Evidence map›Paper›PMID 29973122›Full record

ArticleVirulence2018

Insights into the genetic and host adaptability of emerging porcine circovirus 3.

Gairu Li, Huijuan Wang, Shilei Wang, Gang Xing, Cheng Zhang, Wenyan Zhang, Jie Liu, Junyan Zhang, Shuo Su, Jiyong Zhou

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Virulence, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.

0numbers the graph read from it
0cells of the map it votes in
40citing 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

40 citing papers in PubMed.

  1. Article
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  17. Article
  18. Codon usage analysis of zoonotic coronaviruses reveals lower adaptation to humans by SARS-CoV-2.Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases · 2021
    Article
  19. Article
  20. Current research in insect science · 2021
    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

10 authors.

Gairu Lia MOE Joint International Research Laboratory of Animal Health and Food Safety, Institute of Immunology , Nanjing Agricultural University , Nanjing , China.
Huijuan Wangc Key laboratory of Animal Virology of Ministry of Agriculture , Zhejiang University , Hangzhou , China.
Shilei Wanga MOE Joint International Research Laboratory of Animal Health and Food Safety, Institute of Immunology , Nanjing Agricultural University , Nanjing , China.
Gang Xinga MOE Joint International Research Laboratory of Animal Health and Food Safety, Institute of Immunology , Nanjing Agricultural University , Nanjing , China.
Cheng Zhanga MOE Joint International Research Laboratory of Animal Health and Food Safety, Institute of Immunology , Nanjing Agricultural University , Nanjing , China.
Wenyan Zhanga MOE Joint International Research Laboratory of Animal Health and Food Safety, Institute of Immunology , Nanjing Agricultural University , Nanjing , China.
Jie Liua MOE Joint International Research Laboratory of Animal Health and Food Safety, Institute of Immunology , Nanjing Agricultural University , Nanjing , China.
Junyan Zhanga MOE Joint International Research Laboratory of Animal Health and Food Safety, Institute of Immunology , Nanjing Agricultural University , Nanjing , China.
Shuo Sua MOE Joint International Research Laboratory of Animal Health and Food Safety, Institute of Immunology , Nanjing Agricultural University , Nanjing , China.
Jiyong Zhouc Key laboratory of Animal Virology of Ministry of Agriculture , Zhejiang University , Hangzhou , China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Porcine circovirus 3 (PCV3) was found to be associated with reproductive disease in pigs, and since its first identification in the United States, it subsequently spread worldwide, especially in China, where it might pose a potential threat to the porcine industry. However, no exhaustive analysis was performed to understand its evolution in the prospect of codon usage pattern. Here, we performed a deep codon usage analysis of PCV3. PCV3 sequences were classified into two clades: PCV3a and PCV3b, confirmed by principal component analysis. Additionally, the degree of codon usage bias of PCV3 was slightly low as inferred from the analysis of the effective number of codons. The codon usage pattern was mainly affected by natural selection, but there was a co-effect of mutation pressure and dinucleotide frequency. Moreover, based on similarity index analysis, codon adaptation index analysis and relative codon deoptimization index analysis, we found that PCV3 might pose a potential risk to public health though with unknow pathogenicity. In conclusion, this work reinforces the systematic understanding of the evolution of PCV3, which was reflected by the codon usage patterns and fitness of this novel emergent virus.

Indexed as

Evolution, MolecularPhylogenyAnimalsCircovirusCodonGenome, ViralGenotypeHost Microbial InteractionsSwineSwine DiseasesCodoncodon usage biasdinucleotidehostnatural selectionPorcine circovirus 3 (PCV3)

Identifiers

PMID29973122
PMCPMC6177243

What OpenQuestion holds

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LicenceCC BY
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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.