title: Sequence analysis for the complete proviral genome of subgroup J Avian Leukosis virus associated with hemangioma: a special 11 bp deletion was observed in U3 region of 3'UTR.
abstract: BACKGROUND
  Avian Leukosis virus (ALV) of subgroup J (ALV-J) belong to retroviruses, which could induce tumors in domestic and wild birds. Myelocytomatosis was the most common neoplasma observed in infected flocks; however, few cases of hemangioma caused by ALV-J were reported in recent year.
  
  
  RESULTS
  An ALV-J strain SCDY1 associated with hemangioma was isolated and its proviral genomic sequences were determined. The full proviral sequence of SCDY1 was 7489 nt long. Homology analysis of the env, pol and gag gene between SCDY1 and other strains in GenBank were 90.3-94.2%, 96.6-97.6%, and 94.3-96.5% at nucleotide level, respectively; while 85.1-90.7%, 97.4-98.7%, and 96.2-98.4% at amino acid level, respectively. Alignment analysis of the genomic sequence of ALV-J strains by using HPRS-103 as reference showed that a special 11 bp deletion was observed in U3 region of 3'UTR of SCDY1 and another ALV-J strain NHH isolated from case of hemangioma, and the non-functional TM and E element were absent in the genome of SCDY1, but the transcriptional regulatory elements including C/EBP, E2BP, NFAP-1, CArG box and Y box were highly conserved. Phylogenetic analysis revealed that all analyzed ALV-J strains could be separated into four groups, and SCDY1 as well as another strain NHH were included in the same cluster.
  
  
  CONCLUSIONS
  The variation in envelope glycoprotein was higher than other genes. The genome sequence of SCDY1 has a close relationship with that of another ALV-J strain NHH isolated from case of hemangioma. A 11 bp deletion observed in U3 region of 3'UTR of genome of ALV-J isolated from case of hemangioma is interesting, which may be associated with the occurrence of hemangioma.
authors.affiliation: College of Veterinary Medicine, Sichuan Agricultural University, Ya'an, Sichuan 625014, China.
authors.forename: Min
authors.initials: M
authors.lastname: Shi
authors.forename: Mingxing
authors.initials: M
authors.lastname: Tian
authors.forename: Cheng
authors.initials: C
authors.lastname: Liu
authors.forename: Yang
authors.initials: Y
authors.lastname: Zhao
authors.forename: Yan
authors.initials: Y
authors.lastname: Lin
authors.forename: Nianli
authors.initials: N
authors.lastname: Zou
authors.forename: Ping
authors.initials: P
authors.lastname: Liu
authors.forename: Yong
authors.initials: Y
authors.lastname: Huang
mesh_terms: D020413:3' Untranslated Regions; D000818:Animals; D001353:Avian Leukosis / Q000821:virology*; D001354:Avian Leukosis Virus / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification / Q000502:physiology; D001483:Base Sequence; D002642:Chick Embryo; D015967:Gene Expression Regulation, Viral; D016679:Genome, Viral; D006391:Hemangioma / Q000662:veterinary* / Q000821:virology; D008969:Molecular Sequence Data; D010802:Phylogeny; D011201:Poultry Diseases / Q000821:virology*; D011533:Proviruses / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification / Q000502:physiology; D017384:Sequence Deletion; D014764:Viral Proteins / Q000235:genetics* / Q000378:metabolism
chemical_list: D020413:3' Untranslated Regions; D014764:Viral Proteins