Phylogenetic analysis reveals extensive evolution of avian paramyxovirus type 1 strains of pigeons (Columba livia) and suggests multiple species transmission*1

Ujvári, Dorina; Wehmann, Enikő; Kaleta, E. F.; Werner, Ortrud; Savić, Vladimir; Nagy, Éva; Czifra, György; Lomniczi, B.

doi:10.1016/s0168-1702(03)00173-4

Cited by 90 publications

(96 citation statements)

References 37 publications

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“…While the mallard isolate (99MNCA8MLD) was geographically removed from where the cluster of LBM viruses was isolated (northeastern United States), the data for the geographic distribution combined with the natural mobility of wild birds indicates that NDV strains are likely highly mobile. Another explanation for the similarity between the WS-and LBM-origin viruses could be the existence of parallel reservoirs that are either evolutionarily static or evolving in similar directions and at comparable rates; however, this would be an evolutionarily implausible scenario based on the rapid capacity for RNA viruses to change, the history of evolution for other NDV (2,51,54), and the year-to-year changes in the phylogenetic trees presented here. In this study, there were a few cases where the class I LBM viral genotypes lacked WS counterparts (see, e.g., Fig.…”

Section: Discussionmentioning

confidence: 93%

“…Of the few studies characterizing NDV infections in wild bird populations, some suggest that waterfowl provide a natural reservoir for NDV, and epidemiological links between outbreak isolates recovered from poultry and those isolates found in wild bird populations have been hypothesized (18, 25-27, 42, 50). For example, phylogenetic analyses have identified vNDV isolates recovered from pigeons and migrating cormorants as the likely source of some NDV outbreaks in poultry (1,10,22,31,37,51).…”

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confidence: 99%

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Phylogenetic Diversity among Low-Virulence Newcastle Disease Viruses from Waterfowl and Shorebirds and Comparison of Genotype Distributions to Those of Poultry-Origin Isolates

Kim

King

Curry

et al. 2007

J Virol

215

225

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Low-virulence Newcastle disease viruses (loNDV) are frequently recovered from wild bird species, but little is known about their distribution, genetic diversity, or potential to cause disease in poultry. NDV isolates recovered from cloacal samples of apparently healthy waterfowl and shorebirds (WS) in the United States during 1986 to 2005 were examined for genomic diversity and their potential for virulence (n ‫؍‬ 249). In addition 19 loNDV isolates from U.S. live bird markets (LBMs) were analyzed and found to be genetically distinct from NDV used in live vaccines but related to WS-origin NDV. Phylogenetic analysis of the fusion protein identified nine novel genotypes among the class I NDV, and new genomic subgroups were identified among genotypes I and II of the class II viruses. The WS-origin viruses exhibited broad genetic and antigenic diversity, and some WS genotypes displayed a closer phylogenetic relationship to LBM-origin NDV. All NDV were predicted to be lentogenic based upon sequencing of the fusion cleavage site, intracerebral pathogenicity index, or mean death time in embryo assays. The USDA real-time reverse transcription-PCR assay, which targets the matrix gene, identified nearly all of the class II NDV tested but failed to detect class I viruses from both LBM and WS. The close phylogenetic proximity of some WS and LBM loNDV suggests that viral transmission may occur among wild birds and poultry; however, these events may occur unnoticed due to the broad genetic diversity of loNDV, the lentogenic presentation in birds, and the limitations of current rapid diagnostic tools.

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Section: Discussionmentioning

confidence: 93%

mentioning

confidence: 99%

Phylogenetic Diversity among Low-Virulence Newcastle Disease Viruses from Waterfowl and Shorebirds and Comparison of Genotype Distributions to Those of Poultry-Origin Isolates

Kim

King

Curry

et al. 2007

J Virol

215

225

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“…As mentioned previously, DoveIT is phylogenetically related to the PPMV-1 genotype, which are represented in the diverse lineage classified as 4b/VIb. 2,22 Of the 970 isolates reviewed for this study, 38 isolates contained the DoveIT fusioncleavage site motif ''RRKKRF.'' The majority of these isolates originated in Europe with a small subset from Japan and 84% of these isolates were from pigeons.…”

Section: Resultsmentioning

confidence: 99%

Effect of Probe-Site Mismatches on Detection of Virulent Newcastle Disease Viruses Using a Fusion-Gene Real-Time Reverse Transcription Polymerase Chain Reaction Test

2006

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Abstract. Virulent forms of Newcastle disease virus (NDV) are a major concern for poultry producers around the world and the rapid diagnosis of an outbreak is crucial to any control program. A validated realtime reverse transcription-PCR test (fusion test) directed at the fusion-cleavage site of NDV was developed to differentiate virulent Newcastle disease virus strains from those of low virulence, however one virulent isolate, Dove/Italy/2736/2000, escaped detection during the initial evaluation of the test. The objectives of this study were to determine how this isolate differed from other detectable isolates, to identify other isolates that may fail detection, and to characterize the effect of specific probe-site mutations on the fusion test at a range of annealing temperatures. Using a virulent NDV isolate (Game fowl/US(CA)/2002) as a backbone that has 100% identity to the fusion-test probe, specific changes were made to the fusion-test probe-site to reflect the unique mismatches found in Dove/Italy/2736/2000 and other selected regions of the probe. Mutated clones with mismatches unique to Dove/Italy/2736/2000 at positions 6, 13, and 14 were not detected until annealing temperatures were lowered to 50uC. Those detected at 58uC contained 1-2 mismatches (position 1 and 6, 13 and 14, or 14 only) although increased cycle threshold values compared to the parent clone indicated decreased sensitivity. Data from this study predicts that the fusion test may fail to detect some viruses among lineage 4b and potential solutions to identify this subset of viruses include lowering the annealing temperature or modifying the probe.

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“…The enveloped virus has a negative-sense, single-stranded RNA genome encoding six proteins, including the nucleocapsid, phosphoprotein, matrix (M), fusion (F), hemagglutinin-neuraminidase, and RNA-directed RNA polymerase proteins (3,9). Currently, there are multiple NDV lineages circulating worldwide that are genetically highly diverse (1,7,8,15,27,30,36). Chickens are highly susceptible to virulent APMV-1, while ducks and geese may be infected but show few or no clinical signs (3).…”

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confidence: 99%

Phylogenetic Relationships among Virulent Newcastle Disease Virus Isolates from the 2002-2003 Outbreak in California and Other Recent Outbreaks in North America

et al. 2004

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Isolates from the 2002-2003 virulent Newcastle disease virus (v-NDV) outbreak in southern California, Nevada, Arizona, and Texas in the United States were compared to each other along with recent v-NDV isolates from Mexico and Central America and reference avian paramyxovirus type 1 strains. Nucleotide sequencing and phylogenetic analyses were conducted on a 1,195-base genomic segment composing the 3′ region of the matrix (M) protein gene and a 5′ portion of the fusion (F) protein gene including the M-F intergenic region. This encompasses coding sequences for the nuclear localization signal of the M protein and the F protein cleavage activation site. A dibasic amino acid motif was present at the predicted F protein cleavage activation site in all v-NDVs, including the California 2002-2003, Arizona, Nevada, Texas, Mexico, and Central America isolates. Phylogenetic analyses demonstrated that the California 2002-2003, Arizona, Nevada, and Texas viruses were most closely related to isolates from Mexico and Central America. An isolate from Texas obtained during 2003 appeared to represent a separate introduction of v-NDV into the United States, as this virus was even more closely related to the Mexico 2000 isolates than the California, Arizona, and Nevada viruses. The close phylogenetic relationship between the recent 2002-2003 U.S. v-NDV isolates and those viruses from countries geographically close to the United States warrants continued surveillance of commercial and noncommercial poultry for early detection of highly virulent NDV

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Phylogenetic analysis reveals extensive evolution of avian paramyxovirus type 1 strains of pigeons (Columba livia) and suggests multiple species transmission*1

Cited by 90 publications

References 37 publications

Phylogenetic Diversity among Low-Virulence Newcastle Disease Viruses from Waterfowl and Shorebirds and Comparison of Genotype Distributions to Those of Poultry-Origin Isolates

Phylogenetic Diversity among Low-Virulence Newcastle Disease Viruses from Waterfowl and Shorebirds and Comparison of Genotype Distributions to Those of Poultry-Origin Isolates

Effect of Probe-Site Mismatches on Detection of Virulent Newcastle Disease Viruses Using a Fusion-Gene Real-Time Reverse Transcription Polymerase Chain Reaction Test

Phylogenetic Relationships among Virulent Newcastle Disease Virus Isolates from the 2002-2003 Outbreak in California and Other Recent Outbreaks in North America

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