Literature DB >> 18629260

Endogenous retroviruses and human evolution.

Konstantin Khodosevich1, Yuri Lebedev, Eugene Sverdlov.   

Abstract

Humans share about 99% of their genomic DNA with chimpanzees and bonobos; thus, the differences between these species are unlikely to be in gene content but could be caused by inherited changes in regulatory systems. Endogenous retroviruses (ERVs) comprise approximately 5% of the human genome. The LTRs of ERVs contain many regulatory sequences, such as promoters, enhancers, polyadenylation signals and factor-binding sites. Thus, they can influence the expression of nearby human genes. All known human-specific LTRs belong to the HERV-K (human ERV) family, the most active family in the human genome. It is likely that some of these ERVs could have integrated into regulatory regions of the human genome, and therefore could have had an impact on the expression of adjacent genes, which have consequently contributed to human evolution. This review discusses possible functional consequences of ERV integration in active coding regions.

Entities:  

Year:  2002        PMID: 18629260      PMCID: PMC2448423          DOI: 10.1002/cfg.216

Source DB:  PubMed          Journal:  Comp Funct Genomics        ISSN: 1531-6912


  24 in total

1.  Initial sequencing and analysis of the human genome.

Authors:  E S Lander; L M Linton; B Birren; C Nusbaum; M C Zody; J Baldwin; K Devon; K Dewar; M Doyle; W FitzHugh; R Funke; D Gage; K Harris; A Heaford; J Howland; L Kann; J Lehoczky; R LeVine; P McEwan; K McKernan; J Meldrim; J P Mesirov; C Miranda; W Morris; J Naylor; C Raymond; M Rosetti; R Santos; A Sheridan; C Sougnez; Y Stange-Thomann; N Stojanovic; A Subramanian; D Wyman; J Rogers; J Sulston; R Ainscough; S Beck; D Bentley; J Burton; C Clee; N Carter; A Coulson; R Deadman; P Deloukas; A Dunham; I Dunham; R Durbin; L French; D Grafham; S Gregory; T Hubbard; S Humphray; A Hunt; M Jones; C Lloyd; A McMurray; L Matthews; S Mercer; S Milne; J C Mullikin; A Mungall; R Plumb; M Ross; R Shownkeen; S Sims; R H Waterston; R K Wilson; L W Hillier; J D McPherson; M A Marra; E R Mardis; L A Fulton; A T Chinwalla; K H Pepin; W R Gish; S L Chissoe; M C Wendl; K D Delehaunty; T L Miner; A Delehaunty; J B Kramer; L L Cook; R S Fulton; D L Johnson; P J Minx; S W Clifton; T Hawkins; E Branscomb; P Predki; P Richardson; S Wenning; T Slezak; N Doggett; J F Cheng; A Olsen; S Lucas; C Elkin; E Uberbacher; M Frazier; R A Gibbs; D M Muzny; S E Scherer; J B Bouck; E J Sodergren; K C Worley; C M Rives; J H Gorrell; M L Metzker; S L Naylor; R S Kucherlapati; D L Nelson; G M Weinstock; Y Sakaki; A Fujiyama; M Hattori; T Yada; A Toyoda; T Itoh; C Kawagoe; H Watanabe; Y Totoki; T Taylor; J Weissenbach; R Heilig; W Saurin; F Artiguenave; P Brottier; T Bruls; E Pelletier; C Robert; P Wincker; D R Smith; L Doucette-Stamm; M Rubenfield; K Weinstock; H M Lee; J Dubois; A Rosenthal; M Platzer; G Nyakatura; S Taudien; A Rump; H Yang; J Yu; J Wang; G Huang; J Gu; L Hood; L Rowen; A Madan; S Qin; R W Davis; N A Federspiel; A P Abola; M J Proctor; R M Myers; J Schmutz; M Dickson; J Grimwood; D R Cox; M V Olson; R Kaul; C Raymond; N Shimizu; K Kawasaki; S Minoshima; G A Evans; M Athanasiou; R Schultz; B A Roe; F Chen; H Pan; J Ramser; H Lehrach; R Reinhardt; W R McCombie; M de la Bastide; N Dedhia; H Blöcker; K Hornischer; G Nordsiek; R Agarwala; L Aravind; J A Bailey; A Bateman; S Batzoglou; E Birney; P Bork; D G Brown; C B Burge; L Cerutti; H C Chen; D Church; M Clamp; R R Copley; T Doerks; S R Eddy; E E Eichler; T S Furey; J Galagan; J G Gilbert; C Harmon; Y Hayashizaki; D Haussler; H Hermjakob; K Hokamp; W Jang; L S Johnson; T A Jones; S Kasif; A Kaspryzk; S Kennedy; W J Kent; P Kitts; E V Koonin; I Korf; D Kulp; D Lancet; T M Lowe; A McLysaght; T Mikkelsen; J V Moran; N Mulder; V J Pollara; C P Ponting; G Schuler; J Schultz; G Slater; A F Smit; E Stupka; J Szustakowki; D Thierry-Mieg; J Thierry-Mieg; L Wagner; J Wallis; R Wheeler; A Williams; Y I Wolf; K H Wolfe; S P Yang; R F Yeh; F Collins; M S Guyer; J Peterson; A Felsenfeld; K A Wetterstrand; A Patrinos; M J Morgan; P de Jong; J J Catanese; K Osoegawa; H Shizuya; S Choi; Y J Chen; J Szustakowki
Journal:  Nature       Date:  2001-02-15       Impact factor: 49.962

Review 2.  Evolution at two levels in humans and chimpanzees.

Authors:  M C King; A C Wilson
Journal:  Science       Date:  1975-04-11       Impact factor: 47.728

Review 3.  Retroviruses and primate evolution.

Authors:  E D Sverdlov
Journal:  Bioessays       Date:  2000-02       Impact factor: 4.345

4.  Differences in HERV-K LTR insertions in orthologous loci of humans and great apes.

Authors:  Y B Lebedev; O S Belonovitch; N V Zybrova; P P Khil; S G Kurdyukov; T V Vinogradova; G Hunsmann; E D Sverdlov
Journal:  Gene       Date:  2000-04-18       Impact factor: 3.688

Review 5.  Genetic differences between humans and great apes.

Authors:  P Gagneux; A Varki
Journal:  Mol Phylogenet Evol       Date:  2001-01       Impact factor: 4.286

6.  Long terminal repeats are used as alternative promoters for the endothelin B receptor and apolipoprotein C-I genes in humans.

Authors:  P Medstrand; J R Landry; D L Mager
Journal:  J Biol Chem       Date:  2000-10-27       Impact factor: 5.157

7.  Cell type-specific expression and promoter activity of human endogenous retroviral long terminal repeats.

Authors:  U Schön; W Seifarth; C Baust; C Hohenadl; V Erfle; C Leib-Mösch
Journal:  Virology       Date:  2001-01-05       Impact factor: 3.616

8.  Identification and characterization of novel human endogenous retrovirus families by phylogenetic screening of the human genome mapping project database.

Authors:  M Tristem
Journal:  J Virol       Date:  2000-04       Impact factor: 5.103

9.  Syncytin is a captive retroviral envelope protein involved in human placental morphogenesis.

Authors:  S Mi; X Lee; X Li; G M Veldman; H Finnerty; L Racie; E LaVallie; X Y Tang; P Edouard; S Howes; J C Keith; J M McCoy
Journal:  Nature       Date:  2000-02-17       Impact factor: 49.962

10.  Many human endogenous retrovirus K (HERV-K) proviruses are unique to humans.

Authors:  M Barbulescu; G Turner; M I Seaman; A S Deinard; K K Kidd; J Lenz
Journal:  Curr Biol       Date:  1999-08-26       Impact factor: 10.834

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  21 in total

1.  Large-scale determination of the methylation status of retrotransposons in different tissues using a methylation tags approach.

Authors:  Konstantin Khodosevich; Yuri Lebedev; Eugene D Sverdlov
Journal:  Nucleic Acids Res       Date:  2004-02-18       Impact factor: 16.971

2.  A systematic evaluation of expression of HERV-W elements; influence of genomic context, viral structure and orientation.

Authors:  Fang Li; Christoffer Nellåker; Robert H Yolken; Håkan Karlsson
Journal:  BMC Genomics       Date:  2011-01-12       Impact factor: 3.969

3.  Transposable element dysregulation in systemic lupus erythematosus and regulation by histone conformation and Hsp90.

Authors:  Maurer Kelly; Shi Lihua; Zhang Zhe; Song Li; Paucar Yoselin; Petri Michelle; E Sullivan Kathleen
Journal:  Clin Immunol       Date:  2018-08-24       Impact factor: 3.969

Review 4.  Evolution of genetic and genomic features unique to the human lineage.

Authors:  Majesta O'Bleness; Veronica B Searles; Ajit Varki; Pascal Gagneux; James M Sikela
Journal:  Nat Rev Genet       Date:  2012-12       Impact factor: 53.242

Review 5.  Retrotransposon-associated long non-coding RNAs in mice and men.

Authors:  Sravya Ganesh; Petr Svoboda
Journal:  Pflugers Arch       Date:  2016-04-05       Impact factor: 3.657

6.  Schizophrenia: a pathogenetic autoimmune disease caused by viruses and pathogens and dependent on genes.

Authors:  C J Carter
Journal:  J Pathog       Date:  2011-05-26

7.  Alzheimer's disease: a pathogenetic autoimmune disorder caused by herpes simplex in a gene-dependent manner.

Authors:  C J Carter
Journal:  Int J Alzheimers Dis       Date:  2010-12-29

Review 8.  Viral ancestors of antiviral systems.

Authors:  Luis P Villarreal
Journal:  Viruses       Date:  2011-10-20       Impact factor: 5.048

9.  Human-specific HERV-K insertion causes genomic variations in the human genome.

Authors:  Wonseok Shin; Jungnam Lee; Seung-Yeol Son; Kung Ahn; Heui-Soo Kim; Kyudong Han
Journal:  PLoS One       Date:  2013-04-12       Impact factor: 3.240

10.  Expression-analysis of the human endogenous retrovirus HERV-K in human astrocytic tumors.

Authors:  Almuth Friederike Kessler; Miriam Wiesner; Joachim Denner; Ulrike Kämmerer; Giles Hamilton Vince; Thomas Linsenmann; Mario Löhr; Ralf-Ingo Ernestus; Carsten Hagemann
Journal:  BMC Res Notes       Date:  2014-03-19
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