Evidence map›Paper›PMID 38895356›Full record

ArticlebioRxiv : the preprint server for biology2024

Phosphorothioate DNA modification by BREX Type 4 systems in the human gut microbiome.

Yifeng Yuan, Michael S DeMott, Shane R Byrne, Katia Flores, Mathilde Poyet, Mathieu Groussin, Global Microbiome Conservancy, Brittany Berdy, Laurie Comstock, Eric J Alm and 1 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors.

Yifeng YuanDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
Michael S DeMottDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
Shane R ByrneDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
Katia FloresDepartment of Microbiology, Duchossois Family Institute, University of Chicago, Chicago, IL, USA.
Mathilde PoyetDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
Mathieu GroussinDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
Global Microbiome ConservancyGlobal Microbiome Conservancy (https://microbiomeconservancy.org/), Kiel University, Germany.
Brittany BerdyInfectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Laurie ComstockDepartment of Microbiology, Duchossois Family Institute, University of Chicago, Chicago, IL, USA.
Eric J AlmDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
Peter C DedonDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.ORCID 0000-0003-0011-3067

Funding

Pilot & Feasibility ProgramP30DK043351 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI Ramnik J Xavier · 1991 to 2026
$35.3M
ULTRASTRUCTURE AND CYTOMORPHOLOGY COREP30DK042086 · NIDDK · UNIVERSITY OF CHICAGO · PI CHANG, EUGENE B · 1990 to 2025
$29.8M
TRAINING GRANTS IN ENVIROMENTAL TOXICOLOGYT32ES007020 · NIEHS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI ESSIGMANN, JOHN M · 1985 to 2024
$13.1M
Probing short and long term consequences of Small and Large Bowel Microbiota Transplants on Host Physiology: Implications for the development of future live biotherapeuticsR01DK138072 · NIDDK · UNIVERSITY OF CHICAGO · PI EUGENE B CHANG, Kristina Brooke Martinez-Guryn · 2024 to 2026
$2.1M
Supplement: Epigenetics of the Human Gut MicrobiomeR01ES031576 · NIEHS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI ALM, ERIC JOHN, DEDON, PETER C · 2019 to 2023
$1.9M
NIDDK NIH HHS P30 DK042086NIDDK NIH HHS P30 DK043351NIDDK NIH HHS R01 DK138072NIEHS NIH HHS R01 ES031576NIEHS NIH HHS T32 ES007020
6 · The paper itself

Abstract

Among dozens of microbial DNA modifications regulating gene expression and host defense, phosphorothioation (PT) is the only known backbone modification, with sulfur inserted at a non-bridging oxygen by

Indexed as

comparative genomicsepigeneticsmass spectrometrymetagenomicsmicrobiomenext-generation sequencingphosphorothioate

Identifiers

PMID38895356
PMCPMC11185695

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

Registered trials

None linked

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.