Development and application of an RT-PCR test for detecting avian nephritis virus.
The development of a reverse transcriptase-polymerase chain reaction (RT-PCR) test for detecting avian nephritis virus (ANV) is described. Primers, which amplified a fragment of 182 base pairs (bp), were located in the conserved 3' untranslated region (UTR) of the genome. The limit of detection of the test was estimated to be approximately 18 viral copies using a 10-fold dilution series of in vitro transcribed RNA. Positive signals were produced with representative ANV samples, some of which were not detected by previously described RT-PCR tests for detecting ANV, but other avian astroviruses including chicken astrovirus isolates and duck hepatitis virus types 2 and 3 tested negative. When applied to gut content samples from UK, German and US broiler flocks with enteritis/growth problems, ANVs were detected by RT-PCR in 82/82 (100%) samples. ANVs were also detected in 80/96 (83%) pooled gut content samples from longitudinal surveys of four broiler flocks displaying below-average performance. Whereas all samples collected on day 0 from the surveys were negative for ANV, all samples collected at days 4/5, 7, 10, 14, 21 and 28 tested positive. Sequence determinations performed with amplicons produced with 14 field samples confirmed the ANV specificity of the test, while comparative and phylogenetic analyses based on 109-nucleotide 3'-UTR sequences demonstrated that the majority of ANVs investigated were more closely related to the serotype 2 ANV (accession number AB 046864) than to the serotype 1 ANV (accession number NC 003790).
Todd
D
D
Agri-Food & Biosciences Institute, Stoney Road, Stormont, Belfast, UK. Daniel.Todd@afbini.gov.uk
Trudgett
J
J
McNeilly
F
F
McBride
N
N
Donnelly
B
B
Smyth
V J
VJ
Jewhurst
H L
HL
Adair
B M
BM
D020413:3' Untranslated Regions / Q000235:genetics; D000818:Animals; D019350:Astroviridae Infections / Q000175:diagnosis / Q000662:veterinary*; D052676:Avastrovirus / Q000235:genetics* / Q000302:isolation & purification; D001483:Base Sequence; D002645:Chickens / Q000254:growth & development / Q000821:virology; D003001:Cloning, Molecular; D017124:Conserved Sequence; D017931:DNA Primers; D005858:Germany; D006130:Growth Disorders / Q000662:veterinary / Q000821:virology; D008137:Longitudinal Studies; D008969:Molecular Sequence Data; D011201:Poultry Diseases / Q000235:genetics; D012367:RNA, Viral / Q000235:genetics; D020133:Reverse Transcriptase Polymerase Chain Reaction / Q000379:methods*; D012621:Seasons; D016415:Sequence Alignment; D012689:Sequence Homology, Nucleic Acid; D012703:Serotyping; D006113:United Kingdom
D020413:3' Untranslated Regions; D017931:DNA Primers; D012367:RNA, Viral