
the
phylogeny
Iassinae
were
mostly
based
morphological
characteristics,
mitochondrial
genomes,
and
molecular
fragments
(H3,
28S,
12S),
their
phylogenetic
relationships
controversial.
To
better
understand
we
analyzed
among
four
genera
in
with
use
thousands
universal
single-copy
orthologs
ultraconserved
elements
extracted
from
25
newly
sequenced
low-coverage
whole
genome
data.
Both
marker
sets
provided
consistent
results
across
maximum
likelihood
coalescent-based
species
tree
approaches.
The
showed
that
two
Batracomorphus
Trocnadella
monophyletic
groups,
Krisna
paraphyletic
group.
For
genus
Gessius
,
could
not
explain
whether
it
or
since
only
one
was
involved.
In
this
study,
relationship
stable,
all
supported
sister
possess
relationship.
addition,
divergence
time
began
at
approximately
49–72
Mya,
33–57
51–78
Mya
17–36
respectively.
These
will
help
us
to
evolutionary
Iassinae.
Язык: Английский
Assembly and comparative analysis of the complete mitochondrial genome of Lactuca sativa var. ramosa Hort
Scientific Reports,
Год журнала:
2025,
Номер
15(1)
Опубликована: Март 18, 2025
Lettuce
(Lactuca
sativa
var.
ramosa
Hort)
is
an
important
leaf
vegetable
that
widely
cultivates
due
to
its
high-quality,
short
growth
cycle,
and
less
diseases.
L.
Hort
belongs
Asteraceae
family
evolutionary
relationships
with
related
species
of
are
not
completely
assessed
based
on
genome
sequences.
Here,
we
assembled
the
whole
mitochondrial
(mt)
Hort,
performed
a
comparative
other
species.
The
mt
has
typical
circular
structure
length
363,324
bp,
within
GC
content
accounted
for
45.35%.
In
total
71
genes,
comprising
35
protein-coding
genes
(PCGs),
6
rRNAs,
28
tRNAs,
2
pseudogenes
were
annotated.
Codon
preference,
RNA-editing
sites,
repetitive
sequences,
migrating
from
chloroplast
(cp)
genomes
investigated
in
genome.
Nucleotide
diversity
(Pi)
showed
was
relatively
conserved.
A
Bayesian
phylogenetic
tree
closely
capitata
virosa,
which
belonged
Lactuca
genus
family.
Our
findings
will
provide
useful
information
explore
genetic
variation,
diversity,
molecular
breeding
genus.
Язык: Английский
First report of the complete mitochondrial genome of 3 beetles (Coleoptera: Scarabaeidae) harming Gastrodia elata (Asparagales: Orchidaceae)
Journal of Insect Science,
Год журнала:
2024,
Номер
24(1)
Опубликована: Янв. 1, 2024
Abstract
Gastrodia
elata
Blume,
a
valuable
traditional
Chinese
medicine
with
significant
clinical
and
nutritional
importance,
is
fungal
heterotrophic
orchid.
We
present
the
first
report
of
mitochondrial
genome
structure
characteristics
3
Scarabaeidae
pests
affecting
G.
elata:
Sophrops
peronosporus
Gu
&
Zhang,
Anomala
rufiventris
Kollar
Redtenbacher,
Callistethus
plagiicollis
Fairmaire.
Each
mitogenome
contained
13
protein-coding
genes
(PCGs),
22
transfer
RNAs
(tRNAs),
2
ribosomal
(rRNAs),
control
region,
no
gene
rearrangements
observed.
All
21
tRNAs,
except
trnS1
that
lacks
dihydrouridine,
had
stable
cloverleaf
secondary
structure.
Maximum
likelihood
Bayesian
inference
analyses
based
on
PCGs
produced
topologically
similar
phylogenetic
trees,
both
high
nodal
support.
Larvae
these
cause
substantial
damage
by
gnawing
tubers
roots
elata,
leading
to
reduced
yield
compromised
quality.
These
findings
contribute
studies
Scarabaeidae,
expand
knowledge
pests,
offer
reference
materials
for
their
identification
control.
Язык: Английский
Mitochondrial Genome Characteristics Reveal Evolution of Acanthopsetta nadeshnyi (Jordan and Starks, 1904) and Phylogenetic Relationships
Genes,
Год журнала:
2024,
Номер
15(7), С. 893 - 893
Опубликована: Июль 8, 2024
In
the
present
study,
mitochondrial
genomic
characteristics
of
Acanthopsetta
nadeshnyi
have
been
reported
and
depicted
phylogenetic
relationship
among
Pleuronectidae.
Combined
with
a
comparative
analysis
13
PCGs,
TN93
model
was
used
to
review
neutral
evolution
habitat
catalysis
mitogenome
verify
distancing
purification
selectivity
in
At
same
time,
species
differentiation
classification
based
on
data
established.
This
study
is
expected
provide
new
perspective
taxonomic
status
A.
lay
foundation
for
further
exploration
environmental
biological
evolutionary
mechanisms.
Язык: Английский
Codon usage bias analysis in the mitochondrial genomes of five Rhingia Scopoli (Diptera, Syrphidae, Eristalinae) species
Gene,
Год журнала:
2024,
Номер
917, С. 148466 - 148466
Опубликована: Апрель 12, 2024
Язык: Английский
Characterisation of the complete mitochondrial genomes and phylogenetic analysis of ten Oedipodinae grasshoppers (Orthoptera: Acrididae) from Algeria
Oriental Insects,
Год журнала:
2024,
Номер
unknown, С. 1 - 34
Опубликована: Июнь 5, 2024
This
study
presents
the
mitogenomes
of
ten
species
Oedipodinae
grasshoppers
belonging
to
seven
different
genera
in
Algeria;
nine
these
were
sequenced
for
first
time,
providing
mitochondrial
genomic
sequences
their
respective
genera.
Mitogenomes
obtained
using
next-generation
sequencing
and
de-novo
assembly
techniques
range
length
from
15,603
15,766
bp.
These
are
composed
double-stranded
cyclic
molecules
encode
typical
set
37
genes.
The
AT
content,
skew
GC
skew,
codon
usage
nucleotide
bias
similar
across
species.
All
13
protein-coding
genes
start
with
a
ATN
(G/C/T/A)
codon,
except
COX1
Sphingonotus
octofasciatus,
which
starts
CCG.
Two
ribosomal
RNA
located
on
N-strand
22
tRNA
folded
into
clover-leaf
structures,
trnS
(AGN),
lacks
DHU
arm.
tRNAs
encoded
by
carry
two
three
times
more
non-canonical
base
pairs
than
J-strand.
A+T-rich
regions
variable
terms
composition,
number
repeated
units.
Moreover,
conserved
blocks
identified
all
Additionally,
phylogenetic
relationships
reconstructed
both
ML
BI
methods
based
datasets
included
newly
along
previously
published
data.
results
reveal
that
subfamilies
Oedipodinae,
Acridinae,
Gomphocerinae
Catantopinae
paraphyletic
strong
nodal
support.
As
previous
studies,
especially
show
inconsistencies
between
taxonomy
phylogeny
suggesting
need
future
large-scale
revision.
Язык: Английский
Mitochondrial genomes of Macropsini (Hemiptera: Cicadellidae: Eurymelinae): Structural features, codon usage patterns, and phylogenetic implications
Ecology and Evolution,
Год журнала:
2024,
Номер
14(9)
Опубликована: Сен. 1, 2024
Abstract
Macropsini
is
a
tribe
of
Eurymelinae
in
the
family
Cicadellidae
that
widely
distributed
worldwide.
Still,
its
taxonomic
status
has
been
unstable,
and
classification
certain
clades
at
genus
level
controversial.
The
aim
this
study
to
address
patterns
processes
explain
structure
evolution
mitogenomes
Macropsini,
while
contributing
resolution
systematic
issues
involving
five
their
genera.
To
task,
26
species
were
sequenced
characterized,
phylogenetic
relationships
reconstructed.
results
revealed
nucleotide
composition
mitochondrial
genes
these
was
significantly
skewed
toward
A
T.
Codons
ending
with
T
or
relative
synonymous
codon
usage
more
prevalent
than
those
C
G.
parity
plot,
neutrality
correspondence
analysis
mutation
selective
pressure
affect
patterns.
In
monophyly
Pedionis
Macropsis
well‐supported.
Meanwhile,
Oncopsis
paraphyletic
regarding
Pediopsoides
.
conclusion,
research
not
only
contributes
valuable
data
understanding
mitogenome
but
also
provides
reference
for
future
investigations
on
patterns,
potential
adaptive
evolution,
phylogeny
within
subfamily
Eurymelinae.
Язык: Английский
Description of mitochondrial genomes and phylogenetic analysis of Megophthalminae (Hemiptera: Cicadellidae)
Journal of Insect Science,
Год журнала:
2024,
Номер
24(6)
Опубликована: Ноя. 1, 2024
To
elucidate
phylogenetic
relationships
within
the
leafhopper's
subfamily
Megophthalminae
(Hemiptera:
Cicadellidae),
mitogenomes
of
12
species
were
sequenced
and
assembled.
These
added
to
eight
other
that
are
currently
available.
Mitogenome
size
ranged
from
15,193
bp
in
Onukigallia
onukii
(Matsumura,
1912)
15,986
Multinervis
guangxiensis
(Li
Li,
2013),
they
all
contained
37
genes,
gene
order
was
similar
leafhoppers.
Nucleotide
composition
analysis
showed
AT
content
higher
than
GC,
protein-coding
genes
usually
ended
with
A/T
at
3rd
codon
position.
The
Ka/Ks
ratio
CYTB
has
slowest
evolutionary
rate,
while
ND4
is
fastest
rate.
Relative
synonymous
usage
revealed
most
frequently
used
UUA
(L),
followed
by
CGA
(R),
least
CCG
(P).
Parity
plot
neutrality
analyses
bias
mitochondrial
influenced
natural
selection
mutation
pressure.
However,
plays
a
major
role,
effect
pressure
small.
Effective
number
codons
values
40.15-49.17,
which
represented
relatively
low
bias.
Phylogenetic
based
on
three
datasets
(AA,
13PCG,
13PCG_2rRNA)
using
two
methods
(maximum
likelihood
Bayesian
inference).
In
obtained
topology,
clustered
into
monophyletic
group.
conclusion,
our
results
clarify
structural
modules
confirm
monophyly
Cicadellidae.
Язык: Английский
Exploring the mitogenomes of Batracomorphus (Hemiptera: Cicadellidae: Iassinae): new insights from structural diversity and phylogenomic analyses
Insect Systematics and Diversity,
Год журнала:
2024,
Номер
8(4)
Опубликована: Июль 1, 2024
Abstract
Comparisons
of
mitogenomes
are
widely
used
for
species
identification
and
to
explore
the
phylogenetic
relationship
among
insect
taxa.
Batracomorphus
is
third
most
diverse
distributed
genus
in
Cicadellidae
(Hemiptera).
However,
there
have
been
no
analyses
genome
structure
relationships
within
genus.
To
compensate
paucity
genomic
information
this
genus,
we
sequenced
novel
complete
mitochondrial
genomes
11
combined
these
with
23
previously
perform
structural
comparisons
phylogenomic
studies.
Our
results
reveal
generally
conserved
mitogenome
organization,
one
case
tRNA
gene
rearrangement,
trnI-trnQ
reversed
trnQ-trnI
when
compared
ancestral
arrangement.
Analysis
ratio
nonsynonymous
(Ka)
synonymous
substitutions
(Ks)
showed
ATP8
fastest
COI
slowest
evolving
gene.
ND2
ND6
highly
variable
nucleotide
diversity,
whereas
ND1
exhibit
lowest
diversity.
Phylogenetic
analysis
sequences
grouped
into
a
clade
subfamily
Iassinae.
Within
Batracomorphus,
3
clades
were
reconstructed
consistent
observed
indicating
that
such
rearrangements
can
serve
as
reliable
molecular
markers
supporting
hypotheses.
These
also
correspond
clusters
recovered
by
morphometric
aedeagal
shape,
suggesting
characters
male
genitalia
traditionally
delimitation
phylogenetically
informative.
Molecular
divergence
time
estimates
indicate
speciation
events
occurred
between
Paleogene
Neogene.
This
study
provides
insight
population
genetics,
biology,
phylogeny,
morphological
evolution
leafhopper
Iassinae
its
largest
Batracomorphus.
Язык: Английский