INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY,
Год журнала:
2023,
Номер
73(2)
Опубликована: Фев. 7, 2023
Observations
made
after
introduction
of
the
phylum
category
into
International
Code
Nomenclature
Prokaryotes
(ICNP)
indicate
that
addition
a
should
usually
be
conducted
before
informal
names
at
rank
become
widely
used.
It
is
thus
investigated
whether
it
would
beneficial
to
add
further
categories.
An
extrapolation
from
number
validly
published
under
ICNP
distinct
principal
categories
was
conducted.
This
indicated
two
ranks
above
also
harbour
if
according
were
covered
by
ICNP.
The
appropriate
kingdom
and
domain,
regarded
as
separate
ranks.
benefit
introducing
these
confirmed
analysing
previous
taxonomic
activity
level
nomenclatural
problems
associated
with
this
activity.
etymological
examination
way
taxa
genus
are
formed
codes
nomenclature
provides
hints
for
implementing
additional
According
emendations
proposed
include
domain
means
stabilizing
prokaryotic
nomenclature.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY,
Год журнала:
2022,
Номер
72(1)
Опубликована: Янв. 31, 2022
Microbiology
Society
journals
contain
high-quality
research
papers
and
topical
review
articles.
We
are
a
not-for-profit
publisher
we
support
invest
in
the
microbiology
community,
to
benefit
of
everyone.
This
supports
our
principal
goal
develop,
expand
strengthen
networks
available
members
so
that
they
can
generate
new
knowledge
about
microbes
ensure
it
is
shared
with
other
communities.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY,
Год журнала:
2023,
Номер
73(5a)
Опубликована: Май 1, 2023
Microbiology
Society
journals
contain
high-quality
research
papers
and
topical
review
articles.
We
are
a
not-for-profit
publisher
we
support
invest
in
the
microbiology
community,
to
benefit
of
everyone.
This
supports
our
principal
goal
develop,
expand
strengthen
networks
available
members
so
that
they
can
generate
new
knowledge
about
microbes
ensure
it
is
shared
with
other
communities.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY,
Год журнала:
2021,
Номер
71(4)
Опубликована: Апрель 21, 2021
Microbiology
Society
journals
contain
high-quality
research
papers
and
topical
review
articles.
We
are
a
not-for-profit
publisher
we
support
invest
in
the
microbiology
community,
to
benefit
of
everyone.
This
supports
our
principal
goal
develop,
expand
strengthen
networks
available
members
so
that
they
can
generate
new
knowledge
about
microbes
ensure
it
is
shared
with
other
communities.
The ISME Journal,
Год журнала:
2021,
Номер
15(7), С. 1879 - 1892
Опубликована: Апрель 6, 2021
Abstract
The
classification
of
life
forms
into
a
hierarchical
system
(taxonomy)
and
the
application
names
to
this
hierarchy
(nomenclature)
is
at
turning
point
in
microbiology.
unprecedented
availability
genome
sequences
means
that
taxonomy
can
be
built
upon
comprehensive
evolutionary
framework,
longstanding
goal
taxonomists.
However,
there
resistance
adopting
single
framework
preserve
taxonomic
freedom,
ever
increasing
numbers
genomes
derived
from
uncultured
prokaryotes
threaten
overwhelm
current
nomenclatural
practices,
which
are
based
on
characterised
isolates.
challenge
ahead
then
reach
consensus
adapt
scale
existing
code,
or
create
new
systematically
incorporate
taxa
chosen
framework.
PeerJ,
Год журнала:
2021,
Номер
9, С. e10941 - e10941
Опубликована: Апрель 6, 2021
The
chicken
is
the
most
abundant
food
animal
in
world.
However,
despite
its
importance,
gut
microbiome
remains
largely
undefined.
Here,
we
exploit
culture-independent
and
culture-dependent
approaches
to
reveal
extensive
taxonomic
diversity
within
this
complex
microbial
community.
Nature Microbiology,
Год журнала:
2022,
Номер
unknown
Опубликована: Сен. 19, 2022
Abstract
Most
prokaryotes
are
not
available
as
pure
cultures
and
therefore
ineligible
for
naming
under
the
rules
recommendations
of
International
Code
Nomenclature
Prokaryotes
(ICNP).
Here
we
summarize
development
SeqCode,
a
code
nomenclature
which
genome
sequences
serve
nomenclatural
types.
This
enables
valid
publication
names
based
upon
isolate
genome,
metagenome-assembled
or
single-amplified
sequences.
Otherwise,
it
is
similar
to
ICNP
with
regard
formation
priority.
It
operates
through
SeqCode
Registry
(
https://seqco.de/
),
registration
portal
types
registered,
validated
linked
metadata.
We
describe
two
paths
currently
within
register
validate
names,
including
Candidatus
provide
examples
both.
Recommendations
on
minimal
standards
DNA
provided.
Thus,
provides
reproducible
objective
framework
all
regardless
cultivability
facilitates
communication
across
microbiological
disciplines.
Geobiology,
Год журнала:
2022,
Номер
21(1), С. 102 - 118
Опубликована: Сен. 23, 2022
Abstract
Branched
glycerol
dialkyl
tetraethers
(brGDGTs)
are
bacterial
membrane
lipids
that
frequently
employed
as
paleoenvironmental
proxies
because
of
the
strong
empirical
correlations
between
their
relative
abundances
and
environmental
temperature
pH.
Despite
ubiquity
brGDGTs
in
modern
paleoenvironments,
source
organisms
these
enigmatic
compounds
have
remained
elusive,
requiring
applications
to
rely
solely
on
observed
correlations.
Previous
laboratory
studies
suggested
globally
abundant
phylum
Acidobacteria
may
be
an
important
brGDGT
producer
nature.
Here,
we
report
experiments
with
a
cultured
Acidobacterium,
Solibacter
usitatus
,
makes
large
portion
its
cellular
(24
±
9%
across
all
experiments)
out
structurally
diverse
set
including
common
Ia,
IIa,
IIIa,
Ib,
IIb.
was
grown
range
conditions
temperatures
from
15
30°C,
pH
5.0
6.5,
O
2
1%
21%,
demonstrated
pronounced
shifts
degree
methylation
growth
conditions.
The
response
culture
close
agreement
trends
published
datasets,
supporting
physiological
basis
for
relationship
number
temperature.
However,
at
lower
(15
20°C)
modulated
by
higher
systematically
increasing
methylation.
In
contrast,
had
little
effect
cyclization,
hypothesis
changes
community
composition
underlie
link
cyclization
samples.
Oxygen
concentration
likewise
affected
highlighting
potential
this
parameter
impact
paleotemperature
reconstruction.
Low
further
resulted
production
uncommon
isomers
could
indicators
limitation.
Finally,
brGTGTs
(trialkyl
tetraethers)
addition
previously
discovered
iso‐C15‐based
mono‐
diethers
S.
suggests
biosynthetic
pathway
uses
homologs
archaeal
tetraether
synthase
(Tes)
enzyme
synthesis
diethers.
Systematic and Applied Microbiology,
Год журнала:
2022,
Номер
45(5), С. 126305 - 126305
Опубликована: Июль 20, 2022
Over
the
last
fifteen
years,
genomics
has
become
fully
integrated
into
prokaryotic
systematics.
The
genomes
of
most
type
strains
have
been
sequenced,
genome
sequence
similarity
is
widely
used
for
delineation
species,
and
phylogenomic
methods
are
commonly
classification
higher
taxonomic
ranks.
Additionally,
environmental
revealed
a
vast
diversity
as-yet-uncultivated
taxa.
In
response
to
these
developments,
new
code
nomenclature,
Code
Nomenclature
Prokaryotes
Described
from
Sequence
Data
(SeqCode),
developed
over
two
years
allow
naming
Archaea
Bacteria
using
DNA
sequences
as
nomenclatural
types.
SeqCode
also
allows
cultured
organisms,
including
fastidious
prokaryotes
that
cannot
be
deposited
culture
collections.
Several
simplifications
relative
International
(ICNP)
implemented
make
nomenclature
more
accessible,
easier
apply
readily
communicated.
By
simplifying
with
goal
unified
classification,
inclusive
both
uncultured
taxa,
will
facilitate
taxa
in
every
biome
on
Earth,
encourage
isolation
characterization
promote
synergies
between
ecological,
environmental,
physiological,
biochemical,
molecular
biological
disciplines
describe
prokaryotes.
