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Detection and Genome Sequence Analysis of Avian Metapneumovirus Subtype A Viruses Circulating in Commercial Chicken Flocks in Mexico.

作者信息

Kariithi Henry M, Christy Nancy, Decanini Eduardo L, Lemiere Stéphane, Volkening Jeremy D, Afonso Claudio L, Suarez David L

机构信息

Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, U.S. National Poultry Research Center, USDA-ARS, Athens, GA 30605, USA.

Biotechnology Research Institute, Kenya Agricultural and Livestock Research Organization, Kaptagat Rd, Nairobi P.O. Box 57811-00200, Kenya.

出版信息

Vet Sci. 2022 Oct 19;9(10):579. doi: 10.3390/vetsci9100579.


DOI:10.3390/vetsci9100579
PMID:36288192
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9612082/
Abstract

Avian metapneumoviruses (aMPV subtypes A-D) are respiratory and reproductive pathogens of poultry. Since aMPV-A was initially reported in Mexico in 2014, there have been no additional reports of its detection in the country. Using nontargeted next-generation sequencing (NGS) of FTA card-spotted respiratory samples from commercial chickens in Mexico, seven full genome sequences of aMPV-A (lengths of 13,288-13,381 nucleotides) were de novo assembled. Additionally, complete coding sequences of genes N ( = 2), P and M ( = 7 each), F and L ( = 1 each), M2 ( = 6), SH ( = 5) and G ( = 2) were reference-based assembled from another seven samples. The Mexican isolates phylogenetically group with, but in a distinct clade separate from, other aMPV-A strains. The genome and G-gene nt sequences of the Mexican aMPVs are closest to strain UK/8544/06 (97.22-97.47% and 95.07-95.83%, respectively). Various amino acid variations distinguish the Mexican isolates from each other, and other aMPV-A strains, most of which are in the G ( = 38), F ( = 12), and L ( = 19) proteins. Using our sequence data and publicly available aMPV-A data, we revised a previously published rRT-PCR test, which resulted in different cycling and amplification conditions for aMPV-A to make it more compatible with other commonly used rRT-PCR diagnostic cycling conditions. This is the first comprehensive sequence analysis of aMPVs in Mexico and demonstrates the value of nontargeted NGS to identify pathogens where targeted virus surveillance is likely not routinely performed.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/38f8aee6c819/vetsci-09-00579-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/f7a5ccb779eb/vetsci-09-00579-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/b74cf9c29cbf/vetsci-09-00579-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/1842d5d4603f/vetsci-09-00579-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/4b429c861ffc/vetsci-09-00579-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/dee664f5545e/vetsci-09-00579-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/ef877fd3446b/vetsci-09-00579-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/38f8aee6c819/vetsci-09-00579-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/f7a5ccb779eb/vetsci-09-00579-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/b74cf9c29cbf/vetsci-09-00579-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/1842d5d4603f/vetsci-09-00579-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/4b429c861ffc/vetsci-09-00579-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/dee664f5545e/vetsci-09-00579-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/ef877fd3446b/vetsci-09-00579-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7881/9612082/38f8aee6c819/vetsci-09-00579-g007.jpg

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[3]
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[4]
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[5]
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[6]
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[7]
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[8]
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[9]
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[10]
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本文引用的文献

[1]
Molecular characterization of avian metapneumovirus subtype C detected in wild mallards (Anas platyrhynchos) in The Netherlands.

Transbound Emerg Dis. 2022-11

[2]
Molecular Survey on A, B, C and New Avian Metapneumovirus (aMPV) Subtypes in Wild Birds of Northern-Central Italy.

Vet Sci. 2022-7-20

[3]
Non-target RNA depletion strategy to improve sensitivity of next-generation sequencing for the detection of RNA viruses in poultry.

J Vet Diagn Invest. 2022-7

[4]
First detection of avian metapneumovirus subtype C Eurasian lineage in a Eurasian wigeon () wintering in Northeastern Italy: an additional hint on the role of migrating birds in the viral epidemiology.

Avian Pathol. 2022-6

[5]
Quantitative real-time PCR assays for the concurrent diagnosis of infectious laryngotracheitis virus, Newcastle disease virus and avian metapneumovirus in poultry.

J Vet Sci. 2022-3

[6]
Avian Metapneumovirus Subgroup C Induces Mitochondrial Antiviral Signaling Protein Degradation through the Ubiquitin-Proteasome Pathway.

Viruses. 2021-10-4

[7]
Molecular Epidemiology and Genotyping of Infectious Bronchitis Virus and Avian Metapneumovirus in Backyard and Commercial Chickens in Jimma Zone, Southwestern Ethiopia.

Vet Sci. 2020-11-25

[8]
What is new on molecular characteristics of Avian metapneumovirus strains circulating in Europe?

Transbound Emerg Dis. 2021-5

[9]
Avian Metapneumovirus subtype B around Europe: a phylodynamic reconstruction.

Vet Res. 2020-7-8

[10]
Single-Nucleotide Polymorphism Analysis to Select Conserved Regions for an Improved Real-Time Reverse Transcription-PCR Test Specific for Newcastle Disease Virus.

Avian Dis. 2019-12

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