Abstract
About 10 % of the mouse genome is occupied by sequences associated with endogenous retroviruses (ERVs). However, a comprehensive profile of the mouse ERVs and related elements has not been established yet. In this study, we identified a group of ERVs from the mouse genome and characterized their biological properties. Using a custom ERV mining protocol, 191 ERVs (159 loci reported previously and 32 new loci), tentatively named Mus dunni endogenous virus (MDEV)-like ERVs (MDL-ERVs), were mapped on the C57BL/6J mouse genome. Seven of them retained putative full coding potentials for three retroviral polypeptides (gag, pol, and env). Among the 57 mouse strains examined, all but the Mus pahari/Ei strain had PCR amplicons corresponding to a conserved MDL-ERV region. Interestingly, the Mus caroli/EiJ's amplicon was somewhat larger than the others, coinciding with a substantial phylogenetic distance between the MDL-ERV populations of M. caroli/EiJ and C57BL/6J strains. MDL-ERVs were highly expressed in the lung, spleen, and thymus of C57BL/6J mice compared to the brain, heart, kidney, and liver. Seven MDL-ERVs were mapped in the introns of six annotated genes. Of interest, some MDL-ERVs were mapped periodically on three clusters in chromosome X. The finding that these MDL-ERVs were one of several types of retroelements, which form mosaic-repeat units of tandem arrays, suggests that the formation of the mosaic-repeat unit preceded the tandem arrangement event. Further studies are warranted to understand the biological roles of MDL-ERVs in both normal and pathologic conditions.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 859-874 |
| Number of pages | 16 |
| Journal | Chromosome Research |
| Volume | 20 |
| Issue number | 7 |
| DOIs | |
| State | Published - Oct 2012 |
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Keywords
- Expression
- Gammaretrovirus-like ERVs
- Genome organization
- MDEV-like ERVs
ASJC Scopus subject areas
- Genetics
Cite this
Identification of a group of Mus dunni endogenous virus-like endogenous retroviruses from the C57BL/6J mouse genome : Proviral genomes, strain distribution, expression characteristics, and genomic integration profile. / Lee, Kang Hoon; You, Ri Na; Greenhalgh, David G; Cho, Kiho.
In: Chromosome Research, Vol. 20, No. 7, 10.2012, p. 859-874.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Identification of a group of Mus dunni endogenous virus-like endogenous retroviruses from the C57BL/6J mouse genome
T2 - Proviral genomes, strain distribution, expression characteristics, and genomic integration profile
AU - Lee, Kang Hoon
AU - You, Ri Na
AU - Greenhalgh, David G
AU - Cho, Kiho
PY - 2012/10
Y1 - 2012/10
N2 - About 10 % of the mouse genome is occupied by sequences associated with endogenous retroviruses (ERVs). However, a comprehensive profile of the mouse ERVs and related elements has not been established yet. In this study, we identified a group of ERVs from the mouse genome and characterized their biological properties. Using a custom ERV mining protocol, 191 ERVs (159 loci reported previously and 32 new loci), tentatively named Mus dunni endogenous virus (MDEV)-like ERVs (MDL-ERVs), were mapped on the C57BL/6J mouse genome. Seven of them retained putative full coding potentials for three retroviral polypeptides (gag, pol, and env). Among the 57 mouse strains examined, all but the Mus pahari/Ei strain had PCR amplicons corresponding to a conserved MDL-ERV region. Interestingly, the Mus caroli/EiJ's amplicon was somewhat larger than the others, coinciding with a substantial phylogenetic distance between the MDL-ERV populations of M. caroli/EiJ and C57BL/6J strains. MDL-ERVs were highly expressed in the lung, spleen, and thymus of C57BL/6J mice compared to the brain, heart, kidney, and liver. Seven MDL-ERVs were mapped in the introns of six annotated genes. Of interest, some MDL-ERVs were mapped periodically on three clusters in chromosome X. The finding that these MDL-ERVs were one of several types of retroelements, which form mosaic-repeat units of tandem arrays, suggests that the formation of the mosaic-repeat unit preceded the tandem arrangement event. Further studies are warranted to understand the biological roles of MDL-ERVs in both normal and pathologic conditions.
AB - About 10 % of the mouse genome is occupied by sequences associated with endogenous retroviruses (ERVs). However, a comprehensive profile of the mouse ERVs and related elements has not been established yet. In this study, we identified a group of ERVs from the mouse genome and characterized their biological properties. Using a custom ERV mining protocol, 191 ERVs (159 loci reported previously and 32 new loci), tentatively named Mus dunni endogenous virus (MDEV)-like ERVs (MDL-ERVs), were mapped on the C57BL/6J mouse genome. Seven of them retained putative full coding potentials for three retroviral polypeptides (gag, pol, and env). Among the 57 mouse strains examined, all but the Mus pahari/Ei strain had PCR amplicons corresponding to a conserved MDL-ERV region. Interestingly, the Mus caroli/EiJ's amplicon was somewhat larger than the others, coinciding with a substantial phylogenetic distance between the MDL-ERV populations of M. caroli/EiJ and C57BL/6J strains. MDL-ERVs were highly expressed in the lung, spleen, and thymus of C57BL/6J mice compared to the brain, heart, kidney, and liver. Seven MDL-ERVs were mapped in the introns of six annotated genes. Of interest, some MDL-ERVs were mapped periodically on three clusters in chromosome X. The finding that these MDL-ERVs were one of several types of retroelements, which form mosaic-repeat units of tandem arrays, suggests that the formation of the mosaic-repeat unit preceded the tandem arrangement event. Further studies are warranted to understand the biological roles of MDL-ERVs in both normal and pathologic conditions.
KW - Expression
KW - Gammaretrovirus-like ERVs
KW - Genome organization
KW - MDEV-like ERVs
UR - http://www.scopus.com/inward/record.url?scp=84875886858&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84875886858&partnerID=8YFLogxK
U2 - 10.1007/s10577-012-9322-z
DO - 10.1007/s10577-012-9322-z
M3 - Article
C2 - 23197326
AN - SCOPUS:84875886858
VL - 20
SP - 859
EP - 874
JO - Chromosome Research
JF - Chromosome Research
SN - 0967-3849
IS - 7
ER -