Evidence map›Paper›PMID 30927185›Full record

ArticleVirus genes2019

A novel phage from periodontal pockets associated with chronic periodontitis.

Yu Zhang, Tong-Ling Shan, Fei Li, Tian Yu, Xi Chen, Xu-Tao Deng, Eric Delwart, Xi-Ping Feng

Abstract read
PubMed Publisher
In one paragraph

Article in Virus genes, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
3.1field-weighted citation impact, top 9% 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

14 citing papers in PubMed, 24 citations in OpenAlex.

  1. Review
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  11. Gingival recession and attachment loss: Cross-sectional and retrospective data of 10 years.Journal of advanced periodontology & implant dentistry · 2021
    Article
  12. Virus evolution · 2021
    Article
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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

8 authors at 4 institutions in 2 countries.

Yu ZhangDepartment of Preventive Dentistry, Ninth People's Hospital, Shanghai JiaoTong University School of Medicine, 639 Zhizaoju Road, Shanghai, China.
Tong-Ling ShanDepartment of Swine Infectious Disease, Shanghai Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Shanghai, China. shantongling@shvri.ac.cn.
Fei LiDepartment of Preventive Dentistry, Ninth People's Hospital, Shanghai JiaoTong University School of Medicine, 639 Zhizaoju Road, Shanghai, China.
Tian YuDepartment of Preventive Dentistry, Ninth People's Hospital, Shanghai JiaoTong University School of Medicine, 639 Zhizaoju Road, Shanghai, China.
Xi ChenDepartment of Preventive Dentistry, Ninth People's Hospital, Shanghai JiaoTong University School of Medicine, 639 Zhizaoju Road, Shanghai, China.
Xu-Tao DengBlood Systems Research Institute, San Francisco, CA, USA.
Eric DelwartBlood Systems Research Institute, San Francisco, CA, USA.
Xi-Ping FengDepartment of Preventive Dentistry, Ninth People's Hospital, Shanghai JiaoTong University School of Medicine, 639 Zhizaoju Road, Shanghai, China. fengxiping9h@163.com.
Shanghai Jiao Tong University · CNUniversity of California, San Francisco · USChinese Academy of Agricultural Sciences · CNShanghai Ninth People's Hospital · CN

Funding

National Natural Science Foundation of China 81470737National Natural Science Foundation of China 81800967
6 · The paper itself

Abstract

Bacteriophages often constitute the majority of periodontal viral communities, but phages that infect oral bacteria remain uncharacterized. Here, we present the genetic analysis of the genome of a novel siphovirus, named Siphoviridae_29632, which was isolated from a patient with periodontitis using a viral metagenomics-based approach. Among 43 predicted open reading frames (ORFs) in the genome, the viral genes encoding structural proteins were distinct from the counterparts of other viruses, although a distant homology is shared among viral morphogenesis proteins. A total of 28 predicted coding sequences had significant homology to other known phage ORF sequences. In addition, the prevalence of Siphoviridae_29632 in a cohort of patients with chronic periodontitis was 41.67%, which was significantly higher than that in the healthy group (4.55%, P < 0.001), suggesting that this virus as well as its hosts may contribute to the ecological environment favored for chronic periodontitis.

Indexed as

BacteriophagesChronic PeriodontitisGenome, ViralGenomicsHumansMetagenomicsPeriodontal PocketPhylogenySiphoviridaeBacteriophageCase–control studyPeriodontitisSiphovirusViral metagenomics

Identifiers

PMID30927185
OpenAlexW2926728786

What OpenQuestion holds

Textmetadata
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.