Molecular regulation of fungal secondary metabolism
World Journal of Microbiology and Biotechnology,
Год журнала:
2023,
Номер
39(8)
Опубликована: Май 20, 2023
Язык: Английский
Breaking into nature's secret medicine cabinet: lichens – a biochemical goldmine ready for discovery
New Phytologist,
Год журнала:
2025,
Номер
unknown
Опубликована: Фев. 26, 2025
Summary
Secondary
metabolites
are
a
crucial
source
of
bioactive
compounds
playing
key
role
in
the
development
new
pharmaceuticals.
Recently,
biosynthetic
research
has
benefited
significantly
from
progress
on
various
fronts,
including
reduced
sequencing
costs,
improved
genome/metabolome
mining
strategies,
and
expanding
tools/databases
to
compare
characterize
chemical
diversity.
Steady
advances
these
fields
for
non‐modal
organisms
such
as
lichen‐forming
fungi
(LFF).
Although
most
produce
metabolites,
LFF
(
c
.
21%
known
fungi)
lags
behind,
primarily
due
experimental
challenges.
However,
recent
years,
several
challenges
have
been
tackled,
and,
parallel,
critical
foundation
genomic
data
pipelines
established
accomplish
valorization
this
potential.
Integrating
concurrent
accelerate
biochemical
provides
promising
opportunity
discoveries.
This
review
summarizes
following:
fungal
omics,
chemoinformatics
research;
studies
biosynthesis,
diversity
evolutionary/phylogenetic
aspects;
milestones
gene
functions.
At
end,
we
outline
vision
strategy
combine
areas
harness
potential
pharmaceutical
development.
Язык: Английский
Fungus–insect interactions beyond bilateral regimes: the importance and strategy to outcompete host ectomicrobiomes by fungal parasites
Current Opinion in Microbiology,
Год журнала:
2023,
Номер
74, С. 102336 - 102336
Опубликована: Июнь 13, 2023
Язык: Английский
Fungi: Pioneers of chemical creativity – Techniques and strategies to uncover fungal chemistry
IMA Fungus,
Год журнала:
2025,
Номер
16
Опубликована: Март 7, 2025
Natural
product
discovery
from
fungi
for
drug
development
and
description
of
novel
chemistry
has
been
a
tremendous
success.
This
success
is
expected
to
accelerate
even
further,
owing
the
advent
sophisticated
technical
advances
that
recently
led
an
unparalleled
biodiversity
in
fungal
kingdom.
review
aims
give
overview
on
i)
important
secondary
metabolite-derived
drugs
or
leads,
ii)
discuss
analytical
strategic
framework
how
natural
lead
identification
transformed
earlier
days
present,
iii)
knowledge
biology
facilitates
new
compounds,
iv)
point
out
endeavors
understanding
metabolite
order
systematically
explore
genomes
by
utilizing
synthetic
biology.
An
outlook
given,
underlining
necessity
collaborative
cooperative
scenario
harness
full
potential
metabolome.
Язык: Английский
CusProSe: a customizable protein annotation software with an application to the prediction of fungal secondary metabolism genes
Scientific Reports,
Год журнала:
2023,
Номер
13(1)
Опубликована: Янв. 25, 2023
Abstract
We
report
here
a
new
application,
CustomProteinSearch
(CusProSe),
whose
purpose
is
to
help
users
search
for
proteins
of
interest
based
on
their
domain
composition.
The
application
customizable.
It
consists
two
independent
tools,
IterHMMBuild
and
ProSeCDA.
allows
the
iterative
construction
Hidden
Markov
Model
(HMM)
profiles
conserved
domains
selected
protein
sequences,
while
ProSeCDA
scans
proteome
against
an
HMM
profile
database,
annotates
identified
using
user-defined
rules.
CusProSe
was
successfully
used
identify,
in
fungal
genomes,
genes
encoding
key
enzyme
families
involved
secondary
metabolism,
such
as
polyketide
synthases
(PKS),
non-ribosomal
peptide
synthetases
(NRPS),
hybrid
PKS-NRPS
dimethylallyl
tryptophan
(DMATS),
well
characterize
distinct
terpene
(TS)
sub-families.
highly
configurable
characteristics
this
makes
it
generic
tool,
which
user
refine
function
predicted
proteins,
extend
detection
enzymes
families,
may
also
be
applied
biological
systems
other
than
fungi
those
metabolism.
Язык: Английский
Genome Analyses Reveal the Secondary Metabolites that Potentially Influence the Geographical Distribution of Fusarium pseudograminearum Populations
Plant Disease,
Год журнала:
2024,
Номер
108(6), С. 1812 - 1819
Опубликована: Янв. 26, 2024
Fusarium
crown
rot
(FCR),
caused
by
pseudograminearum,
significantly
impacts
wheat
yield
and
quality
in
China’s
Huanghuai
region.
The
rapid
F.
pseudograminearum
epidemic
FCR
outbreak
within
a
decade
remain
unexplained.
In
this
study,
two
high-quality,
chromosome-level
genomes
of
strains
producing
3-acetyl-deoxynivalenol
(3AcDON)
15-acetyl-deoxynivalenol
(15AcDON)
toxins
were
assembled.
Additionally,
38
related
resequenced.
Genomic
differences
such
as
single
nucleotide
polymorphisms
(SNPs),
insertions/deletions
(indels),
structural
variations
(SVs)
among
analyzed.
whole-genome
SNP
locus-based
population
classification
mirrored
the
toxin
chemotype
(3AcDON
15AcDON)-based
classification,
indicating
presence
genes
associated
with
trichothecene
gene
cluster.
Further
analysis
differential
SNP,
indel,
SV
loci
between
3AcDON
15AcDON
populations
revealed
predominant
connection
to
secondary
metabolite
synthesis
genes.
Notably,
majority
biosynthesis
cluster
located
SNP-dense
genomic
regions,
suggesting
high
mutability
possible
contribution
structure
environmental
adaptability.
This
study
provides
insightful
perspectives
on
distribution
evolution
for
forecasting
spread
FCR,
thereby
aiding
development
preventive
measures
control
strategies.
Язык: Английский
Genome Organization and Copy-Number Variation Reveal Clues to Virulence Evolution in Coccidioides posadasii
Journal of Fungi,
Год журнала:
2022,
Номер
8(12), С. 1235 - 1235
Опубликована: Ноя. 22, 2022
The
human
fungal
pathogen
Coccidioides
spp.
causes
valley
fever,
a
treatment-refractory
and
sometimes
deadly
disease
prevalent
in
arid
regions
of
the
western
hemisphere.
Fungal
virulence
mammalian
host
hinges
on
switch
between
growth
as
hyphae
large
spherules
containing
infectious
spores.
How
these
programs
are
encoded
genome
remains
poorly
understood.
Drawing
genomic
resources,
we
first
discovered
new
facet
organization
this
system:
spherule-gene
islands,
clusters
genes
physically
linked
that
exhibited
specific
mRNA
induction
spherule
phase.
Next,
surveyed
copy-number
variation
genome-wide
among
strains
C.
posadasii.
Emerging
from
catalog
were
islands
with
striking
presence–absence
differentiation
posadasii
populations,
pattern
expected
factors
subjected
to
different
selective
pressures
across
habitats.
Finally,
analyzing
single-nucleotide
differences
strains,
identified
signatures
natural
selection
spherule-expressed
genes.
Together,
our
data
establish
candidate
determinants
targets
Coccidioides.
Язык: Английский
Editorial overview: Fungal diversity: Now for something completely different
Current Opinion in Microbiology,
Год журнала:
2023,
Номер
73, С. 102294 - 102294
Опубликована: Апрель 3, 2023
Язык: Английский
Genome analyses reveal the secondary metabolites potentially influence the geographical distribution ofFusarium pseudograminearumpopulations
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2023,
Номер
unknown
Опубликована: Авг. 26, 2023
Abstract
Fusarium
crown
rot
(FCR),
caused
by
pseudograminearum
,
significantly
impacts
wheat
yield
and
quality
in
China’s
Huanghuai
region.
The
rapid
F.
epidemic
FCR
outbreak
within
a
decade
remain
unexplained.
In
this
study,
two
high-quality,
chromosome-level
genomes
of
strains
producing
3-acetyl-deoxynivalenol
(3AcDON)
15-acetyl-deoxynivalenol
(15AcDON)
toxins
were
assembled.
Additionally,
38
related
resequenced.
Genomic
differences
such
as
single
nucleotide
polymorphisms
(SNPs),
insertions/deletions
(indels),
structural
variations
(SVs)
among
analyzed.
whole-genome
SNP
locus
based
population
classification
mirrored
the
toxin
chenotype
(3AcDON
15AcDON)-based
classification,
indicating
presence
genes
associated
with
trichothecene
gene
cluster.
Further
analysis
differential
SNP,
indel,
SV
loci
between
3AcDON
15AcDON
populations
revealed
predominant
connection
to
secondary
metabolite
synthesis
genes.
Notably,
majority
biosynthesis
cluster
(SMGC)
located
SNP-dense
genomic
regions,
suggesting
high
mutability
possible
contribution
structure
environmental
adaptability.
This
study
provides
insightful
perspectives
on
distribution
evolution
for
forecasting
spread
FCR,
thereby
aiding
development
preventive
measures
control
strategies.
Язык: Английский