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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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author
; ; and
organization
publishing date
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
additional info
The information about affiliations in this record was updated in December 2015. The record was previously connected to the following departments: Virology (013017520)
id
f0c36658-1d89-437b-b7ea-78c0fb6625c1 (old id 335622)
date added to LUP
2016-04-01 11:38:16
date last changed
2022-01-26 07:59:56
@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}},
  doi          = {{10.1089/088922202760019383}},
  volume       = {{18}},
  year         = {{2002}},
}