Evidence map›Paper›PMID 34374840›Full record

ArticleArchives of virology2021

Temporal lineage dynamics of the ORF5 gene of porcine reproductive and respiratory syndrome virus in Korea in 2014-2019.

Seung-Chai Kim, Chang-Gi Jeong, Gyeong-Seo Park, Ji-Young Park, Hye-Young Jeoung, Go-Eun Shin, Mi-Kyeong Ko, Seoung-Hee Kim, Kyoung-Ki Lee, Won-Il Kim

Abstract read
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In one paragraph

Article in Archives of virology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.

0numbers the graph read from it
0cells of the map it votes in
24citing papers in PubMed
3.9field-weighted citation impact, top 6% 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

24 citing papers in PubMed, 35 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

10 authors at 2 institutions in 1 country.

Seung-Chai KimCollege of Veterinary Medicine, Jeonbuk National University, 79 Gobong-ro, Iksan, Jeonbuk, 54596, Republic of Korea.
Chang-Gi JeongCollege of Veterinary Medicine, Jeonbuk National University, 79 Gobong-ro, Iksan, Jeonbuk, 54596, Republic of Korea.
Gyeong-Seo ParkCollege of Veterinary Medicine, Jeonbuk National University, 79 Gobong-ro, Iksan, Jeonbuk, 54596, Republic of Korea.
Ji-Young ParkAnimal and Plant Quarantine Agency, 177 Hyeoksin 8-ro, Gimcheon, 39660, Korea.
Hye-Young JeoungAnimal and Plant Quarantine Agency, 177 Hyeoksin 8-ro, Gimcheon, 39660, Korea.
Go-Eun ShinAnimal and Plant Quarantine Agency, 177 Hyeoksin 8-ro, Gimcheon, 39660, Korea.
Mi-Kyeong KoAnimal and Plant Quarantine Agency, 177 Hyeoksin 8-ro, Gimcheon, 39660, Korea.
Seoung-Hee KimAnimal and Plant Quarantine Agency, 177 Hyeoksin 8-ro, Gimcheon, 39660, Korea.
Kyoung-Ki LeeAnimal and Plant Quarantine Agency, 177 Hyeoksin 8-ro, Gimcheon, 39660, Korea.
Won-Il KimCollege of Veterinary Medicine, Jeonbuk National University, 79 Gobong-ro, Iksan, Jeonbuk, 54596, Republic of Korea. kwi0621@jbnu.ac.kr.ORCID http://orcid.org/0000-0002-0465-0794
Animal and Plant Quarantine Agency · KRJeonbuk National University · KR

Funding

Animal and Plant Quarantine Agency Z-1543069-2017-20-1Ministry of Agriculture, Food and Rural Affairs 320060-02
6 · The paper itself

Abstract

Porcine reproductive and respiratory syndrome virus (PRRSV) is the most important pathogen in the Korean swine industry. Despite efforts including improved biosecurity and vaccination protocols, the virus continues to circulate and evolve. Based on phylogenetic analysis of open reading frame 5 (ORF5), Korean PRRSVs are known to form not only globally circulating lineages but also country-specific lineages (Lin Kor A, B, and C). To understand the recent epidemiological status of PRRSV in Korea, a total of 1349 ORF5 sequences of Korean PRRSV isolates from 2014 to 2019 were analyzed. Phylogenetic analysis was conducted using the maximum-likelihood method, and temporal changes in the relative prevalence of lineages were investigated. The analysis showed that PRRSV1 and PRRSV2 were both highly prevalent throughout the years examined. Among the PRRSV1 isolates, subgroup A (90.1%) and vaccine-like subgroup C (9.0%) composed most of the population. For PRRSV2 isolates, vaccine-like lineage 5 (36.3%) was dominant, followed by Lin Kor B (25.9%), Kor C (16.6%), lineage 1 (11.6%), and Kor A (9.1%). The PRRSV2 lineage 1 population increased from 2014 (1.8%) to 2019 (29.6%) in Korea due to the continual spread of sublineage 1.8 (NADC30-like) and introduction of sublineage 1.6 into the country. Additional genetic analysis, including analysis of non synonymous and synonymous mutations, revealed evidence of diversification and positive selection in immunologically important regions of the genome, suggesting that current vaccination is failing and promoting immune-mediated selection. Overall, these findings provide insights into the epidemiological and evolutionary dynamics of cocirculating viral lineages, and constant surveillance of PRRSV occurrence is needed.

Indexed as

Amino Acid SequenceAnimalsGenetic VariationGenotypePhylogenyPorcine Reproductive and Respiratory SyndromePorcine respiratory and reproductive syndrome virusPrevalenceRepublic of KoreaSwineViral Envelope ProteinsViral Vaccinesglycoprotein 5, PRRSVViral Envelope ProteinsViral Vaccines

Identifiers

PMID34374840
OpenAlexW3191855788

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.