High-Resolution Mass Spectrometry for Human Exposomics: Expanding Chemical Space Coverage
Environmental Science & Technology,
Journal Year:
2024,
Volume and Issue:
58(29), P. 12784 - 12822
Published: July 10, 2024
In
the
modern
"omics"
era,
measurement
of
human
exposome
is
a
critical
missing
link
between
genetic
drivers
and
disease
outcomes.
High-resolution
mass
spectrometry
(HRMS),
routinely
used
in
proteomics
metabolomics,
has
emerged
as
leading
technology
to
broadly
profile
chemical
exposure
agents
related
biomolecules
for
accurate
measurement,
high
sensitivity,
rapid
data
acquisition,
increased
resolution
space.
Non-targeted
approaches
are
increasingly
accessible,
supporting
shift
from
conventional
hypothesis-driven,
quantitation-centric
targeted
analyses
toward
data-driven,
hypothesis-generating
exposome-wide
profiling.
However,
HRMS-based
exposomics
encounters
unique
challenges.
New
analytical
computational
infrastructures
needed
expand
analysis
coverage
through
streamlined,
scalable,
harmonized
workflows
pipelines
that
permit
longitudinal
tracking,
retrospective
validation,
multi-omics
integration
meaningful
health-oriented
inferences.
this
article,
we
survey
literature
on
state-of-the-art
technologies,
review
current
informatic
pipelines,
provide
an
up-to-date
reference
exposomic
chemists,
toxicologists,
epidemiologists,
care
providers,
stakeholders
health
sciences
medicine.
We
propose
efforts
benchmark
fit-for-purpose
platforms
expanding
space,
including
gas/liquid
chromatography-HRMS
(GC-HRMS
LC-HRMS),
discuss
opportunities,
challenges,
strategies
advance
burgeoning
field
exposome.
Language: Английский
Glycoproteomics: Charting new territory in mass spectrometry and glycobiology
Journal of Mass Spectrometry,
Journal Year:
2024,
Volume and Issue:
59(6)
Published: May 10, 2024
Abstract
Glycosylation
is
an
incredibly
common
and
diverse
post‐translational
modification
that
contributes
widely
to
cellular
health
disease.
Mass
spectrometry
the
premier
technique
study
glycoproteins;
however,
glycoproteomics
has
lagged
behind
traditional
proteomics
due
challenges
associated
with
studying
glycosylation.
For
instance,
glycans
dissociate
by
collision‐based
fragmentation,
thus
necessitating
electron‐based
fragmentation
for
site‐localization.
The
vast
glycan
heterogeneity
leads
lower
overall
abundance
of
each
glycopeptide,
often,
ion
suppression
observed.
One
biggest
issues
facing
lack
reliable
software
analysis,
which
necessitates
manual
validation
serves
as
a
massive
bottleneck
in
data
processing.
Here,
I
will
discuss
these
some
ways
field
attempting
address
them,
along
perspectives
on
how
believe
we
should
move
forward.
Language: Английский
Boosting the Sensitivity of Quantitative Single-Cell Proteomics with Infrared-Tandem Mass Tags
Journal of Proteome Research,
Journal Year:
2024,
Volume and Issue:
unknown
Published: May 7, 2024
Single-cell
proteomics
is
a
powerful
approach
to
precisely
profile
protein
landscapes
within
individual
cells
toward
comprehensive
understanding
of
proteomic
functions
and
tissue
cellular
states.
The
inherent
challenges
associated
with
limited
starting
material
demand
heightened
analytical
sensitivity.
Just
as
advances
in
sample
preparation
maximize
the
amount
that
makes
it
from
cell
mass
spectrometer,
we
strive
number
ions
make
ion
source
detector.
In
isobaric
tagging
experiments,
reporter
generation
limits
quantitative
accuracy
precision.
combination
infrared
photoactivation
parking
circumvents
Language: Английский
Boosting the Sensitivity of Quantitative Single-Cell Proteomics with Activated lon-Tandem Mass Tags (AI-TMT)
bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: Feb. 25, 2024
ABSTRACT
Single-cell
proteomics
is
a
powerful
approach
to
precisely
profile
protein
landscapes
within
individual
cells
toward
comprehensive
understanding
of
proteomic
functions
and
tissue
cellular
states.
The
inherent
challenges
associated
with
limited
starting
material
in
single-cell
analyses
demands
heightened
analytical
sensitivity.
Just
as
advances
sample
preparation
maximize
the
amount
that
makes
it
from
cell
mass
spectrometer,
we
strive
number
ions
make
ion
source
detector.
In
isobaric
tagging
experiments,
reporter
generation
limits
quantitative
accuracy
precision.
combination
infrared
photoactivation
parking
circumvents
m/z
dependence
HCD,
maximizing
avoiding
unintended
degradation
TMT
molecules
method
term
activated
ion-tandem
tags
(AI-TMT).
was
applied
human
proteomes
using
18-plex
TMTpro,
resulting
4-5-fold
increase
signal
on
average
compared
conventional
SPS-MS
3
approaches.
AI-TMT
enables
faster
duty
cycles,
higher
throughput,
increased
peptide
identification
quantification.
Comparative
experiments
showcase
lower
injection
times
for
AI-TMT,
providing
superior
sensitivity
without
compromising
accuracy.
all,
enhances
dynamic
range
compatible
other
techniques,
including
gas-phase
fractionation
real-time
searching,
promising
gains
study
heterogeneity
disease
mechanisms.
Language: Английский
Instrumentation at the leading edge of proteomics
Published: Nov. 17, 2023
The
proteome,
or
collection
of
proteoforms
expressed
in
a
biological
system,
is
dynamic
and
heterogeneous.
As
our
appreciation
for
the
complexity
proteome
has
evolved,
so
have
technologies
we
use
to
interrogate
its
composition.
More
than
three
decades
ago,
rapid
expansion
field
proteomics
was
driven
by
advent
soft
ionization
techniques
focusing
on
capturing
protein
sequence
information
using
mass
spectrometry
(MS).
tools
automate
peptide
sequencing
with
tandem
MS
(MS/MS)
matured,
recognized
limits
qualitatively
cataloguing
gene
products.1,2
This
realization
drove
multi-pronged
MS-centric
that
seek
capture
various
aspects
proteins,
including
their
abundance,
modification
states,
conformation
structure,
spatiotemporal
relationships.3–7
Here
review
innovations
MS-based
instrumentation
continue
expand
ability
survey
ever
increasing
sensitivity,
speed,
flexibility.
march
progress
been
steady
over
better
half
past
century,
but
discussion
here
focuses
developments
within
five
years
ushered
an
exciting
era
proteomics,
where
poised
be
dominant
platform
exploring
phenotypes
basic
translational
sciences
foreseeable
future.
Language: Английский
Quality Control in the Mass Spectrometry Proteomics Core: a Practical Primer
Published: April 25, 2024
The
past
decade
has
seen
widespread
advances
in
quality
control
(QC)
materials
and
software
tools
focused
specifically
on
mass
spectrometry-based
proteomics,
yet
the
rate
of
adoption
is
inconsistent.
Despite
fundamental
importance
QC,
it
typically
falls
behind
learning
new
techniques,
instruments,
or
software.
Considering
how
important
QC
a
core
setting
where
data
generated
for
non-mass
spectrometry
experts
confidence
delivered
results
paramount,
we
have
created
this
quick-start
guide
focusing
off-the-shelf
relatively
easy
to
use
We
hope
that
by
providing
background
different
levels
their
uses,
describing
design
options,
highlighting
some
current
software,
implementing
will
be
easier
than
ever.
There
continues
development
each
these
areas
(such
as
software),
generation
proteomics
more
capable
conveying
well
minimizing
laboratory
downtime
guiding
experimental,
technical,
analytical
troubleshooting
from
sample
results.
Language: Английский