Evidence map›Paper›PMID 37710351›Full record

ArticleMolecular neurodegeneration2023

Amyloid fibril proteomics of AD brains reveals modifiers of aggregation and toxicity.

Arun Upadhyay, Deepak Chhangani, Nalini R Rao, Julia Kofler, Robert Vassar, Diego E Rincon-Limas, Jeffrey N Savas

Open access · goldAbstract read
In one paragraph

Article in Molecular neurodegeneration, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.

0numbers the graph read from it
0cells of the map it votes in
21citing papers in PubMed
4.0field-weighted citation impact, top 5% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

21 citing papers in PubMed, 23 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 3 institutions in 1 country.

Arun UpadhyayKen and Ruth Davee Department of Neurology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA.
Deepak ChhanganiDepartment of Neurology, McKnight Brain Institute, and Norman Fixel Institute for Neurological Diseases, University of Florida, Gainesville, FL, 32611, USA.
Nalini R RaoKen and Ruth Davee Department of Neurology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA.
Julia KoflerDepartment of Pathology, Division of Neuropathology, University of Pittsburgh, Pittsburgh, PA, 15213, USA.
Robert VassarKen and Ruth Davee Department of Neurology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA.
Diego E Rincon-LimasDepartment of Neurology, McKnight Brain Institute, and Norman Fixel Institute for Neurological Diseases, University of Florida, Gainesville, FL, 32611, USA.
Jeffrey N SavasKen and Ruth Davee Department of Neurology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA. jeffrey.savas@northwestern.edu.ORCID http://orcid.org/0000-0002-8173-5580
Northwestern University · USUniversity of Florida · USUniversity of Pittsburgh · US

Funding

Tumor Environment and Metastasis (TEAM) Research ProgramP30CA060553 · NCI · NORTHWESTERN UNIVERSITY AT CHICAGO · PI LEONIDAS C. PLATANIAS · 1993 to 2026
$153.9M
Research Education ComponentP30AG066468 · NIA · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI C. Elizabeth Shaaban · 2020 to 2026
$29.4M
Structural characterization of A-beta strain variation in AD mouse modelsR01AG061865 · NIA · UNIVERSITY OF SOUTHERN CALIFORNIA · PI LANGEN, RALF, SIEMER, ANSGAR B · 2018 to 2022
$4.2M
Understanding Amyloid Pathology - Multiomic Activity Imaging of Plaque Formation Dynamics (AmyMAP)R01AG078796 · NIA · NORTHWESTERN UNIVERSITY AT CHICAGO · PI Jeffrey Nicholas Savas · 2022 to 2026
$2.7M
Deconstructing and challenging TDP-43 proteinopathies: from FTLD/ALS to Alzheimer's diseaseR01AG059871 · NIA · UNIVERSITY OF FLORIDA · PI RINCON-LIMAS, DIEGO E · 2018 to 2022
$1.9M
Harnessing new targets and mechanisms mediating AD pathogenesisR01AG077534 · NIA · UNIVERSITY OF FLORIDA · PI Diego E Rincon-Limas · 2023 to 2026
$1.5M
Functional assessment of 1,500 human genes against coexistent Abeta and tau pathology in vivoR21AG069050 · NIA · UNIVERSITY OF FLORIDA · PI RINCON-LIMAS, DIEGO E · 2020 to 2021
$412k
Insights into Amyloid Pathogenicity DynamicsR21AG080705 · NIA · NORTHWESTERN UNIVERSITY AT CHICAGO · PI HANRIEDER, JORG, SAVAS, JEFFREY NICHOLAS · 2023 to 2024
$401k
Molecular Mechanisms of Systemic Adenovirus ToxicityR21AI060807 · NIAID · UNIVERSITY OF WASHINGTON · PI SHAYAKHMETOV, DMITRY · 2004 to 2004
$265k
NCI NIH HHS P30 CA060553NIAID NIH HHS R21 AI060807NIA NIH HHS P30 AG066468NIA NIH HHS R01 AG059871NIA NIH HHS R01 AG061865NIA NIH HHS R01 AG077534NIA NIH HHS R01 AG078796NIA NIH HHS R21 AG069050NIA NIH HHS R21 AG080705
6 · The paper itself

Abstract

backgroundThe accumulation of amyloid beta (Aβ) peptides in fibrils is prerequisite for Alzheimer's disease (AD). Our understanding of the proteins that promote Aβ fibril formation and mediate neurotoxicity has been limited due to technical challenges in isolating pure amyloid fibrils from brain extracts.

methodsTo investigate how amyloid fibrils form and cause neurotoxicity in AD brain, we developed a robust biochemical strategy. We benchmarked the success of our purifications using electron microscopy, amyloid dyes, and a large panel of Aβ immunoassays. Tandem mass-spectrometry based proteomic analysis workflows provided quantitative measures of the amyloid fibril proteome. These methods allowed us to compare amyloid fibril composition from human AD brains, three amyloid mouse models, transgenic Aβ42 flies, and Aβ42 seeded cultured neurons.

resultsAmyloid fibrils are primarily composed by Aβ42 and unexpectedly harbor Aβ38 but generally lack Aβ40 peptides. Multidimensional quantitative proteomics allowed us to redefine the fibril proteome by identifying 20 new amyloid-associated proteins. Notably, we confirmed 57 previously reported plaque-associated proteins. We validated a panel of these proteins as bona fide amyloid-interacting proteins using antibodies and orthogonal proteomic analysis. One metal-binding chaperone metallothionein-3 is tightly associated with amyloid fibrils and modulates fibril formation in vitro. Lastly, we used a transgenic Aβ42 fly model to test if knock down or over-expression of fibril-interacting gene homologues modifies neurotoxicity. Here, we could functionally validate 20 genes as modifiers of Aβ42 toxicity in vivo.

conclusionsThese discoveries and subsequent confirmation indicate that fibril-associated proteins play a key role in amyloid formation and AD pathology.

Indexed as

Alzheimer DiseaseAmyloidAmyloid beta-PeptidesAmyloidogenic ProteinsAnimalsBrainHumansMiceProteomeProteomicsAmyloidAmyloid beta-PeptidesAmyloidogenic ProteinsProteomeAlzheimer’s diseaseAmyloidAmyloidomeDrosophilaFibril purificationProteomics

Identifiers

PMID37710351
PMCPMC10503190
OpenAlexW4386741603

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.