Method | Primers location | Product size (bp) | Method source | Used by | Obtained results | Place | ||
---|---|---|---|---|---|---|---|---|
Order | Positives (%) | CoV detected | ||||||
RT-PCR | RdRp | 250 | (37) | (24) | Anseriformes | 24.4 | AvCoV | Norway |
Columbiformes | 2.0 | |||||||
(25) | Charadriiformes | - | gammaCoV | USA | ||||
Hemi-nested RT-PCR | 3 ’UTR | 214 | (5) | (22) | Anseriformes | 1.6 | IBV-like | Northern England |
Charadriiformes | ||||||||
RT-PCRB | RdRp | 440 | (51) | ( | Passeriformes | 1.8 | deltaCoV | Hong Kong |
(53) | Unknown | 1.1 | deltaCoV | Hong Kong | ||||
Passeriformes | ||||||||
Nested RT-PCRB | RdRd | 440 | (11) | (11) | Anseriformes | 15.0 | gammaCoV deltaCoV | Hong Kong Cambodia |
Ciconiiformes | ||||||||
Pelecaniformes | ||||||||
( | Anseriformes | 0.95 | gammaCoV | Korea | ||||
(15) | Psittaciformes | - | deltaCoV | Brazil | ||||
various | - | betaCoV | ||||||
( | Gruiformes | 7.8 | gammaCoV | Madagascar | ||||
Passeriformes | ||||||||
Ciconiiformes | ||||||||
Anseriformes | ||||||||
Charadriiformes | ||||||||
SybrGreen RT-PCRC | RdRp | 179 | (33) | (33) | Anseriformes | - | IBV-like | Sweden |
( | Anseriformes | 6.4 | gammaCoV | Beringia | ||||
Charadriiformes | ||||||||
Pelecaniformes | ||||||||
( | Anseriformes | 12.0 | gammaCoV | Sweden | ||||
( | Anseriformes | 18.7 | gammaCoV | Sweden | ||||
Charadriiformes | ||||||||
( | Anseriformes | 0.3 | gammaCoV | Sweden | ||||
Nested RT-PCR | S1 | 572 | (1) | (16) | Columbiformes | 50.0 | IBV (Mass, Conn) | Brazil |
Real time RT-PCR | 5 ’UTR | 143 | (3) | (13) | Anseriformes | 3.5 | IBV-like | Poland |
Charadriiformes | 2.3 | |||||||
Galliformes | 17.6 | |||||||
Pyrosequencing/RT-PCR | RdRp | 508 | ( | - | Charadriiformes | - | deltaCoV | USA (Delaware Bay) |
Method | Primer | Genome position primer positions refer to the sequences of the gammacoronavirus representative, IBV M41 strain (GenBank accession no.: DQ834384) | Amplicon (bp) | Reference |
---|---|---|---|---|
1 | 2Bp | 13960–13982 | ||
4Bm | 14189–14210 | 251 | (37) | |
Pol1 | 14188–14210 | |||
2 | Pol2 | 14604–14627 | 440 | (51) |
Pol1 | 14188–14207 | |||
Pol2 | 14770–14789 | 600 | ||
3 | Pol3 | 14188–14210 | (11) | |
Pol4 | 14605–14627 | 440 | ||
11-FW | 14619–14642 | |||
4 | 13-RW | 14773–14797 | 179 | (33) |
Genus | Species Bat coronavirus CDPHE15 |
---|---|
Bat coronavirus HKU10 | |
Human coronavirus 229E | |
Human coronavirus NL63 | |
Miniopterus bat coronavirus 1 | |
Miniopterus bat coronavirus HKU8 | |
Mink coronavirus 1 | |
Porcine epidemic diarrhoea virus | |
Rhinolophus bat coronavirus HKU2 | |
Scotophilus bat coronavirus 512 | |
Betacoronavirus 1 | |
Hedgehog coronavirus 1 | |
Human coronavirus HKU1 | |
Middle East respiratory syndrome-related coronavirus | |
Murine coronavirus | |
Pipistrellus bat coronavirus HKU5 | |
Rousettus bat coronavirus HKU9 | |
Severe acute respiratory syndrome-related coronavirus | |
Tylonycteris bat coronavirus HKU4 | |
Bulbul coronavirus HKU11 | |
Common moorhen coronavirus HKU21 | |
Coronavirus HKU15 | |
Munia coronavirus HKU13 | |
Night heron coronavirus HKU19 | |
Thrush coronavirus HKU12 | |
White-eye coronavirus HKU16 | |
Wigeon coronavirus HKU20 | |
Avian coronavirus | |
Beluga whale coronavirus SW1 |