Evidence map›Paper›PMID 26239707›Full record

ArticleVirology journal2015

Phylogenetic analysis of avian infectious bronchitis virus S1 glycoprotein regions reveals emergence of a new genotype in Moroccan broiler chicken flocks.

Siham Fellahi, Mehdi El Harrak, Mariette Ducatez, Chafiqa Loutfi, Saad Ibn Souda Koraichi, Jens H Kuhn, Slimane Khayi, Mohammed El Houadfi, My Mustapha Ennaji

Open access · goldAbstract read
In one paragraph

Article in Virology journal, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
5.0field-weighted citation impact, top 5% 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

11 citing papers in PubMed, 22 citations in OpenAlex.

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  9. Phylogenetic and antigenic analysis of avian infectious bronchitis virus in southwestern China, 2012-2016.Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases · 2016
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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

9 authors at 6 institutions in 3 countries.

Siham FellahiUnité de Pathologie Aviaire, Département de Pathologie et Santé Publique Vétérinaire, Institut Agronomique et Vétérinaire Hassan II, Rabat, 10000, Morocco. fellahisiham2015@gmail.com.
Mehdi El HarrakSociété de Produits Biologiques et Pharmaceutiques Vétérinaires, Rabat, 10000, Morocco. elharrak_m@hotmail.com.
Mariette DucatezInstitut National de la Recherche Agronomique, Unité Mixte de Recherche 1225 Interaction hôtes-agents pathogènes, F-31076, Toulouse, France. m.ducatez@envt.fr.
Chafiqa LoutfiSociété de Produits Biologiques et Pharmaceutiques Vétérinaires, Rabat, 10000, Morocco. chafiqal@hotmail.com.
Saad Ibn Souda KoraichiLaboratoire de Biotechnologie Microbienne, Université Sidi Mohamed Ben Abdellah, Fez, 30000, Morocco. ibnsouda@hotmail.com.
Jens H KuhnIntegrated Research Facility at Fort Detrick, National Institute of Allergy and Infectious Diseases, National Institutes of Health, B-8200 Research Plaza, Fort Detrick, Frederick, MD, 21702, USA. kuhnjens@mail.nih.gov.
Slimane KhayiGenomique Cellulaire et Techniques Moléculaire Investigations, Université Moulay Ismail, Meknès, 50000, Morocco. slimane.khayi@gmail.com.
Mohammed El HouadfiUnité de Pathologie Aviaire, Département de Pathologie et Santé Publique Vétérinaire, Institut Agronomique et Vétérinaire Hassan II, Rabat, 10000, Morocco. elhouadfimohammed@yahoo.fr.
My Mustapha EnnajiLaboratoirede Virologie, Microbiologie et Qualité/ETB- Faculté des Sciences et Techniques, Mohammedia, Université Hassan II- Casablanca, Mohammedia, 20650, Morocco. m.ennaji@yahoo.fr.
Institut Agronomique et Vétérinaire Hassan II · MAInstitut National de la Recherche Agronomique · MANational Institutes of Health · USSidi Mohamed Ben Abdellah University · MAUniversité Moulay Ismail de Meknes · MAUniversity of Hassan II Casablanca · MA

Funding

NIAID NIH HHS HHSN272200700016IPHS HHS 272200700016I
6 · The paper itself

Abstract

backgroundInfectious bronchitis virus (IBV), a major pathogen of commercial poultry flocks, circulates in the form of several serotypes/genotypes. Only a few amino-acid changes in the S1 subunit of wild-type IBVS proteins may result in mutants unaffected by current vaccines.

methodsPartial S1 gene sequences of 3 IBV isolates of the Moroccan Italy 02 genotype from vaccinated and unvaccinated broiler chicken flocks, located in southern and central regions of Morocco, were amplified by RT-PCR, sequenced, and aligned for phylogenetic and amino-acid similarity analyses.

resultsThe three isolates were found genetically highly distant from known avian IBV based on partial sequences of their S1 genes: gammaCoV/chicken/Morocco/I01/2011(IBV/Morocco/01), gammaCoV/chicken/Morocco/I30/2010 (IBV/Morocco/30), and gammaCoV/chicken/Morocco/I38/2013 (IBV/Morocco/38), nucleotide sequence identities reached 89.5 % to 90.9 % among the three isolates. The deduced protein sequence identities ranged from 29.7 % (between IBV/Morocco/38 and Egypt SCU-14/2013-1) to 78.2 % (between IBV/Morocco/01 and Spain/05/866). Amino acid sequence comparison and phylogenetic analysis indicated the emergence of a new Moroccan genotype, clustering with regionally related isolates from Spain (Spain/05/866) and belonging to a new sub-genotype.

conclusionOur sequencing results demonstrate a co-circulation of wild-type infectious bronchitis viruses in broiler chickens. These results justify permanent monitoring of circulating strains in order to rationally modify vaccination strategies to make them appropriate to the evolving field situation.

Indexed as

GenotypePhylogenyAmino Acid SequenceAnimalsChickensGlycoproteinsInfectious bronchitis virusMolecular Sequence DataSequence AlignmentSequence Analysis, DNAViral ProteinsGlycoproteinsViral Proteins

Identifiers

PMID26239707
PMCPMC4524495
OpenAlexW2144194529

What OpenQuestion holds

Textmetadata
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Registered trials

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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.