APOBEC3G and APOBEC3F rarely co-mutate the same HIV genome
<p>Abstract</p> <p>Background</p> <p>The human immune proteins APOBEC3G and APOBEC3F (hA3G and hA3F) induce destructive G-to-A changes in the HIV genome, referred to as ‘hypermutation’. These two proteins co-express in human cells, co-localize to mRNA processing bodies...
| Main Authors: | , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2012-12-01
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| Series: | Retrovirology |
| Subjects: | |
| Online Access: | http://www.retrovirology.com/content/9/1/113 |
| _version_ | 1818386774030811136 |
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| author | Ebrahimi Diako Anwar Firoz Davenport Miles P |
| author_facet | Ebrahimi Diako Anwar Firoz Davenport Miles P |
| author_sort | Ebrahimi Diako |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The human immune proteins APOBEC3G and APOBEC3F (hA3G and hA3F) induce destructive G-to-A changes in the HIV genome, referred to as ‘hypermutation’. These two proteins co-express in human cells, co-localize to mRNA processing bodies and might co-package into HIV virions. Therefore they are expected to also co-mutate the HIV genome. Here we investigate the mutational footprints of hA3G and hA3F in a large population of full genome HIV-1 sequences from naturally infected patients to uniquely identify sequences hypermutated by either or both of these proteins. We develop a method of identification based on the representation of hA3G and hA3F target and product motifs that does not require an alignment to a parental/consensus sequence.</p> <p>Results</p> <p>Out of nearly 100 hypermutated HIV-1 sequences only one sequence from the HIV-1 outlier group showed clear signatures of co-mutation by both proteins. The remaining sequences were affected by either hA3G or hA3F.</p> <p>Conclusion</p> <p>Using a novel method of identification of HIV sequences hypermutated by the hA3G and hA3F enzymes, we report a very low rate of co-mutation of full-length HIV sequences, and discuss the potential mechanisms underlying this.</p> |
| first_indexed | 2024-12-14T03:59:23Z |
| format | Article |
| id | doaj.art-899be68989cd4ecca90bf8f5fb7d2e69 |
| institution | Directory Open Access Journal |
| issn | 1742-4690 |
| language | English |
| last_indexed | 2024-12-14T03:59:23Z |
| publishDate | 2012-12-01 |
| publisher | BMC |
| record_format | Article |
| series | Retrovirology |
| spelling | doaj.art-899be68989cd4ecca90bf8f5fb7d2e692022-12-21T23:18:01ZengBMCRetrovirology1742-46902012-12-019111310.1186/1742-4690-9-113APOBEC3G and APOBEC3F rarely co-mutate the same HIV genomeEbrahimi DiakoAnwar FirozDavenport Miles P<p>Abstract</p> <p>Background</p> <p>The human immune proteins APOBEC3G and APOBEC3F (hA3G and hA3F) induce destructive G-to-A changes in the HIV genome, referred to as ‘hypermutation’. These two proteins co-express in human cells, co-localize to mRNA processing bodies and might co-package into HIV virions. Therefore they are expected to also co-mutate the HIV genome. Here we investigate the mutational footprints of hA3G and hA3F in a large population of full genome HIV-1 sequences from naturally infected patients to uniquely identify sequences hypermutated by either or both of these proteins. We develop a method of identification based on the representation of hA3G and hA3F target and product motifs that does not require an alignment to a parental/consensus sequence.</p> <p>Results</p> <p>Out of nearly 100 hypermutated HIV-1 sequences only one sequence from the HIV-1 outlier group showed clear signatures of co-mutation by both proteins. The remaining sequences were affected by either hA3G or hA3F.</p> <p>Conclusion</p> <p>Using a novel method of identification of HIV sequences hypermutated by the hA3G and hA3F enzymes, we report a very low rate of co-mutation of full-length HIV sequences, and discuss the potential mechanisms underlying this.</p>http://www.retrovirology.com/content/9/1/113Hypermutated HIVAPOBEC3GAPOBEC3FMotif representationG-to-A mutation signature |
| spellingShingle | Ebrahimi Diako Anwar Firoz Davenport Miles P APOBEC3G and APOBEC3F rarely co-mutate the same HIV genome Retrovirology Hypermutated HIV APOBEC3G APOBEC3F Motif representation G-to-A mutation signature |
| title | APOBEC3G and APOBEC3F rarely co-mutate the same HIV genome |
| title_full | APOBEC3G and APOBEC3F rarely co-mutate the same HIV genome |
| title_fullStr | APOBEC3G and APOBEC3F rarely co-mutate the same HIV genome |
| title_full_unstemmed | APOBEC3G and APOBEC3F rarely co-mutate the same HIV genome |
| title_short | APOBEC3G and APOBEC3F rarely co-mutate the same HIV genome |
| title_sort | apobec3g and apobec3f rarely co mutate the same hiv genome |
| topic | Hypermutated HIV APOBEC3G APOBEC3F Motif representation G-to-A mutation signature |
| url | http://www.retrovirology.com/content/9/1/113 |
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