Evidence map›Paper›PMID 37601921›Full record

ArticleACS nanoscience Au2023

Organic Matrix Derived from Host-Microbe Interplay Contributes to Pathological Renal Biomineralization.

Yushi Bai, Yongmei Wang, Misun Kang, Claire M Gabe, Sudarshan Srirangapatanam, Austin Edwards, Marshall Stoller, Stefan J Green, Shaul Aloni, Nobumichi Tamura and 3 more

Open access · goldAbstract read
In one paragraph

Article in ACS nanoscience Au, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
1.8field-weighted citation impact, top 14% 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

3 citing papers in PubMed, 8 citations in OpenAlex.

  1. Article
  2. Article
  3. Silver diamine fluoride differentially affects dentin and hypomineralized enamel permeabilities.Dental materials : official publication of the Academy of Dental Materials · 2025
    Article
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

13 authors at 6 institutions in 1 country.

Yushi BaiDepartment of Preventive and Restorative Dental Sciences, School of Dentistry, University of California San Francisco, San Francisco, California 94143, United States.ORCID https://orcid.org/0000-0003-1295-1615
Yongmei WangDepartment of Preventive and Restorative Dental Sciences, School of Dentistry, University of California San Francisco, San Francisco, California 94143, United States.
Misun KangDepartment of Preventive and Restorative Dental Sciences, School of Dentistry, University of California San Francisco, San Francisco, California 94143, United States.
Claire M GabeDepartment of Oral and Craniofacial Sciences, School of Dentistry, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States.
Sudarshan SrirangapatanamDepartment of Preventive and Restorative Dental Sciences, School of Dentistry, University of California San Francisco, San Francisco, California 94143, United States.
Austin EdwardsBiological Imaging Development Center, University of California San Francisco, San Francisco, California 94143, United States.
Marshall StollerDepartment of Urology, School of Medicine, University of California San Francisco, San Francisco, California 94143, United States.
Stefan J GreenDepartment of Internal Medicine, Division of Infectious Diseases, Rush Medical College, Rush University, Chicago, Illinois 60612, United States.
Shaul AloniThe Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.
Nobumichi TamuraAdvanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States.
Elia BeniashDepartment of Oral and Craniofacial Sciences, School of Dentistry, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States.ORCID https://orcid.org/0000-0001-9019-5160
Markus HardtCenter for Salivary Diagnostics, The Forsyth Institute, Cambridge, Massachusetts 02142, United States.ORCID https://orcid.org/0000-0002-2300-216X
Sunita P HoDepartment of Urology, School of Medicine, University of California San Francisco, San Francisco, California 94143, United States.ORCID https://orcid.org/0000-0001-9999-8226
University of California, San Francisco · USLawrence Berkeley National Laboratory · USUniversity of Pittsburgh · USHarvard University · USRush University · USUniversity of Central Florida · US

Funding

Wide-field super-resolution spinning disk confocal microscopeS10OD028611 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI WITTMANN, TORSTEN · 2020 to 2020
$600k
NIH HHS S10 OD028611
6 · The paper itself

Abstract

Matrix stones are a rare form of kidney stones. They feature a high percentage of hydrogel-like organic matter, and their formation is closely associated with urinary tract infections. Herein, comprehensive materials and biochemical approaches were taken to map the organic-inorganic interface and gather insights into the host-microbe interplay in pathological renal biomineralization. Surgically extracted soft and slimy matrix stones were examined using micro-X-ray computed tomography and various microspectroscopy techniques. Higher-mineral-density laminae were positive for calcium-bound Alizarin red. Lower-mineral-density laminae revealed periodic acid-Schiff-positive organic filamentous networks of varied thickness. These organic filamentous networks, which featured a high polysaccharide content, were enriched with zinc, carbon, and sulfur elements. Neutrophil extracellular traps (NETs) along with immune response-related proteins, including calprotectin, myeloperoxidase, CD63, and CD86, also were identified in the filamentous networks. Expressions of NETs and upregulation of polysaccharide-rich mucin secretion are proposed as a part of the host immune defense to "trap" pathogens. These host-microbe derived organic matrices can facilitate heterogeneous nucleation and precipitation of inorganic particulates, resulting in macroscale aggregates known as "matrix stones". These insights into the plausible aggregation of constituents through host-microbe interplay underscore the unique "double-edged sword" effect of the host immune response to pathogens and the resulting renal biominerals.

Identifiers

PMID37601921
PMCPMC10436370
OpenAlexW4383556447

What Socratic 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 Socratic graph.