Advancements in Escherichia coli secretion systems for enhanced recombinant protein production
World Journal of Microbiology and Biotechnology,
Год журнала:
2025,
Номер
41(3)
Опубликована: Март 1, 2025
Язык: Английский
Taxonomically different symbiotic communities of sympatric Arctic sponge species show functional similarity with specialization at species level
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2025,
Номер
unknown
Опубликована: Март 16, 2025
Abstract
Marine
sponges
harbor
diverse
communities
of
associated
organisms,
including
eukaryotes,
viruses,
and
bacteria.
Sponge
microbiomes
contribute
to
the
health
host
organisms
by
defending
them
against
invading
bacteria
providing
with
essential
metabolites.
Here
we
describe
three
sympatric
species
cold-water
marine
–
Halichondria
panicea
,
sitiens
Isodictya
palmata
sampled
over
a
period
six
years
at
White
Sea.
We
identified
as
low
microbial
abundance
detected
stably
that
represent
new
taxa
sponge
symbionts
within
Alpha-
Gammaproteobacteria.
The
carried
unique
sets
unrelated
symbiotic
illustrating
varying
complexity
microbiomes.
On
community
level,
shared
common
features;
they
encoded
multiple
eukaryotic-like
proteins,
biosynthetic
pathways,
transporters
amino
acids
vitamins
for
sponges.
however,
different
classes
proteins
pathways
were
distributed
between
dominant
minor
indicating
specialization
Particularly,
taurine
sulfoacetate
metabolism
exclusively
in
all
species.
Our
study
demonstrates
strong
functional
convergence
co-evolution
distribution
functions
members.
Additionally,
observed
dramatic
shifts
compositions
coinciding
abnormally
high
water
temperatures
during
2018
season,
highlighting
vulnerability
ecosystems
global
warming.
Язык: Английский
The architecture, assembly, and evolution of a complex flagellar motor
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2025,
Номер
unknown
Опубликована: Фев. 19, 2025
Summary
Bacterial
flagella
drive
motility
in
many
species,
likely
including
the
last
bacterial
common
ancestor
1,2
.
Knowledge
of
flagellar
assembly
and
function
has
mainly
come
from
studies
Escherichia
coli
Salmonella
enterica
,
which
have
simple
motors
3–7
However,
most
flagellated
bacteria
possess
complex
with
unique,
species-specific
adaptations
whose
mechanisms
evolution
remain
largely
unexplored
8–10
Here,
we
deploy
a
multidisciplinary
approach
to
build
near-complete
model
motor
Campylobacter
jejuni
revealing
its
remarkable
complexity
architecture
composition.
We
identify
an
E-ring
around
MS-ring,
periplasmic
cage
two
distinctive
conformations,
intricate
interaction
network
between
cage.
These
scaffolds
play
critical
roles
stabilizing
regulating
17
torque-generating
stator
complexes
for
optimal
motility.
In-depth
evolutionary
analyses
uncover
ancient
origin
prevalence
species
domain
Bacteria
as
well
unique
exaptation
type
IV
pili
components
PilMNOPQF
ancestral
phylum
Campylobacterota
Collectively,
our
reveal
novel
shed
light
on
modern
species.
Язык: Английский
T9GPred: A Comprehensive Computational Tool for the Prediction of Type 9 Secretion System, Gliding Motility, and the Associated Secreted Proteins
ACS Omega,
Год журнала:
2023,
Номер
8(37), С. 34091 - 34102
Опубликована: Сен. 8, 2023
Type
9
secretion
system
(T9SS)
is
one
of
the
least
characterized
systems
exclusively
found
in
Язык: Английский
Analyses of Xenorhabdus griffiniae genomes reveal two distinct sub-species that display intra-species variation due to prophages
BMC Genomics,
Год журнала:
2024,
Номер
25(1)
Опубликована: Ноя. 15, 2024
Abstract
Background
Nematodes
of
the
genus
Steinernema
and
their
Xenorhabdus
bacterial
symbionts
are
lethal
entomopathogens
that
useful
in
biocontrol
insect
pests,
as
sources
diverse
natural
products,
research
models
for
mutualism
parasitism.
play
a
central
role
all
aspects
lifecycle,
deeper
understanding
genomes
therefore
has
potential
to
spur
advances
each
these
applications.
Results
Here,
we
report
comparative
genomics
analysis
griffiniae
,
including
symbiont
hermaphroditum
nematodes,
which
genetic
genomic
tools
being
developed.
We
sequenced
assembled
circularized
three
strains:
HGB2511,
ID10
TH1.
then
determined
relationships
other
delineated
species
via
phylogenomic
analyses,
concluding
HGB2511
while
TH1
is
novel
species.
These
additions
existing
X.
landscape
further
allowed
identification
two
subspecies
within
clade.
Consistent
with
analysed
encode
wide
array
antimicrobials
virulence-related
proteins.
Comparative
creation
pangenome,
revealed
large
amount
intraspecies
variation
contained
mobilome
attributable
prophage
loci.
In
addition,
CRISPR
arrays,
secondary
metabolite
toxin
genes
varied
among
strains
Conclusions
Our
findings
suggest
phage-related
drive
diversity
closely
related
symbionts,
may
underlie
some
traits
most
associated
lifestyle
survival
entomopathogenic
nematodes
bacteria:
virulence
competition.
This
study
establishes
broad
knowledge
base
exploration
not
only
between
nematode
hosts
but
also
molecular
mechanisms
lifestyle.
Язык: Английский
Flavobacterium facile sp. nov., isolated from water system of Atlantic salmon (Salmo salar) fry cultured in Chile
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY,
Год журнала:
2024,
Номер
74(7)
Опубликована: Июль 26, 2024
Strain
T-12
T
,
an
orange,
Gram-stain-negative,
non-motile,
rod-shaped
strain,
was
isolated
in
November
2013
from
water
samples
collected
Atlantic
salmon
(
Salmo
salar
)
fry
culturing
system
at
a
fish
farm
Chile.
Phylogenetic
analysis
based
on
16S
rRNA
sequences
(1394
bp)
revealed
that
strain
belonged
to
the
genus
Flavobacterium
showing
close
relationships
bernardetii
F-372
(99.48
%)
and
terrigena
DS-20
(98.50
%).
The
genome
size
of
3.28
Mb,
with
G+C
content
31.1
mol%.
Genome
comparisons
aligned
(GCA_011305415)
DSM
17934
(GCA_900108955).
highest
digital
DNA–DNA
hybridization
(dDDH)
values
were
42.6
%
F.
33.9
Pairwise
average
nucleotide
identity
(ANI)
calculations
below
species
cutoff,
best
results
being:
ANIb,
90.33
%;
ANIm,
91.85
TETRA,
0.997
%.
These
dDDH
ANI
confirm
represents
new
species.
major
fatty
acids
iso-C
15
:
0
C
1
ω6
с
.
Detected
polar
lipids
included
phospholipids
n
=2),
aminophospholipid
=1),
aminolipid
=1)
unidentified
=2).
predominant
respiratory
quinone
menaquinone
MK7
(80
followed
by
MK-6
(20
Phenotypic,
chemotaxonomic,
genomic
data
support
classification
(=CECT
30410
=RGM
3222
as
representing
novel
for
which
name
facile
sp.
nov.
is
proposed.
Язык: Английский
Tad pili contribute to the virulence and biofilm formation of virulent Aeromonas hydrophila
Frontiers in Cellular and Infection Microbiology,
Год журнала:
2024,
Номер
14
Опубликована: Июль 31, 2024
Type
IV
pili
(T4P)
are
versatile
proteinaceous
protrusions
that
mediate
diverse
bacterial
processes,
including
adhesion,
motility,
and
biofilm
formation.
Язык: Английский
Dynamics and determinants of the gut mobilome in early life
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Сен. 7, 2024
Abstract
As
mobile
genetic
elements
(MGE)
are
critical
yet
understudied
determinants
of
gut
microbiome
composition,
we
characterized
the
virome
and
plasmidome
in
195
samples
from
28
mother–infant
dyads
delivered
by
caesarean
section.
Infant
mobilome
increased
richness
over
first
6
postnatal
weeks,
demonstrating
high
individual-specificity
temporal
stability,
establishing
a
personal
persistent
mobilome.
Formula-fed
infants
exhibited
greater
than
breastfed
infants,
with
plasmid
composition
influenced
antibiotic
exposure
birth
weight.
Plasmids
constituted
significant
reservoir
resistance
genes
(ARG),
around
5%
infant
taxonomic
units
carrying
ARG.
Notably,
ARG
profiles
did
not
differ
at
birth.
We
found
that
sharing
viral
strains
primarily
occurred
after
months
age.
Overall,
our
integrative
analysis
offers
novel
insights
into
dynamics,
modulation,
origin,
clinical
implications
MGE
developing
microbiome.
Язык: Английский
Saccharibacteria deploy two distinct Type IV pili, driving episymbiosis, host competition, and twitching motility
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Ноя. 25, 2024
Abstract
All
cultivated
Patescibacteria,
or
CPR,
exist
as
obligate
episymbionts
on
other
microbes.
Despite
being
ubiquitous
in
mammals
and
environmentally,
molecular
mechanisms
of
host
identification
binding
amongst
ultrasmall
bacterial
are
largely
unknown.
Type
4
pili
(T4P)
well
conserved
this
group
predicted
to
facilitate
symbiotic
interactions.
To
test
this,
we
targeted
T4P
pilin
genes
Saccharibacteria
Nanosynbacter
lyticus
strain
TM7x
assess
their
essentiality
roles
symbiosis.
Our
results
revealed
that
N.
assembles
two
distinct
T4P,
a
non-essential
thin
has
the
smallest
diameter
any
contributes
host-binding,
episymbiont
growth,
competitive
fitness
relative
Saccharibacteria,
an
essential
thick
whose
functions
include
twitching
motility.
Identification
lectin-like
minor
pilins
modification
cell
walls
suggest
glycan
mechanisms.
Collectively
our
findings
demonstrate
encode
unique
extracellular
vital
mediators
underexplored
episymbiotic
lifestyle.
Язык: Английский
Analyses ofXenorhabdus griffiniaegenomes reveal two distinct sub-species that display intra-species variation due to prophages
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Март 9, 2024
Abstract
Nematodes
of
the
genus
Steinernema
and
their
Xenorhabdus
bacterial
symbionts
are
lethal
entomopathogens
that
useful
in
biocontrol
insect
pests,
as
sources
diverse
natural
products,
research
models
for
mutualism
parasitism.
play
a
central
role
all
aspects
lifecycle,
deeper
understanding
genomes
therefore
has
potential
to
spur
advances
each
these
applications.
Here,
we
report
comparative
genomics
analysis
griffiniae
,
including
symbiont
hermaphroditum
nematodes,
which
genetic
genomic
tools
being
developed.
We
sequenced
assembled
circularized
three
strains:
HGB2511,
ID10
TH1.
then
determined
relationships
other
delineated
species
via
phylogenomic
analyses,
concluding
HGB2511
while
TH1
is
novel
species.
These
additions
existing
X.
landscape
further
allowed
identification
two
subspecies
within
clade.
Consistent
with
analysed
encode
wide
array
antimicrobials
virulence-related
proteins.
Comparative
creation
pangenome,
revealed
large
amount
intraspecies
variation
contained
mobilome
attributable
prophage
loci.
In
addition,
CRISPR
arrays,
secondary
metabolite
toxin
genes
varied
among
strains
Our
findings
suggest
phage-related
drive
diversity
closely
related
symbionts,
may
underlie
some
traits
most
associated
lifestyle
survival
entomopathogenic
nematodes
bacteria:
virulence
competition.
This
study
establishes
broad
knowledge
base
exploration
not
only
between
nematode
hosts
but
also
molecular
mechanisms
lifestyle.
Язык: Английский