Evidence map›Paper›PMID 32159913›Full record

ArticleVeterinary medicine and science2020

Genetic characterization of the spike gene of porcine epidemic diarrhea viruses (PEDVs) circulating in Vietnam from 2015 to 2016.

Van T Than, Se-Eun Choe, Thi T H Vu, Tien D Do, Thi L Nguyen, Thi T N Bui, Thi N Mai, Ra M Cha, Daesub Song, Dong-Jun An and 1 more

Open access · goldAbstract read
In one paragraph

Article in Veterinary medicine and science, 2020. 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
2.2field-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

14 citing papers in PubMed, 24 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

11 authors at 5 institutions in 2 countries.

Van T ThanNTT Hi-Tech Institute, Nguyen Tat Thanh University, Ho Chi Minh City, Vietnam.ORCID 0000-0002-3806-7521
Se-Eun ChoeAnimal and Plant Quarantine Agency, Gimcheon, Gyeongsangbukdo, Republic of Korea.
Thi T H VuFaculty of Veterinary Medicine, Vietnam National University of Agriculture, Ha Noi, Vietnam.
Tien D DoNong Lam University, Ho Chi Minh City, Vietnam.
Thi L NguyenFaculty of Veterinary Medicine, Vietnam National University of Agriculture, Ha Noi, Vietnam.
Thi T N BuiFaculty of Veterinary Medicine, Vietnam National University of Agriculture, Ha Noi, Vietnam.
Thi N MaiFaculty of Veterinary Medicine, Vietnam National University of Agriculture, Ha Noi, Vietnam.
Ra M ChaAnimal and Plant Quarantine Agency, Gimcheon, Gyeongsangbukdo, Republic of Korea.
Daesub SongCollege of Pharmacy, Korea University, Sejong, Republic of Korea.
Dong-Jun AnAnimal and Plant Quarantine Agency, Gimcheon, Gyeongsangbukdo, Republic of Korea.
Van P LeFaculty of Veterinary Medicine, Vietnam National University of Agriculture, Ha Noi, Vietnam.
Vietnam National University of Agriculture · VNAnimal and Plant Quarantine Agency · KRKorea University · KRNong Lam University Ho Chi Minh City · VNTrường ĐH Nguyễn Tất Thành · VN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundPorcine epidemic diarrhea (PED) is a highly contagious swine disease caused by the PED virus (PEDV), which is a member of the family Coronaviridae. Since the first outbreaks in Belgium and the United Kingdom were reported in 1971, PED has spread throughout many countries around the world and causing significant economic loss. This study was conducted to investigate the recent distribution of PEDV strains in Vietnam during the 2015-2016 seasons.

methodsA total of 30 PED-specific PCR-positive intestinal and faecal samples were collected from unvaccinated piglets in Vietnam during the 2015-2016 seasons. The full length of the spike (S) gene of these PEDV strains were analysed to determine their phylogeny and genetic relationship with other available PEDV strains globally.

resultsPhylogenetic analysis of the complete S gene sequences revealed that the 28 Vietnamese PEDV strains collected in the northern and central regions clustered in the G2 group (both G2a and G2b sub-groups), while the other 2 PEDV strains (HUA-PED176 and HUA-PED254) collected in the southern region were clustered in the G1/G1b group/sub-group. The nucleotide (nt) and deduced amino acid (aa) analyses based on the complete S gene sequences showed that the Vietnamese PEDV strains were closely related to each other, sharing nt and aa homology of 93.2%-99.9% and 92.6%-99.9%, respectively. The N-glycosylation patterns and mutations in the antigenic region were observed in Vietnamese PEDV strains.

conclusionsThis study provides, for the first time, up-to-date information on viral circulation and genetic distribution, as well as evidence to assist in the development of effective PEDV vaccines in Vietnam.

Indexed as

Amino Acid SequenceAnimalsCoronavirus InfectionsPhylogenyPorcine epidemic diarrhea virusSequence AlignmentSpike Glycoprotein, CoronavirusSwineSwine DiseasesVietnamSpike Glycoprotein, Coronavirusmolecular characterizationphylogenetic analysisporcine epidemic diarrhea virus (PEDV)spike glycoprotein gene

Identifiers

PMID32159913
PMCPMC7397879
OpenAlexW3010941056

What OpenQuestion holds

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LicenceCC BY-NC-ND
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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.