Evidence map›Paper›PMID 28095784›Full record

ArticleBMC microbiology2017

Identification of a novel bovine enterovirus possessing highly divergent amino acid sequences in capsid protein.

Shinobu Tsuchiaka, Sayed Samim Rahpaya, Konosuke Otomaru, Hiroshi Aoki, Mai Kishimoto, Yuki Naoi, Tsutomu Omatsu, Kaori Sano, Sachiko Okazaki-Terashima, Yukie Katayama and 3 more

Open access · goldAbstract read
In one paragraph

Article in BMC microbiology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing 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

17 citing papers in PubMed, 24 citations in OpenAlex.

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  7. Lack of molecular evidence of fecal-borne viruses in capybaras from São Paulo state, Brazil, 2018-2020: a minor public health issue.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2023
    Article
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  17. Emergency Services of Viral RNAs: Repair and Remodeling.Microbiology and molecular biology reviews : MMBR · 2018
    Review
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 5 institutions in 1 country.

Shinobu TsuchiakaThe United Graduate School of Veterinary Sciences, Gifu University, 1-1 Yanagito, Gifu-shi, Gifu, 501-1193, Japan.
Sayed Samim RahpayaThe United Graduate School of Veterinary Sciences, Gifu University, 1-1 Yanagito, Gifu-shi, Gifu, 501-1193, Japan.
Konosuke OtomaruJoint Faculty of Veterinary Medicine, Kagoshima University, 1-21-24 Korimoto, Kagoshima-shi, Kagoshima, 890-0065, Japan.
Hiroshi AokiFaculty of Veterinary Science, Nippon Veterinary and Life Science University, 1-7-1 Kyonan-cho, Musashino-shi, Tokyo, 180-8602, Japan.
Mai KishimotoResearch and Education Center for Prevention of Global Infectious Disease of Animals, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu-shi, Tokyo, 183-8509, Japan.
Yuki NaoiResearch and Education Center for Prevention of Global Infectious Disease of Animals, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu-shi, Tokyo, 183-8509, Japan.
Tsutomu OmatsuThe United Graduate School of Veterinary Sciences, Gifu University, 1-1 Yanagito, Gifu-shi, Gifu, 501-1193, Japan.
Kaori SanoResearch and Education Center for Prevention of Global Infectious Disease of Animals, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu-shi, Tokyo, 183-8509, Japan.
Sachiko Okazaki-TerashimaThe United Graduate School of Veterinary Sciences, Gifu University, 1-1 Yanagito, Gifu-shi, Gifu, 501-1193, Japan.
Yukie KatayamaResearch and Education Center for Prevention of Global Infectious Disease of Animals, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu-shi, Tokyo, 183-8509, Japan.
Mami ObaResearch and Education Center for Prevention of Global Infectious Disease of Animals, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu-shi, Tokyo, 183-8509, Japan.
Makoto NagaiFaculty of Bioresources and Environmental Sciences, Ishikawa prefectural University, 1-308, Suematsu, Nonoichi-shi, Ishikawa, 921-8836, Japan.
Tetsuya MizutaniThe United Graduate School of Veterinary Sciences, Gifu University, 1-1 Yanagito, Gifu-shi, Gifu, 501-1193, Japan. tmizutan@cc.tuat.ac.jp.
Tokyo University of Agriculture and Technology · JPGifu University · JPIshikawa Prefectural University · JPKagoshima University · JPNippon Veterinary and Life Science University · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundBovine enterovirus (BEV) belongs to the species Enterovirus E or F, genus Enterovirus and family Picornaviridae. Although numerous studies have identified BEVs in the feces of cattle with diarrhea, the pathogenicity of BEVs remains unclear. Previously, we reported the detection of novel kobu-like virus in calf feces, by metagenomics analysis. In the present study, we identified a novel BEV in diarrheal feces collected for that survey. Complete genome sequences were determined by deep sequencing in feces. Secondary RNA structure analysis of the 5' untranslated region (UTR), phylogenetic tree construction and pairwise identity analysis were conducted.

resultsThe complete genome sequences of BEV were genetically distant from other EVs and the VP1 coding region contained novel and unique amino acid sequences. We named this strain as BEV AN12/Bos taurus/JPN/2014 (referred to as BEV-AN12). According to genome analysis, the genome length of this virus is 7414 nucleotides excluding the poly (A) tail and its genome consists of a 5'UTR, open reading frame encoding a single polyprotein, and 3'UTR. The results of secondary RNA structure analysis showed that in the 5'UTR, BEV-AN12 had an additional clover leaf structure and small stem loop structure, similarly to other BEVs. In pairwise identity analysis, BEV-AN12 showed high amino acid (aa) identities to Enterovirus F in the polyprotein, P2 and P3 regions (aa identity ≥82.4%). Therefore, BEV-AN12 is closely related to Enterovirus F. However, aa sequences in the capsid protein regions, particularly the VP1 encoding region, showed significantly low aa identity to other viruses in genus Enterovirus (VP1 aa identity ≤58.6%). In addition, BEV-AN12 branched separately from Enterovirus E and F in phylogenetic trees based on the aa sequences of P1 and VP1, although it clustered with Enterovirus F in trees based on sequences in the P2 and P3 genome region.

conclusionsWe identified novel BEV possessing highly divergent aa sequences in the VP1 coding region in Japan. According to species definition, we proposed naming this strain as "Enterovirus K", which is a novel species within genus Enterovirus. Further genomic studies are needed to understand the pathogenicity of BEVs.

Indexed as

3' Untranslated Regions5' Untranslated RegionsAmino Acid SequenceAnimalsBase SequenceCapsid ProteinsCattleCattle DiseasesDiarrheaEnterovirus, BovineEnterovirus InfectionsFecesGenome, ViralHigh-Throughput Nucleotide SequencingJapanMetagenomics3' Untranslated Regions5' Untranslated RegionsCapsid ProteinsRNA, ViralViral ProteinsBovine enterovirusDeep sequencingPhylogenetic analysis

Identifiers

PMID28095784
PMCPMC5240211
OpenAlexW2575217396

What OpenQuestion holds

Textmetadata
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.