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Items: 47

1.

ISC, a Novel Group of Bacterial and Archaeal DNA Transposons That Encode Cas9 Homologs.

Kapitonov VV, Makarova KS, Koonin EV.

J Bacteriol. 2015 Dec 28;198(5):797-807. doi: 10.1128/JB.00783-15.

2.

Evolution of the RAG1-RAG2 locus: both proteins came from the same transposon.

Kapitonov VV, Koonin EV.

Biol Direct. 2015 Apr 28;10:20. doi: 10.1186/s13062-015-0055-8.

3.

A new family of hybrid virophages from an animal gut metagenome.

Yutin N, Kapitonov VV, Koonin EV.

Biol Direct. 2015 Apr 25;10:19. doi: 10.1186/s13062-015-0054-9.

4.

The ctenophore genome and the evolutionary origins of neural systems.

Moroz LL, Kocot KM, Citarella MR, Dosung S, Norekian TP, Povolotskaya IS, Grigorenko AP, Dailey C, Berezikov E, Buckley KM, Ptitsyn A, Reshetov D, Mukherjee K, Moroz TP, Bobkova Y, Yu F, Kapitonov VV, Jurka J, Bobkov YV, Swore JJ, Girardo DO, Fodor A, Gusev F, Sanford R, Bruders R, Kittler E, Mills CE, Rast JP, Derelle R, Solovyev VV, Kondrashov FA, Swalla BJ, Sweedler JV, Rogaev EI, Halanych KM, Kohn AB.

Nature. 2014 Jun 5;510(7503):109-14. doi: 10.1038/nature13400. Epub 2014 May 21.

5.

Recent expansion of a new Ingi-related clade of Vingi non-LTR retrotransposons in hedgehogs.

Kojima KK, Kapitonov VV, Jurka J.

Mol Biol Evol. 2011 Jan;28(1):17-20. doi: 10.1093/molbev/msq220. Epub 2010 Aug 17.

6.

Ginger DNA transposons in eukaryotes and their evolutionary relationships with long terminal repeat retrotransposons.

Bao W, Kapitonov VV, Jurka J.

Mob DNA. 2010 Jan 25;1(1):3. doi: 10.1186/1759-8753-1-3.

7.

Simple and fast classification of non-LTR retrotransposons based on phylogeny of their RT domain protein sequences.

Kapitonov VV, Tempel S, Jurka J.

Gene. 2009 Dec 15;448(2):207-13. doi: 10.1016/j.gene.2009.07.019. Epub 2009 Aug 3.

8.

New superfamilies of eukaryotic DNA transposons and their internal divisions.

Bao W, Jurka MG, Kapitonov VV, Jurka J.

Mol Biol Evol. 2009 May;26(5):983-93. doi: 10.1093/molbev/msp013. Epub 2009 Jan 27.

9.

The amphioxus genome and the evolution of the chordate karyotype.

Putnam NH, Butts T, Ferrier DE, Furlong RF, Hellsten U, Kawashima T, Robinson-Rechavi M, Shoguchi E, Terry A, Yu JK, Benito-Gutiérrez EL, Dubchak I, Garcia-Fernàndez J, Gibson-Brown JJ, Grigoriev IV, Horton AC, de Jong PJ, Jurka J, Kapitonov VV, Kohara Y, Kuroki Y, Lindquist E, Lucas S, Osoegawa K, Pennacchio LA, Salamov AA, Satou Y, Sauka-Spengler T, Schmutz J, Shin-I T, Toyoda A, Bronner-Fraser M, Fujiyama A, Holland LZ, Holland PW, Satoh N, Rokhsar DS.

Nature. 2008 Jun 19;453(7198):1064-71. doi: 10.1038/nature06967.

PMID:
18563158
10.

A universal classification of eukaryotic transposable elements implemented in Repbase.

Kapitonov VV, Jurka J.

Nat Rev Genet. 2008 May;9(5):411-2; author reply 414. doi: 10.1038/nrg2165-c1. No abstract available.

PMID:
18421312
11.

Transposition of a reconstructed Harbinger element in human cells and functional homology with two transposon-derived cellular genes.

Sinzelle L, Kapitonov VV, Grzela DP, Jursch T, Jurka J, Izsvák Z, Ivics Z.

Proc Natl Acad Sci U S A. 2008 Mar 25;105(12):4715-20. doi: 10.1073/pnas.0707746105. Epub 2008 Mar 13.

12.

The Chlamydomonas genome reveals the evolution of key animal and plant functions.

Merchant SS, Prochnik SE, Vallon O, Harris EH, Karpowicz SJ, Witman GB, Terry A, Salamov A, Fritz-Laylin LK, Maréchal-Drouard L, Marshall WF, Qu LH, Nelson DR, Sanderfoot AA, Spalding MH, Kapitonov VV, Ren Q, Ferris P, Lindquist E, Shapiro H, Lucas SM, Grimwood J, Schmutz J, Cardol P, Cerutti H, Chanfreau G, Chen CL, Cognat V, Croft MT, Dent R, Dutcher S, Fernández E, Fukuzawa H, González-Ballester D, González-Halphen D, Hallmann A, Hanikenne M, Hippler M, Inwood W, Jabbari K, Kalanon M, Kuras R, Lefebvre PA, Lemaire SD, Lobanov AV, Lohr M, Manuell A, Meier I, Mets L, Mittag M, Mittelmeier T, Moroney JV, Moseley J, Napoli C, Nedelcu AM, Niyogi K, Novoselov SV, Paulsen IT, Pazour G, Purton S, Ral JP, Riaño-Pachón DM, Riekhof W, Rymarquis L, Schroda M, Stern D, Umen J, Willows R, Wilson N, Zimmer SL, Allmer J, Balk J, Bisova K, Chen CJ, Elias M, Gendler K, Hauser C, Lamb MR, Ledford H, Long JC, Minagawa J, Page MD, Pan J, Pootakham W, Roje S, Rose A, Stahlberg E, Terauchi AM, Yang P, Ball S, Bowler C, Dieckmann CL, Gladyshev VN, Green P, Jorgensen R, Mayfield S, Mueller-Roeber B, Rajamani S, Sayre RT, Brokstein P, Dubchak I, Goodstein D, Hornick L, Huang YW, Jhaveri J, Luo Y, Martínez D, Ngau WC, Otillar B, Poliakov A, Porter A, Szajkowski L, Werner G, Zhou K, Grigoriev IV, Rokhsar DS, Grossman AR.

Science. 2007 Oct 12;318(5848):245-50.

13.

Helitrons on a roll: eukaryotic rolling-circle transposons.

Kapitonov VV, Jurka J.

Trends Genet. 2007 Oct;23(10):521-9. Epub 2007 Sep 11. Review.

PMID:
17850916
14.

Sea anemone genome reveals ancestral eumetazoan gene repertoire and genomic organization.

Putnam NH, Srivastava M, Hellsten U, Dirks B, Chapman J, Salamov A, Terry A, Shapiro H, Lindquist E, Kapitonov VV, Jurka J, Genikhovich G, Grigoriev IV, Lucas SM, Steele RE, Finnerty JR, Technau U, Martindale MQ, Rokhsar DS.

Science. 2007 Jul 6;317(5834):86-94.

15.

Repetitive sequences in complex genomes: structure and evolution.

Jurka J, Kapitonov VV, Kohany O, Jurka MV.

Annu Rev Genomics Hum Genet. 2007;8:241-59. Review.

PMID:
17506661
16.

Self-synthesizing DNA transposons in eukaryotes.

Kapitonov VV, Jurka J.

Proc Natl Acad Sci U S A. 2006 Mar 21;103(12):4540-5. Epub 2006 Mar 14.

17.

Repbase Update, a database of eukaryotic repetitive elements.

Jurka J, Kapitonov VV, Pavlicek A, Klonowski P, Kohany O, Walichiewicz J.

Cytogenet Genome Res. 2005;110(1-4):462-7. Review.

PMID:
16093699
18.

Clustering, duplication and chromosomal distribution of mouse SINE retrotransposons.

Jurka J, Kohany O, Pavlicek A, Kapitonov VV, Jurka MV.

Cytogenet Genome Res. 2005;110(1-4):117-23.

PMID:
16093663
19.

RAG1 core and V(D)J recombination signal sequences were derived from Transib transposons.

Kapitonov VV, Jurka J.

PLoS Biol. 2005 Jun;3(6):e181. Epub 2005 May 24.

20.

Diversity within the Campylobacter jejuni type I restriction-modification loci.

Miller WG, Pearson BM, Wells JM, Parker CT, Kapitonov VV, Mandrell RE.

Microbiology. 2005 Feb;151(Pt 2):337-51.

PMID:
15699185
21.

The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism.

Armbrust EV, Berges JA, Bowler C, Green BR, Martinez D, Putnam NH, Zhou S, Allen AE, Apt KE, Bechner M, Brzezinski MA, Chaal BK, Chiovitti A, Davis AK, Demarest MS, Detter JC, Glavina T, Goodstein D, Hadi MZ, Hellsten U, Hildebrand M, Jenkins BD, Jurka J, Kapitonov VV, Kröger N, Lau WW, Lane TW, Larimer FW, Lippmeier JC, Lucas S, Medina M, Montsant A, Obornik M, Parker MS, Palenik B, Pazour GJ, Richardson PM, Rynearson TA, Saito MA, Schwartz DC, Thamatrakoln K, Valentin K, Vardi A, Wilkerson FP, Rokhsar DS.

Science. 2004 Oct 1;306(5693):79-86.

22.

Harbinger transposons and an ancient HARBI1 gene derived from a transposase.

Kapitonov VV, Jurka J.

DNA Cell Biol. 2004 May;23(5):311-24.

PMID:
15169610
23.

Duplication, coclustering, and selection of human Alu retrotransposons.

Jurka J, Kohany O, Pavlicek A, Kapitonov VV, Jurka MV.

Proc Natl Acad Sci U S A. 2004 Feb 3;101(5):1268-72. Epub 2004 Jan 21.

24.

HERVd: the Human Endogenous RetroViruses Database: update.

Paces J, Pavlícek A, Zika R, Kapitonov VV, Jurka J, Paces V.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D50.

25.

Molecular paleontology of transposable elements in the Drosophila melanogaster genome.

Kapitonov VV, Jurka J.

Proc Natl Acad Sci U S A. 2003 May 27;100(11):6569-74. Epub 2003 May 12.

26.

A novel class of SINE elements derived from 5S rRNA.

Kapitonov VV, Jurka J.

Mol Biol Evol. 2003 May;20(5):694-702. Epub 2003 Apr 2.

PMID:
12679554
27.

The esterase and PHD domains in CR1-like non-LTR retrotransposons.

Kapitonov VV, Jurka J.

Mol Biol Evol. 2003 Jan;20(1):38-46.

PMID:
12519904
28.

Active Alu elements are passed primarily through paternal germlines.

Jurka J, Krnjajic M, Kapitonov VV, Stenger JE, Kokhanyy O.

Theor Popul Biol. 2002 Jun;61(4):519-30.

PMID:
12167372
29.

PIFs meet Tourists and Harbingers: a superfamily reunion.

Jurka J, Kapitonov VV.

Proc Natl Acad Sci U S A. 2001 Oct 23;98(22):12315-6. No abstract available.

30.

Rolling-circle transposons in eukaryotes.

Kapitonov VV, Jurka J.

Proc Natl Acad Sci U S A. 2001 Jul 17;98(15):8714-9. Epub 2001 Jul 10.

32.

Sectorial mutagenesis by transposable elements.

Jurka J, Kapitonov VV.

Genetica. 1999;107(1-3):239-48.

PMID:
10952215
33.

Molecular paleontology of transposable elements from Arabidopsis thaliana.

Kapitonov VV, Jurka J.

Genetica. 1999;107(1-3):27-37.

PMID:
10952195
35.

The BC200 RNA gene and its neural expression are conserved in Anthropoidea (Primates).

Skryabin BV, Kremerskothen J, Vassilacopoulou D, Disotell TR, Kapitonov VV, Jurka J, Brosius J.

J Mol Evol. 1998 Dec;47(6):677-85.

PMID:
9847409
36.

Mobile genetic elements, chiasmata, and the unique organization of beta-heterochromatin.

Holmquist GP, Kapitonov VV, Jurka J.

Cytogenet Cell Genet. 1998;80(1-4):113-6. Review.

PMID:
9678343
37.

L1 repeat is a basic unit of heterochromatin satellites in cetaceans.

Kapitonov VV, Holmquist GP, Jurka J.

Mol Biol Evol. 1998 May;15(5):611-2. No abstract available.

PMID:
9580992
38.

Identification of new medium reiteration frequency repeats in the genomes of Primates, Rodentia and Lagomorpha.

Jurka J, Kapitonov VV, Klonowski P, Walichiewicz J, Smit AF.

Genetica. 1996-1997;98(3):235-47.

PMID:
9204548
39.

[Order of intron positioning and distant correlations in nucleotide sequences].

Kapitonov VV, Titov II.

Dokl Akad Nauk. 1994 Aug;337(6):810-2. Russian. No abstract available.

PMID:
7981643
40.

[Factors determining the formation of secondary structures of globular proteins].

Solov'ev VV, Salamov AA, Kapitonov VV.

Mol Biol (Mosk). 1991 May-Jun;25(3):795-809. Russian. No abstract available.

PMID:
1944261
41.

[Evolution of Alu repeats: dynamics of distribution in genome].

Shakhmuradov IA, Kapitonov VV, Kolchanov NA, Omel'ianchuk LV.

Genetika. 1989 Sep;25(9):1682-9. Russian.

PMID:
2599377
42.

[Evolution of Alu repeats. Imitation model].

Kapitonov VV, Shakhmuradov IA, Kolchanov IA.

Genetika. 1989 Jun;25(6):1111-8. Russian.

PMID:
2806896
43.

[Distribution of Alu repeats along the human genome: formation of clusters and features of insertion regions].

Shakhmuradov IA, Kolchanov NA, Kapitonov VV.

Mol Biol (Mosk). 1989 Mar-Apr;23(2):526-36. Russian.

PMID:
2549397
44.

[Detection of paired transcription complexes in bacterial chromatin].

Kiseleva EV, Kapitonov VV, Ovchinnikova LP, Khristoliubova NB, Kolchanov NA.

Dokl Akad Nauk SSSR. 1989;305(5):1235-8. Russian. No abstract available.

PMID:
2502370
45.

[Various aspects of evolution of Alu repeats in mammals].

Kolchanov NA, Shakhmuradov IA, Kapitonov VV, Omel'ianchuk LV.

Mol Biol (Mosk). 1988 Sep-Oct;22(5):1335-44. Russian.

PMID:
3221855
47.

[Presence in the mobile genetic elements of regions homologous to the heat shock regulatory site].

Kapitonov VV, Kolchanov NA, Shakhmuradov IA, Solov'ev VV.

Genetika. 1987 Dec;23(12):2112-9. Russian.

PMID:
2831109

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