Proceedings of the National Academy of Sciences,
Год журнала:
2019,
Номер
116(44), С. 22219 - 22228
Опубликована: Окт. 14, 2019
Horizontal
acquisition
of
bacterial
genes
is
presently
recognized
as
an
important
contribution
to
the
adaptation
and
evolution
eukaryotic
genomes.
However,
mechanisms
underlying
expression
consequent
selection
fixation
prokaryotic
in
new
setting
are
largely
unknown.
Here
we
show
that
composing
pathway
for
synthesis
essential
vitamin
B1
(thiamine)
were
lost
ancestor
a
yeast
lineage,
Wickerhamiella/Starmerella
(W/S)
clade,
known
harbor
unusually
large
number
alien
origin.
The
thiamine
was
subsequently
reassembled,
at
least
twice,
by
multiple
HGT
events
from
different
donors
involving
both
single
entire
operons.
In
W/S-clade
species
Starmerella
bombicola
obtained
direct
genetic
evidence
all
functional.
reconstructed
composed
operating
coordinately
scavenge
derivatives
environment.
newly
acquired
operons
involved
repertoire
until
now
only
sparsely
documented,
namely
longer
intergenic
regions,
post-horizontal
gene
transfer
(HGT)
fusions
fostering
coordinated
expression,
relocation,
possibly
recombination
generating
mosaic
genes.
results
provide
additional
occurred
recurrently
this
lineage
crucial
reestablishment
functions
similar
used
across
broad
range
microbes
promote
their
Genome Biology and Evolution,
Год журнала:
2021,
Номер
13(3)
Опубликована: Март 1, 2021
As
the
closest
extant
sister
group
to
seed
plants,
ferns
are
an
important
reference
point
study
origin
and
evolution
of
plant
genes
traits.
One
bottleneck
use
in
phylogenetic
genetic
studies
is
fact
that
genome-level
sequence
information
this
limited,
due
extreme
genome
sizes
most
ferns.
Ceratopteris
richardii
(hereafter
Ceratopteris)
has
been
widely
used
as
a
model
system
for
In
study,
we
generated
transcriptome
Ceratopteris,
through
de
novo
assembly
RNA-seq
data
from
17
sequencing
libraries
derived
two
sexual
types
gametophytes
five
different
sporophyte
tissues.
The
transcriptome,
together
with
38
genomes
transcriptomes
other
species
across
Viridiplantae,
were
uncover
evolutionary
dynamics
orthogroups
(predicted
gene
families
using
OrthoFinder)
within
euphyllophytes
identify
proteins
associated
major
shifts
morphology
physiology
occurred
last
common
ancestors
euphyllophytes,
ferns,
plants.
Furthermore,
resource
was
classify
GRAS
domain
transcriptional
regulators
many
developmental
processes
Through
analysis
each
15
orthogroups,
uncovered
which
family
members
conserved
or
have
diversified
Taken
together,
database
analyses
reported
here
provide
platform
exploring
land
plants
studying
function
seed-free
vascular
Molecular Systems Biology,
Год журнала:
2021,
Номер
17(10)
Опубликована: Окт. 1, 2021
Yeasts
are
known
to
have
versatile
metabolic
traits,
while
how
these
traits
evolved
has
not
been
elucidated
systematically.
We
performed
integrative
evolution
analysis
investigate
genomic
determines
trait
generation
by
reconstructing
genome-scale
models
(GEMs)
for
332
yeasts.
These
GEMs
could
comprehensively
characterize
diversity
and
predict
enzyme
functionality,
thereby
signifying
that
sequence-level
shaped
reaction
networks
towards
new
functions.
Strikingly,
using
GEMs,
we
can
mechanistically
map
different
evolutionary
events,
e.g.
horizontal
gene
transfer
duplication,
onto
relevant
subpathways
explain
plasticity.
This
demonstrates
family
expansion
promiscuity
prominent
mechanisms
gains,
GEM
simulations
reveal
additional
factors,
such
as
loss
from
distant
pathways,
contribute
losses.
Furthermore,
our
pinpoint
specific
genes
pathways
under
positive
selection
the
formulation
of
complex
i.e.
thermotolerance
Crabtree
effect.
Our
findings
illustrate
multidimensional
in
both
network
structure
individual
enzymes
drives
phenotypic
variations.
Applied Sciences,
Год журнала:
2023,
Номер
13(13), С. 7366 - 7366
Опубликована: Июнь 21, 2023
The
most
known
and
traditional
vinegar
is
the
one
that
made
from
wine.
For
its
production,
grape
must
undergo
alcohol
fermentation
posterior
oxidation
of
ethanol
to
acetic
acid.
Yeasts
acid
bacteria
(AAB)
carry
out
biochemical
processes
in
sequence.
process
wine
acetification
can
be
achieved
by
slow
(the
Orléans
or
French
methods)
a
quick
submerged
industrial
process.
High-quality
usually
produced
methods
using
oak
casks,
once
wood
allows
continuous
aeration
culture.
Sour–sweet
presents
balance
both
bitter/sour
sweet
flavors.
sourness
typically
comes
acid,
while
sweetness
come
type
fruit
amount
sugar
present
at
end
production.
In
general,
sour-sweet
has
more
complex
nuanced
flavor
profile
compared
regular
vinegar,
which
often
simply
sour.
One
kind
where
yeasts
co-exist
produce
savory
balsamic
(TBV),
Italy.
Spain,
fortified
sherry
also
been
used
for
Portugal,
some
companies
have
port
since
2018.
These
three
distinctive
products
common
found,
well
balanced
with
sourness.
this
review,
we
analyze
sour-sweat
process,
bearing
mind
possible
interactions
between
AAB
occur
during
production
considering
symbiotic
competitive
features
diverse
microbiota.
Proceedings of the National Academy of Sciences,
Год журнала:
2019,
Номер
116(44), С. 22219 - 22228
Опубликована: Окт. 14, 2019
Horizontal
acquisition
of
bacterial
genes
is
presently
recognized
as
an
important
contribution
to
the
adaptation
and
evolution
eukaryotic
genomes.
However,
mechanisms
underlying
expression
consequent
selection
fixation
prokaryotic
in
new
setting
are
largely
unknown.
Here
we
show
that
composing
pathway
for
synthesis
essential
vitamin
B1
(thiamine)
were
lost
ancestor
a
yeast
lineage,
Wickerhamiella/Starmerella
(W/S)
clade,
known
harbor
unusually
large
number
alien
origin.
The
thiamine
was
subsequently
reassembled,
at
least
twice,
by
multiple
HGT
events
from
different
donors
involving
both
single
entire
operons.
In
W/S-clade
species
Starmerella
bombicola
obtained
direct
genetic
evidence
all
functional.
reconstructed
composed
operating
coordinately
scavenge
derivatives
environment.
newly
acquired
operons
involved
repertoire
until
now
only
sparsely
documented,
namely
longer
intergenic
regions,
post-horizontal
gene
transfer
(HGT)
fusions
fostering
coordinated
expression,
relocation,
possibly
recombination
generating
mosaic
genes.
results
provide
additional
occurred
recurrently
this
lineage
crucial
reestablishment
functions
similar
used
across
broad
range
microbes
promote
their