Human endogenous retrovirus HERV-K(HML-2) activity in prostate cancer is dominated by a few loci

Prostate

Volumn 75, Issue 16, 2015, Pages 1958-1971

  Goering, Wolfgang ^a   Schmitt, Katja ^b   Dostert, Melanie ^a   Schaal, Heiner ^a   Deenen, René ^a   Mayer, Jens ^b   Schulz, Wolfgang A ^a  

^a HEINRICH HEINE UNIVERSITY   (Germany)

^b SAARLAND UNIVERSITY   (Germany)

Author keywords

alternative splicing; androgen receptor; human endogenous retrovirus; next generation sequencing; prostate cancer; transcription factor binding sites

Indexed keywords

ANDROGEN RECEPTOR; PROTEIN ERVK 15; PROTEIN ERVK 24; PROTEIN ERVK 5; PROTEIN HML 2; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG; VIRUS PROTEIN; HERV-K CORF PROTEIN, HUMAN ENDOGENOUS RETROVIRUS K;

APOPTOSIS; ARTICLE; BINDING SITE; CANCER CELL; CELL PROLIFERATION; CHROMOSOME 22Q; CONTROLLED STUDY; ENDOGENOUS RETROVIRUS; GENE LOCUS; GENE SEQUENCE; GENETIC TRANSCRIPTION; GERM CELL TUMOR; HUMAN; HUMAN CELL; HUMAN TISSUE; LONG TERMINAL REPEAT; MALE; NONHUMAN; PRIORITY JOURNAL; PROSTATE CANCER; PROVIRUS; RNA SPLICING; UPREGULATION; ADENOCARCINOMA; CELL SURVIVAL; DISEASE COURSE; GENETICS; METABOLISM; PATHOLOGY; PROSTATE TUMOR;

ADENOCARCINOMA; APOPTOSIS; CELL SURVIVAL; DISEASE PROGRESSION; HUMANS; MALE; PROSTATIC NEOPLASMS; VIRAL PROTEINS;

EID: 84944441330     PISSN: 02704137     EISSN: 10970045     Source Type: Journal    
DOI: 10.1002/pros.23095     Document Type: Article

References (46)

1. Bannert N, Kurth R,. Retroelements and the human genome: New perspectives on an old relation. Proc Natl Acad Sci USA 2004; 101: 14572-14579.
2. Mayer J, Meese E, Mueller-Lantzsch N,. Human endogenous retrovirus K homologous sequences and their ding capacity in Old World primates. J Virol 1998; 72: 1870-1875.
3. Reus K, Mayer J, Sauter M, Zischler H, Muller-Lantzsch N, Meese E,. HERV-K(OLD): Ancestor sequences of the human endogenous retrovirus family HERV-K(HML-2). J Virol 2001; 75: 8917-8926.
4. Belshaw R, Dawson AL, Woolven-Allen J, Redding J, Burt A, Tristem M,. Genomewide screening reveals high levels of insertional polymorphism in the human endogenous retrovirus family HERV-K(HML2): Implications for present-day activity. J Virol 2005; 79: 12507-12514.
5. Belshaw R, Pereira V, Katzourakis A, Talbot G, Paces J, Burt A, Tristem M,. Long-term reinfection of the human genome by endogenous retroviruses. Proc Natl Acad Sci USA 2004; 101: 4894-4899.
6. Downey RF, Sullivan FJ, Wang-Johanning F, Ambs S, Giles FJ, Glynn SA,. Human endogenous retrovirus K and cancer: Innocent bystander or tumorigenic accomplice? Int J Cancer 2015; 137: 1249-1257.
7. Subramanian RP, Wildschutte JH, Russo C, Coffin JM, Identification, Characterization, and mparative genomic distribution of the HERV-K (HML-2) group of human endogenous retroviruses. Retrovirology 2011; 8: 90.
8. Turner G, Barbulescu M, Su M, Jensen-Seaman MI, Kidd KK, Lenz J,. Insertional polymorphisms of full-length endogenous retroviruses in humans. Curr Biol 2001; 11: 1531-1535.
9. Moyes DL, Martin A, Sawcer S, Temperton N, Worthington J, Griffiths DJ, Venables PJ,. The distribution of the endogenous retroviruses HERV-K113 and HERV-K115 in health and disease. Genomics 2005; 86: 337-341.
10. Macfarlane CM, Badge RM., Genome-wide amplification of proviral sequences reveals new polymorphic HERV-K(HML-2) proviruses in humans and chimpanzees that are absent from genome assemblies. Retrovirology 12 2015; 35.
11. Marchi E, Kanapin A, Magiorkinis G, Belshaw R,. Unfixed endogenous retroviral insertions in the human population. J Virol 2014; 88: 9529-9537.
12. Lawrence MG, Stephens CR, Need EF, Lai J, Buchanan G, Clements JA,. Long terminal repeats act as androgen-responsive enhancers for the PSA-kallikrein locus. Endocrinology 2012; 153: 3199-3210.
13. Ohnuki M, Tanabe K, Sutou K, Teramoto I, Sawamura Y, Narita M, Nakamura M, Tokunaga Y, Nakamura M, Watanabe A, Yamanaka S, Takahashi K,. Dynamic regulation of human endogenous retroviruses mediates factor-induced reprogramming and differentiation potential. Proc Natl Acad Sci USA 2014; 111: 12426-12431.
14. Hohn O, Hanke K, Bannert N,. HERV-K(HML-2), the best preserved family of HERVs: Endogenization, expression, and implications in health and disease. Front Oncol 2013; 3: 246.
15. Mayer J, Blomberg J, Seal RL,. A revised nomenclature for transcribed human endogenous retroviral loci. Mob DNA 2011; 2: 7.
16. Goering W, Ribarska T, Schulz WA,. Selective changes of retroelement expression in human prostate cancer. Carcinogenesis 2011; 32: 1484-1492.
17. Flockerzi A, Ruggieri A, Frank O, Sauter M, Maldener E, Kopper B, Wullich B, Seifarth W, Muller-Lantzsch N, Leib-Mosch C, Meese E, Mayer J,. Expression patterns of transcribed human endogenous retrovirus HERV-K(HML-2) loci in human tissues and the need for a HERV Transcriptome Project. BMC Genomics 2008; 9: 354.
18. Kreimer U, Schulz WA, Koch A, Niegisch G, Goering W,. HERV-K and LINE-1 DNA methylation and reexpression in urothelial carcinoma. Front Oncol 2013; 3: 255.
19. Ishida T, Obata Y, Ohara N, Matsushita H, Sato S, Uenaka A, Saika T, Miyamura T, Chayama K, Nakamura Y, Wada H, Yamashita T, Morishima T, Old LJ, Nakayama E,. Identification of the HERV-K gag antigen in prostate cancer by SEREX using autologous patient serum and its immunogenicity. Cancer Immun 2008; 8: 15.
20. Reis BS, Jungbluth AA, Frosina D, Holz M, Ritter E, Nakayama E, Ishida T, Obata Y, Carver B, Scher H, Scardino PT, Slovin S, Subudhi SK, Reuter VE, Savage C, Allison JP, Melamed J, Jager E, Ritter G, Old LJ, Gnjatic S,. Prostate cancer progression rrelates with increased humoral immune response to a human endogenous retrovirus GAG protein. Clin Cancer Res 2013; 19: 6112-6125.
21. Tomlins SA, Laxman B, Dhanasekaran SM, Helgeson BE, Cao X, Morris DS, Menon A, Jing X, Cao Q, Han B, Yu J, Wang L, Montie JE, Rubin MA, Pienta KJ, Roulston D, Shah RB, Varambally S, Mehra R, Chinnaiyan AM,. Distinct classes of chromosomal rearrangements create oncogenic ETS gene fusions in prostate cancer. Nature 2007; 448: 595-599.
22. Ruprecht K, Mayer J, Sauter M, Roemer K, Mueller-Lantzsch N,. Endogenous retroviruses and cancer. Cell Mol Life Sci 2008; 65: 3366-3382.
23. Hanke K, Chudak C, Kurth R, Bannert N,. The Rec protein of HERV-K(HML-2) upregulates androgen receptor activity by binding to the human small glutamine-rich tetratricopeptide repeat protein (hSGT). Int J Cancer 2013; 132: 556-567.
24. Kaufmann S, Sauter M, Schmitt M, Baumert B, Best B, Boese A, Roemer K, Mueller-Lantzsch N,. Human endogenous retrovirus protein Rec interacts with the testicular zinc-finger protein and androgen receptor. J Gen Virol 2010; 91: 1494-1502.
25. Schmitt K, Reichrath J, Roesch A, Meese E, Mayer J,. Transcriptional profiling of human endogenous retrovirus grou p HERV-K (HML-2) loci in melanoma. Genome Biol Evol 2013; 5: 307-328.
26. Florl AR, Steinhoff C, Muller M, Seifert HH, Hader C, Engers R, Ackermann R, Schulz WA,. Coordinate hypermethylation at specific genes in prostate carcinoma precedes LINE-1 hypomethylation. Br J Cancer 2004; 91: 985-994.
27. Koch A, Hatina J, Rieder H, Seifert HH, Huckenbeck W, Jankowiak F, Florl AR, Stoehr R, Schulz WA,. Discovery of TP53 splice variants in two novel papillary urothelial cancer cell lines. Cell Oncol (Dordr) 2012; 35: 243-257.
28. Katoh K, Misawa K, Kuma K, Miyata T,. MAFFT: A novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res 2002; 30: 3059-3066.
29. Kent WJ, Sugnet CW, Furey TS, Roskin KM, Pringle TH, Zahler AM, Haussler D,. The human genome browser at UCSC. Genome Res 2002; 12: 996-1006.
30. Pfaffl MW,. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res 2001; 29: e45.
31. Freund M, Asang C, Kammler S, Konermann C, Krummheuer J, Hipp M, Meyer I, Gierling W, Theiss S, Preuss T, Schindler D, Kjems J, Schaal H,. A novel approach to describe a U1 snRNA binding site. Nucleic Acids Res 2003; 31: 6963-6975.
32. Yeo G, Burge CB,. Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals. J Comput Biol 2004; 11: 377-394.
33. Kent WJ,. BLAT-the BLAST-like alignment tool. Genome Res 2002; 12: 656-664.
34. Hermans KG, van der Korput HA, van Marion R, van de Wijngaart DJ, Ziel-van der Made A, Dits NF, Boormans JL, van der Kwast TH, van Dekken H, Bangma CH, Korsten H, Kraaij R, Jenster G, Trapman J,. Truncated ETV1, fused to novel tissue-specific genes, and full-length ETV1 in prostate cancer. Cancer Res 2008; 68: 7541-7549.
35. Manke T, Roider HG, Vingron M,. Statistical modeling of transcription factor binding affinities predicts regulatory interactions. PLoS Comput Biol 2008; 4: e1000039.
36. Warnatz HJ, Querfurth R, Guerasimova A, Cheng X, Haas SA, Hufton AL, Manke T, Vanhecke D, Nietfeld W, Vingron M, Janitz M, Lehrach H, Yaspo ML,. Functional analysis and identification of cis-regulatory elements of human chromosome 21 gene promoters. Nucleic Acids Res 2010; 38: 6112-6123.
37. Wallace TA, Downey RF, Seufert CJ, Schetter A, Dorsey TH, Johnson CA, Goldman R, Loffredo CA, Yan P, Sullivan FJ, Giles FJ, Wang-Johanning F, Ambs S, Glynn SA,. Elevated HERV-K mRNA expression in PBMC is associated with a prostate cancer diagnosis particularly in older men and smokers. Carcinogenesis 2014; 35: 2074-2083.
38. Agoni L, Guha C, Lenz J,. Detection of Human Endogenous Retrovirus K (HERV-K) transcripts in human prostate cancer cell lines. Front Oncol 2013; 3: 180.
39. Perot P, Cheynet V, Decaussin-Petrucci M, Oriol G, Mugnier N, Rodriguez-Lafrasse C, Ruffion A, Mallet F,. Microarray-based identification of individual HERV loci expression: Application to biomarker discovery in prostate cancer. J Vis Exp 2013; e50713.
40. Bhardwaj N, Montesion M, Roy F, Coffin JM,. Differential expression of HERV-K (HML-2) proviruses in cells and virions of the teratocarcinoma cell line Tera-1. Viruses 2015; 7: 939-968.
41. Fuchs NV, Kraft M, Tondera C, Hanschmann KM, Lower J, Lower R,. Expression of the human endogenous retrovirus (HERV) group HML-2 /HERV-K does not depend on canonical promoter elements but is regulated by transcription factors Sp1 and Sp3. J Virol 2011; 85: 3436-3448.
42. Kovalskaya E, Buzdin A, Gogvadze E, Vinogradova T, Sverdlov E,. Functional human endogenous retroviral LTR transcription start sites are located between the R and U5 regions. Virology 2006; 346: 373-378.
43. Erkelenz S, Hillebrand F, Widera M, Theiss S, Fayyaz A, Degrandi D, Pfeffer K, Schaal H,. Balanced splicing at the Tat-specific HIV-1 3'ss A3 is critical for HIV-1 replication. Retrovirology 2015; 12: 29.
44. Widera M, Hillebrand F, Erkelenz S, Vasudevan AA, Munk C, Schaal H,. A functionally conserved intronic G run in HIV-1 intron 3 is critical to interact APOBEC3G-mediated host restriction. Retrovirology 2014; 11: 72.
45. Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL,. Integrative annotation of human large intergenic coding RNAs reveals global properties and specific classes. Genes Dev 2011; 25: 1915-1927.
46. Prensner JR, Iyer MK, Balbin OA, Dhanasekaran SM, Cao Q, Brenner JC, Laxman B, Asangani IA, Grasso CS, Kominsky HD, Cao X, Jing X, Wang X, Siddiqui J, Wei JT, Robinson D, Iyer HK, Palanisamy N, Maher CA, Chinnaiyan AM,. Transcriptome sequencing across a prostate cancer hort identifies PCAT-1, an unannotated lincRNA implicated in disease progression. Nat Biotechnol 2011; 29: 742-749.