Works matching AU Kojima, Kenji K.

Results: 38

Identification of rDNA-Specific Non-LTR Retrotransposons in Cnidaria.

Published in:

Molecular Biology & Evolution, 2006, v. 23, n. 10, p. 1984, doi. 10.1093/molbev/msl067

By:

Kojima, Kenji K.;
Kuma, Kei-ichi;
Toh, Hiroyuki;
Fujiwara, Haruhiko

Publication type:

Article

Long-Term Inheritance of the 28S rDNA-Specific Retrotransposon R2.

Published in:

Molecular Biology & Evolution, 2005, v. 22, n. 11, p. 2157, doi. 10.1093/molbev/msi210

By:

Kojima, Kenji K.;
Fujiwara, Haruhiko

Publication type:

Article

Cross-Genome Screening of Novel Sequence-Specific Non-LTR Retrotransposons: Various Multicopy RNA Genes and Microsatellites Are Selected as Targets.

Published in:

Molecular Biology & Evolution, 2004, v. 21, n. 2, p. 207

By:

Kojima, Kenji K.;
Fujiwara, Haruhiko

Publication type:

Article

Evolution of Target Specificity in R1 Clade Non-LTR Retrotransposons.

Published in:

Molecular Biology & Evolution, 2003, v. 20, n. 3, p. 351, doi. 10.1093/molbev/msg031

By:

Kojima, Kenji K.;
Fujiwara, Haruhiko

Publication type:

Article

Whole chromosome elimination and chromosome terminus elimination both contribute to somatic differentiation in Taiwanese hagfish Paramyxine sheni.

Published in:

Chromosome Research, 2010, v. 18, n. 3, p. 383, doi. 10.1007/s10577-010-9122-2

By:

Kojima, Noriko F.;
Kojima, Kenji K.;
Kobayakawa, Shuichi;
Higashide, Naoki;
Hamanaka, Chiemi;
Nitta, Ayumi;
Koeda, Ikuyo;
Yamaguchi, Toru;
Shichiri, Motoharu;
Kohno, Sei-ichi;
Kubota, Souichirou

Publication type:

Article

Daidara: A gigantic Gypsy LTR retrotransposon lineage in the springtail Allacma fusca genome.

Published in:

Genes to Cells, 2023, v. 28, n. 10, p. 746, doi. 10.1111/gtc.13062

By:

Kojima, Kenji K.

Publication type:

Article

Complex and Tandem Repeat Structure of Subtelomeric Regions in the Taiwan Cricket, Teleogryllus taiwanemma.

Published in:

Journal of Molecular Evolution, 2002, v. 54, n. 4, p. 474, doi. 10.1007/s00239-001-0038-5

By:

Kojima, Kenji K.;
Kubo, Yoko;
Fujiwara, Haruhiko

Publication type:

Article

A unique eukaryotic lineage of composite-like DNA transposons encoding a DDD/E transposase and a His-Me finger homing endonuclease.

Published in:

Mobile DNA, 2022, v. 13, n. 1, p. 1, doi. 10.1186/s13100-022-00281-3

By:

Kojima, Kenji K.;
Bao, Weidong

Publication type:

Article

Hagfish genome reveals parallel evolution of 7SL RNA-derived SINEs.

Published in:

Mobile DNA, 2020, v. 11, n. 1, p. 1, doi. 10.1186/s13100-020-00210-2

By:

Kojima, Kenji K.

Publication type:

Article

AcademH, a lineage of Academ DNA transposons encoding helicase found in animals and fungi.

Published in:

Mobile DNA, 2020, v. 11, n. 1, p. 1, doi. 10.1186/s13100-020-00211-1

By:

Kojima, Kenji K.

Publication type:

Article

Human transposable elements in Repbase: genomic footprints from fish to humans.

Published in:

Mobile DNA, 2018, v. 8, p. 1, doi. 10.1186/s13100-017-0107-y

By:

Kojima, Kenji K.

Publication type:

Article

Repbase Update, a database of repetitive elements in eukaryotic genomes.

Published in:

Mobile DNA, 2015, v. 6, n. 1, p. 1, doi. 10.1186/s13100-015-0041-9

By:

Weidong Bao;
Kojima, Kenji K.;
Kohany, Oleksiy

Publication type:

Article

Bioinformatic and Molecular Analysis of Satellite Repeat Diversity in Vaccinium Genomes.

Published in:

Genes, 2020, v. 11, n. 5, p. 527, doi. 10.3390/genes11050527

By:

Sultana, Nusrat;
Menzel, Gerhard;
Heitkam, Tony;
Kojima, Kenji K.;
Bao, Weidong;
Serçe, Sedat

Publication type:

Article

LINEs Contribute to the Origins ofMiddle Bodies of SINEs besides 3' Tails.

Published in:

Genome Biology & Evolution, 2018, v. 10, n. 1, p. 370, doi. 10.1093/gbe/evy008

By:

Kojima, Kenji K.

Publication type:

Article

A New Class of SINEs with snRNA Gene-Derived Heads.

Published in:

Genome Biology & Evolution, 2015, v. 7, n. 6, p. 1702, doi. 10.1093/gbe/evv100

By:

Kojima, Kenji K.

Publication type:

Article

Multiple Lineages of Ancient CR1 Retroposons Shaped the Early Genome Evolution of Amniotes.

Published in:

Genome Biology & Evolution, 2014, v. 7, n. 1, p. 205, doi. 10.1093/gbe/evu256

By:

Suh, Alexander;
Churakov, Gennady;
Ramakodi, Meganathan P.;
Platt, Roy N.;
Jurka, Jerzy;
Kojima, Kenji K.;
Caballero, Juan;
Smit, Arian F.;
Vliet, Kent A.;
Hoffmann, Federico G.;
Brosius, Jürgen;
Green, Richard E.;
Braun, Edward L.;
Ray, David A.;
Schmitz, Jürgen

Publication type:

Article

The Wide Distribution and Change of Target Specificity of R2 Non-LTR Retrotransposons in Animals.

Published in:

PLoS ONE, 2016, v. 11, n. 9, p. 1, doi. 10.1371/journal.pone.0163496

By:

Kojima, Kenji K.;
Seto, Yosuke;
Fujiwara, Haruhiko

Publication type:

Article

A Novel Approach to Helicobacter pylori Pan-Genome Analysis for Identification of Genomic Islands.

Published in:

PLoS ONE, 2016, v. 11, n. 8, p. 1, doi. 10.1371/journal.pone.0159419

By:

Uchiyama, Ikuo;
Albritton, Jacob;
Fukuyo, Masaki;
Kojima, Kenji K.;
Yahara, Koji;
Kobayashi, Ichizo

Publication type:

Article

Genomic comparison between Staphylococcus aureus GN strains clinically isolated from a familial infection case: IS1272 transposition through a novel inverted repeat-replacing mechanism.

Published in:

PLoS ONE, 2017, v. 12, n. 11, p. 1, doi. 10.1371/journal.pone.0187288

By:

Wan, Tsai-Wen;
Higuchi, Wataru;
Khokhlova, Olga E.;
Hung, Wei-Chun;
Iwao, Yasuhisa;
Wakayama, Masataka;
Inomata, Noriyoshi;
Takano, Tomomi;
Lin, Yu-Tzu;
Peryanova, Olga V.;
Kojima, Kenji K.;
Salmina, Alla B.;
Teng, Lee-Jene;
Yamamoto, Tatsuo

Publication type:

Article

Population Evolution of Helicobacter pylori through Diversification in DNA Methylation and Interstrain Sequence Homogenization.

Published in:

Molecular Biology & Evolution, 2016, v. 33, n. 11, p. 2848, doi. 10.1093/molbev/msw162

By:

Kojima, Kenji K.;
Yoshikazu Furuta;
Koji Yahara;
Masaki Fukuyo;
Yuh Shiwa;
Shin Nishiumi;
Masaru Yoshida;
Takeshi Azuma;
Hirofumi Yoshikawa;
Ichizo Kobayashi

Publication type:

Article

Alu Monomer Revisited: Recent Generation of Alu Monomers.

Published in:

Molecular Biology & Evolution, 2011, v. 28, n. 1, p. 13, doi. 10.1093/molbev/msq218

By:

Kojima, Kenji K.

Publication type:

Article

Recent Expansion of a New Ingi-Related Clade of Vingi non-LTR Retrotransposons in Hedgehogs.

Published in:

Molecular Biology & Evolution, 2011, v. 28, n. 1, p. 17, doi. 10.1093/molbev/msq220

By:

Kojima, Kenji K.;
Kapitonov, Vladimir V.;
Jurka, Jerzy

Publication type:

Article

mRNA Retrotransposition Coupled with 5′ Inversion as a Possible Source of New Genes.

Published in:

Molecular Biology & Evolution, 2009, v. 26, n. 6, p. 1405, doi. 10.1093/molbev/msp050

By:

Kojima, Kenji K.;
Okada, Norihiro

Publication type:

Article

Systematic Survey for Novel Types of Prokaryotic Retroelements Based on Gene Neighborhood and Protein Architecture.

Published in:

Molecular Biology & Evolution, 2008, v. 25, n. 7, p. 1395, doi. 10.1093/molbev/msn081

By:

Kojima, Kenji K.;
Kanehisa, Minoru

Publication type:

Article

Base-excision restriction enzymes: expanding the world of epigenetic immune systems.

Published in:

DNA Research, 2023, v. 30, n. 4, p. 1, doi. 10.1093/dnares/dsad009

By:

Kojima, Kenji K;
Kobayashi, Ichizo

Publication type:

Article

Reverse transcriptase genes are highly abundant and transcriptionally active in marine plankton assemblages.

Published in:

ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2016, v. 10, n. 5, p. 1134, doi. 10.1038/ismej.2015.192

By:

Lescot, Magali;
Hingamp, Pascal;
Kojima, Kenji K;
Villar, Emilie;
Romac, Sarah;
Veluchamy, Alaguraj;
Boccara, Martine;
Jaillon, Olivier;
Iudicone, Daniele;
Bowler, Chris;
Wincker, Patrick;
Claverie, Jean-Michel;
Ogata, Hiroyuki

Publication type:

Article

Transmission of the PabI family of restriction DNA glycosylase genes: mobility and long-term inheritance.

Published in:

BMC Genomics, 2015, v. 16, p. 1, doi. 10.1186/s12864-015-2021-3

By:

Kojima, Kenji K.;
Kobayashi, Ichizo

Publication type:

Article

Helenus and Ajax , Two Groups of Non-Autonomous LTR Retrotransposons, Represent a New Type of Small RNA Gene-Derived Mobile Elements.

Published in:

Biology (2079-7737), 2024, v. 13, n. 2, p. 119, doi. 10.3390/biology13020119

By:

Kojima, Kenji K.

Publication type:

Article

IS481EU Shows a New Connection between Eukaryotic and Prokaryotic DNA Transposons.

Published in:

Biology (2079-7737), 2023, v. 12, n. 3, p. 365, doi. 10.3390/biology12030365

By:

Kojima, Kenji K.;
Bao, Weidong

Publication type:

Article

Diversity and Evolution of DNA Transposons Targeting Multicopy Small RNA Genes from Actinopterygian Fish.

Published in:

Biology (2079-7737), 2022, v. 11, n. 2, p. 166, doi. 10.3390/biology11020166

By:

Kojima, Kenji K.

Publication type:

Article

Different integration site structures between L1 protein-mediated retrotransposition in cis and retrotransposition in trans.

Published in:

Mobile DNA, 2010, v. 1, n. 1, p. 1, doi. 10.1186/1759-8753-1-17

By:

Kojima, Kenji K.

Publication type:

Article

Ancient Origin of the U2 Small Nuclear RNA Gene-Targeting Non-LTR Retrotransposons Utopia.

Published in:

PLoS ONE, 2015, v. 10, n. 10, p. 1, doi. 10.1371/journal.pone.0140084

By:

Kojima, Kenji K.;
Jurka, Jerzy

Publication type:

Article

A Superfamily of DNA Transposons Targeting Multicopy Small RNA Genes.

Published in:

PLoS ONE, 2013, v. 8, n. 7, p. 1, doi. 10.1371/journal.pone.0068260

By:

Kojima, Kenji K.;
Jurka, Jerzy

Publication type:

Article

Next Generation Sequencing Provides Rapid Access to the Genome of Puccinia striiformis f. sp. tritici, the Causal Agent of Wheat Stripe Rust.

Published in:

PLoS ONE, 2011, v. 6, n. 8, p. 1, doi. 10.1371/journal.pone.0024230

By:

Cantu, Dario;
Govindarajulu, Manjula;
Kozik, Alex;
Wang, Meinan;
Chen, Xianming;
Kojima, Kenji K.;
Jurka, Jerzy;
Michelmore, Richard W.;
Dubcovsky, Jorge

Publication type:

Article

Structural and sequence diversity of eukaryotic transposable elements.

Published in:

Genes & Genetic Systems, 2019, v. 94, n. 6, p. 233, doi. 10.1266/ggs.18-00024

By:

Kojima, Kenji K.

Publication type:

Article

Eukaryotic Translational Coupling in UAAUG Stop-Start Codons for the Bicistronic RNA Translation of the Non-Long Terminal Repeat Retrotransposon SART1.

Published in:

Molecular & Cellular Biology, 2005, v. 25, n. 17, p. 7675, doi. 10.1128/MCB.25.17.7675-7686.2005

By:

Kojima, Kenji K.;
Matsumoto, Takumi;
Fujiwara, Haruhiko

Publication type:

Article

Essential Motifs in the 3′ Untranslated Region Required for Retrotransposition and the Precise Start of Reverse Transcription in Non-Long-Terminal-Repeat Retrotransposon SART1.

Published in:

Molecular & Cellular Biology, 2004, v. 24, n. 18, p. 7902, doi. 10.1128/MCB.24.18.7902-7913.2004

By:

Osanai, Mizuko;
Takahashi, Hidekazu;
Kojima, Kenji K.;
Hamada, Mitsuhiro;
Fujiwara, Haruhiko

Publication type:

Article

Distinct groups of repetitive families preserved in mammals correspond to different periods of regulatory innovations in vertebrates.

Published in:

Biology Direct, 2012, v. 7, n. 1, p. 36, doi. 10.1186/1745-6150-7-36

By:

Jurka, Jerzy;
Weidong Bao;
Kojima, Kenji K.;
Kohany, Oleksiy;
Yurka, Matthew G.

Publication type:

Article