Genome Organization of Porcine Epidemic Diarrhoea Virus

Duarte, Márcia do Rocio; Gelfi, Jacqueline; Lambert, Patrick; Rasschaert, Denis; Laude, Hubert

doi:10.1007/978-1-4615-2996-5_9

Cited by 83 publications

(74 citation statements)

References 14 publications

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“…But, an ORF of 624 nucleotides, with the potential to encode the coronavirus ORF3 protein, was first identified. All PEDV ORF3 genes including wild-and attenuated-type PEDVs had a sequence (CTAGAC) of 46 nucleotides upstream of the initiator ATG, as previously recognized in Br1/87 [29]. This sequence is a hexameric motif common to coronaviruses and is similar to the hexameric motifs XUA(A/G)AC found adjacent to other PEDV ORFs.…”

mentioning

confidence: 89%

Cloning and further sequence analysis of the ORF3 gene of wild- and attenuated-type porcine epidemic diarrhea viruses

et al. 2007

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The open reading frame (ORF3) genes of the parent DR13, attenuated DR13, KPED-9, P-5V, and 12 field samples were cloned and sequenced to further explore the functions of wild- and attenuated-type porcine epidemic diarrhea viruses (PEDVs). Sequencing revealed that wild-type PEDVs ORF3 genes had a single ORF of 675 nucleotides encoding a protein of 224 amino acids with a predicted M (r) of 25.1-25.3 kDa. Attenuated-type PEDVs ORF3 genes had a single ORF of 624 nucleotides encoding a protein of 207 amino acids with a predicted M (r) of 23.4 kDa. The coding region of the ORF3 gene of attenuated-type PEDVs including attenuated DR13, KPED-9, and P-5V had 51 nucleotide deletions that were not found in the ORF3 genes of wild-type PEDVs including CV777, Br1/87, LZC, parent DR13, and 12 field samples. In addition, attenuated-type PEDVs have previously been found to exhibit reduced pathogenicity in pigs. Therefore, 51 nucleotide deletions appear to be meaningful and may be significant for PEDV pathogenicity, because they lead to changes in the predicted amino acid sequences of attenuated-type PEDVs. Reverse transcriptase-polymerase chain reaction (RT-PCR) on the partial ORF3 gene including 51 nucleotide deletions revealed that all PEDVs fell into two types, wild- and attenuated-type PEDVs. Wild-type PEDVs containing parent DR13 and 12 field samples had RT-PCR products of 245 bp in size, while attenuated-type PEDVs containing PEDV vaccine strains (attenuated DR13, KPED-9, P-5V) had products of 194 bp. In addition, all PEDV vaccine strains were used as live virus vaccine, because they previously exhibited a reduced pathogenicity in pigs. Therefore, large deletion region, which is comprise 17 amino acid deletions caused by 51 nucleotide deletions and is seen in all PED live vaccine strains, may be important site for PEDV pathogenicity, and we can use it for differentiation of wild- and attenuated-type PEDVs.

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confidence: 89%

Cloning and further sequence analysis of the ORF3 gene of wild- and attenuated-type porcine epidemic diarrhea viruses

et al. 2007

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“…Additional PEDV-specific cDNA clones were selected from the library using a 1150 nt PstI fragment ofpBE1 as a probe. One of these additional clones, pBE5, had an insert of 3356 nt extending from the 3' end of the genome to the 3' end of the putative S gene (Duarte et al, 1993).…”

Section: Derivation and Characterization Of The Brl/87 Cdna Clonesmentioning

confidence: 99%

Sequence determination of the nucleocapsid protein gene of the porcine epidemic diarrhoea virus confirms that this virus is a coronavirus related to human coronavirus 229E and porcine transmissible gastroenteritis virus

Bridgen

Duarte

Tobler

et al. 1993

Journal of General Virology

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The nucleotide sequence of 1.7 kbp cDNA, comprising the region nearest the 3' end of the genome of the porcine epidemic diarrhoea virus (PEDV), has been independently determined for two European isolates of PEDV. Almost identical results were obtained for the two isolates, which were derived from cases of PEDV infection in Belgium and Britain in 1977 and 1987, respectively. The sequences contained a 1323 nucleotide (nt) open reading frame (ORF), which showed moderate identity to the nucleocapsid (N) gene of other coronaviruses. The greatest similarity at both the nucleic acid and protein levels was to the human coronavirus 229E.The PEDV N gene was, however, notably larger than that of the human 229E and porcine transmissible gastroenteritis viruses. This reflects the presence of a putative insertion of approximately 135 nt located towards the middle of the N gene. A second 336 nt ORF, which might encode a leucine-rich protein similar to, but shorter than, the bovine coronavirus internal protein was found within the PEDV N gene. Several RNA motifs typical of coronaviruses were also observed. These results confirm the earlier provisional classification of PEDV as a coronavirus.

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“…Although the ORF 5a/5b of group 3 CoVs and ORF 5/6 of SARS-CoV are in homologous location, they do not have any significant sequence homology. FECV: feline enteric coronavirus 41., 42., 43., 44., 45.; FIPV: feline infectious peritonitis virus 41., 42., 43., 44., 45.; CCV: canine coronavirus 43., 46.; TGEV: transmissible gastroenteritis virus 41., 47., 48.; PRCV: porcine respiratory coronavirus 41., 47., 48.; PEDV: porcine epidemic diarrhea virus 49., 50.; HCV 229E: human coronavirus 229E 49., 51.; MHV: murine hepatitis virus 52., 53.; RCV: rat coronavirus ( 54 ); BCV: bovine coronavirus ( 55 ); PHEV: porcine hemagglutinating encephalomyelitis virus ( 56 ); HCV OC43: human coronavirus OC43 57., 58.; TCV: turkey coronavirus 59., 60., 61.; IBV: infectious bronchitis virus 62., 63., 64..…”

Section: Figmentioning

confidence: 99%

Molecular Advances in Severe Acute Respiratory Syndrome-Associated Coronavirus (SARS-CoV)

Chow

Hon

Hui

et al. 2003

Genomics, Proteomics &Amp; Bioinformatics

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The sudden outbreak of severe acute respiratory syndrome (SARS) in 2002 prompted the establishment of a global scientific network subsuming most of the traditional rivalries in the competitive field of virology. Within months of the SARS outbreak, collaborative work revealed the identity of the disastrous pathogen as SARS-associated coronavirus (SARS-CoV). However, although the rapid identification of the agent represented an important breakthrough, our understanding of the deadly virus remains limited. Detailed biological knowledge is crucial for the development of effective countermeasures, diagnostic tests, vaccines and antiviral drugs against the SARS-CoV. This article reviews the present state of molecular knowledge about SARS-CoV, from the aspects of comparative genomics, molecular biology of viral genes, evolution, and epidemiology, and describes the diagnostic tests and the anti-viral drugs derived so far based on the available molecular information.

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Genome Organization of Porcine Epidemic Diarrhoea Virus

Cited by 83 publications

References 14 publications

Cloning and further sequence analysis of the ORF3 gene of wild- and attenuated-type porcine epidemic diarrhea viruses

Cloning and further sequence analysis of the ORF3 gene of wild- and attenuated-type porcine epidemic diarrhea viruses

Sequence determination of the nucleocapsid protein gene of the porcine epidemic diarrhoea virus confirms that this virus is a coronavirus related to human coronavirus 229E and porcine transmissible gastroenteritis virus

Molecular Advances in Severe Acute Respiratory Syndrome-Associated Coronavirus (SARS-CoV)

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