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Full-length HERV-H elements with env SU open reading frames in the human genome

Jern, Patric; Lindeskog, Mats LU ; Karlsson, Damita and Blomberg, Jonas (2002) In AIDS Research and Human Retroviruses 18(9). p.671-676
Abstract
Human endogenous retroviruses (HERVs) are estimated to represent at least 1% of the human genome. An HERV-H env SU sequence (HERV-H19) was used to screen the high-throughput (htgs) and nonredundant (nr) databases for other HERV-H SU open reading frames (ORFs) and thus possible functional proteins. Using PCR with primers derived from HERV-H19 SU, we also obtained several new sequences with ORFs from a human DNA sample. In a phylogenetic analysis, ORF-containing sequences clustered with HERV-H sequences from chromosomes 1 and 2. SU ORF- and non-SU ORF-containing elements had about the same difference between 5' and 3' long terminal repeats (LTRs) (about 4%), indicating a similar time of integration. SU ORF sequences had a moderately high... (More)
Human endogenous retroviruses (HERVs) are estimated to represent at least 1% of the human genome. An HERV-H env SU sequence (HERV-H19) was used to screen the high-throughput (htgs) and nonredundant (nr) databases for other HERV-H SU open reading frames (ORFs) and thus possible functional proteins. Using PCR with primers derived from HERV-H19 SU, we also obtained several new sequences with ORFs from a human DNA sample. In a phylogenetic analysis, ORF-containing sequences clustered with HERV-H sequences from chromosomes 1 and 2. SU ORF- and non-SU ORF-containing elements had about the same difference between 5' and 3' long terminal repeats (LTRs) (about 4%), indicating a similar time of integration. SU ORF sequences had a moderately high number of synonymous-versus-nonsynonymous mutations, which indicates a selection for maintenance of the HERV-H SU ORFs. (Less)
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organization
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type
Contribution to journal
publication status
published
subject
in
AIDS Research and Human Retroviruses
volume
18
issue
9
pages
671 - 676
publisher
Mary Ann Liebert, Inc.
external identifiers
  • pmid:12079564
  • wos:000176104600009
  • scopus:0036434126
ISSN
1931-8405
DOI
10.1089/088922202760019383
language
English
LU publication?
yes
id
f0c36658-1d89-437b-b7ea-78c0fb6625c1 (old id 335622)
date added to LUP
2007-10-24 16:10:29
date last changed
2017-01-01 04:23:41
@article{f0c36658-1d89-437b-b7ea-78c0fb6625c1,
  abstract     = {Human endogenous retroviruses (HERVs) are estimated to represent at least 1% of the human genome. An HERV-H env SU sequence (HERV-H19) was used to screen the high-throughput (htgs) and nonredundant (nr) databases for other HERV-H SU open reading frames (ORFs) and thus possible functional proteins. Using PCR with primers derived from HERV-H19 SU, we also obtained several new sequences with ORFs from a human DNA sample. In a phylogenetic analysis, ORF-containing sequences clustered with HERV-H sequences from chromosomes 1 and 2. SU ORF- and non-SU ORF-containing elements had about the same difference between 5' and 3' long terminal repeats (LTRs) (about 4%), indicating a similar time of integration. SU ORF sequences had a moderately high number of synonymous-versus-nonsynonymous mutations, which indicates a selection for maintenance of the HERV-H SU ORFs.},
  author       = {Jern, Patric and Lindeskog, Mats and Karlsson, Damita and Blomberg, Jonas},
  issn         = {1931-8405},
  language     = {eng},
  number       = {9},
  pages        = {671--676},
  publisher    = {Mary Ann Liebert, Inc.},
  series       = {AIDS Research and Human Retroviruses},
  title        = {Full-length HERV-H elements with env SU open reading frames in the human genome},
  url          = {http://dx.doi.org/10.1089/088922202760019383},
  volume       = {18},
  year         = {2002},
}