K. Kojima

发表

Repbase Update, a database of repetitive elements in eukaryotic genomes

O. Kohany, Weidong Bao, K. Kojima, 2015, Mobile DNA.

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs

Meganathan P. Ramakodi, D. Haussler, A. Smit, 2014, Science.

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

K. Yahara, I. Kobayashi, K. Kojima, 2016, PloS one.

Repetitive Elements: Bioinformatic Identification, Classification and Analysis

J. Jurka, V. Kapitonov, Weidong Bao, 2011 .

Optimization of reaction condition of recombinase polymerase amplification to detect SARS-CoV-2 DNA and RNA using a statistical method

E. Arikawa, S. Fujiwara, K. Yasukawa, 2021, Biochemical and Biophysical Research Communications.

Solvent engineering studies on recombinase polymerase amplification.

C. O’Sullivan, S. Fujiwara, K. Yasukawa, 2020, Journal of bioscience and bioengineering.

Telomere-specific non-LTR retrotransposons and telomere maintenance in the silkworm, Bombyx mori

Takumi Matsumoto, K. Kojima, H. Fujiwara, 2005, Chromosome Research.

mRNA retrotransposition coupled with 5' inversion as a possible source of new genes.

N. Okada, K. Kojima, 2009, Molecular biology and evolution.

Improvement of Moloney murine leukemia virus reverse transcriptase thermostability by introducing a disulfide bridge in the ribonuclease H region.

Kei Iida, K. Yasukawa, K. Kojima, 2021, Protein engineering, design & selection : PEDS.

Generation of thermostable Moloney murine leukemia virus reverse transcriptase variants using site saturation mutagenesis library and cell-free protein expression system

K. Yasukawa, K. Kojima, Masaaki Ito, 2017, Bioscience, biotechnology, and biochemistry.

Identification of Novel Types of Prokaryotic Retroelements Based on Gene Neighborhood and Protein Architecture

M. Kanehisa, K. Kojima, 2006 .

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

I. Kobayashi, K. Kojima, 2015, BMC Genomics.

Effects of neutral salts and pH on the activity and stability of human RNase H2

K. Yasukawa, K. Kojima, R. Crouch, 2017, Journal of biochemistry.

Evolution of target specificity in R1 clade non-LTR retrotransposons.

K. Kojima, H. Fujiwara, 2003, Molecular biology and evolution.

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

Y. Kubo, K. Kojima, H. Fujiwara, 2002, Journal of Molecular Evolution.

lineages of ancient retroposons shaped the early genome evolution of

Meganathan P. Ramakodi, A. Smit, J. Jurka, 2015 .

Increase in the thermostability of GH11 xylanase XynJ from Bacillus sp. strain 41M-1 using site saturation mutagenesis.

B. Mikami, R. Yatsunami, Satoshi Nakamura, 2019, Enzyme and microbial technology.

Enhanced detection of RNA by MMLV reverse transcriptase coupled with thermostable DNA polymerase and DNA/RNA helicase.

H. Okano, S. Fujiwara, K. Yasukawa, 2017, Enzyme and microbial technology.

LINEs Contribute to the Origins of Middle Bodies of SINEs besides 3′ Tails

K. Kojima, 2018, Genome biology and evolution.

Insight into the mechanism of thermostabilization of GH10 xylanase from Bacillus sp. strain TAR-1 by the mutation of S92 to E.

B. Mikami, R. Yatsunami, Satoshi Nakamura, 2021, Bioscience, biotechnology, and biochemistry.

Roles of Functional and Structural Domains of Hepatocyte Growth Factor Activator Inhibitor Type 1 in the Inhibition of Matriptase*

K. Inouye, T. Fushiki, K. Kojima, 2008, Journal of Biological Chemistry.

Modified uvsY by N-terminal hexahistidine tag addition enhances efficiency of recombinase polymerase amplification to detect SARS-CoV-2 DNA

S. Fujiwara, K. Yasukawa, Wakao Fukuda, 2022, Molecular biology reports.

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

Weidong Bao, K. Kojima, 2022, Mobile DNA.

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

K. Kojima, S. Kubota, S. Kobayakawa, 2010, Chromosome Research.

Characterization of six recombinant human RNase H2 bearing Aicardi-Goutiéres syndrome causing mutations.

K. Yasukawa, K. Kojima, R. Crouch, 2019, Journal of biochemistry.

Preparation and characterization of the RNase H domain of Moloney murine leukemia virus reverse transcriptase.

B. Mikami, K. Yasukawa, K. Kojima, 2015, Protein expression and purification.

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

K. Kojima, 2018, Mobile DNA.

Next-generation sequencing-based analysis of reverse transcriptase fidelity.

Kei Iida, H. Okano, S. Fujiwara, 2017, Biochemical and biophysical research communications.

Title Characterization and solvent engineering of wheat β-amylase for enhancing its activity and stability

K. Inouye, K. Kojima, Tadessa Daba, 2018 .

Chemical modification of wheat β-amylase by trinitrobenzenesulfonic acid, methoxypolyethylene glycol, and glutaraldehyde to improve its thermal stability and activity.

K. Inouye, K. Kojima, Tadessa Daba, 2013, Enzyme and microbial technology.

Characterization and solvent engineering of wheat β-amylase for enhancing its activity and stability.

K. Inouye, K. Kojima, Tadessa Daba, 2012, Enzyme and microbial technology.

Repbase Update, a database of repetitive elements in eukaryotic genomes

O. Kohany, Weidong Bao, K. Kojima, 2015, Mobile DNA.

Kinetic analysis of inhibition of α-glucosidase by leaf powder from Morus australis and its component iminosugars

K. Yasukawa, Toshiyuki Kimura, K. Kojima, 2020, Bioscience, biotechnology, and biochemistry.

Involvement of Val 315 located in the C-terminal region of thermolysin in its expression in Escherichia coli and its thermal stability.

K. Inouye, K. Kojima, Hiroki Nakata, 2014, Biochimica et biophysica acta.

Structural and sequence diversity of eukaryotic transposable elements.

K. Kojima, 2019, Genes & genetic systems.

Crypton transposons: identification of new diverse families and ancient domestication events

J. Jurka, K. Kojima, 2011, Mobile DNA.

Long-term inheritance of the 28S rDNA-specific retrotransposon R2.

K. Kojima, H. Fujiwara, 2005, Molecular biology and evolution.

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

Meganathan P. Ramakodi, A. Smit, J. Jurka, 2014, Genome biology and evolution.

Families of transposable elements, population structure and the origin of species

J. Jurka, Weidong Bao, K. Kojima, 2011, Biology Direct.

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

K. Kojima, Kenji K Kojima, 2018, Mobile DNA.

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

J. Jurka, V. Kapitonov, K. Kojima, 2011, Molecular biology and evolution.

Systematic survey for novel types of prokaryotic retroelements based on gene neighborhood and protein architecture.

M. Kanehisa, K. Kojima, 2008, Molecular biology and evolution.

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

Hidekazu Takahashi, K. Kojima, H. Fujiwara, 2004, Molecular and Cellular Biology.

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

K. Kojima, 2022, Biology.

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

J. Jurka, K. Kojima, 2015, PloS one.

A New Class of SINEs with snRNA Gene-Derived Heads

K. Kojima, 2015, Genome biology and evolution.

Identification of rDNA-specific non-LTR retrotransposons in Cnidaria.

K. Kuma, H. Toh, K. Kojima, 2006, Molecular biology and evolution.

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

Takumi Matsumoto, K. Kojima, H. Fujiwara, 2005, Molecular and Cellular Biology.

An extraordinary retrotransposon family encoding dual endonucleases.

K. Kojima, H. Fujiwara, 2005, Genome research.

Cross-genome screening of novel sequence-specific non-LTR retrotransposons: various multicopy RNA genes and microsatellites are selected as targets.

K. Kojima, H. Fujiwara, 2003, Molecular biology and evolution.

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

K. Kojima, 2010, Mobile DNA.

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

K. Kojima, 2020, Mobile DNA.

Identification and characterization of the telomerase reverse transcriptase of Bombyx mori (silkworm) and Tribolium castaneum (flour beetle).

K. Kojima, R. Futahashi, H. Fujiwara, 2006, Gene.

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

J. Jurka, O. Kohany, Weidong Bao, 2012, Biology Direct.

Evolution and gene capture in ancient endogenous retroviruses - insights from the crocodilian genomes

A. Smit, J. Jurka, D. Ray, 2014, Retrovirology.

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

K. Kojima, H. Fujiwara, Yosuke Seto, 2016, PloS one.

Bioinformatic and Molecular Analysis of Satellite Repeat Diversity in Vaccinium Genomes

Weidong Bao, K. Kojima, S. Serçe, 2020, Genes.

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

J. Claverie, O. Jaillon, P. Wincker, 2015, The ISME Journal.

Roles of CUB and LDL receptor class A domain repeats of a transmembrane serine protease matriptase in its zymogen activation.

K. Inouye, T. Fushiki, K. Kojima, 2013, Journal of biochemistry.

Identification of the Matriptase Second CUB Domain as the Secondary Site for Interaction with Hepatocyte Growth Factor Activator Inhibitor Type-1*

K. Inouye, T. Fushiki, K. Kojima, 2010, The Journal of Biological Chemistry.

Role of the stem domain of matriptase in the interaction with its physiological inhibitor, hepatocyte growth factor activator inhibitor type I.

K. Inouye, T. Fushiki, K. Kojima, 2009, Journal of biochemistry.

Activation of matriptase zymogen.

K. Inouye, K. Kojima, 2011, Journal of biochemistry.

Interaction of wheat β-amylase with maltose and glucose as examined by fluorescence.

K. Inouye, K. Kojima, Tadessa Daba, 2013, Journal of biochemistry.

Kinetic and thermodynamic analysis of the inhibitory effects of maltose, glucose, and related carbohydrates on wheat β-amylase.

K. Inouye, K. Kojima, Tadessa Daba, 2013, Enzyme and microbial technology.

RNA/DNA structures recognized by RNase H2.

K. Yasukawa, K. Kojima, Misato Baba, 2018, Briefings in functional genomics.

Insight into the collagen-degrading activity of a serine protease in the latex of Ficus carica cultivar Masui Dauphine.

K. Yasukawa, K. Kojima, Toru Takahashi, 2021, Bioscience, biotechnology, and biochemistry.

The roles of histidine and tyrosine residues in the active site of collagenase in Grimontia hollisae.

K. Yasukawa, S. Hattori, Keisuke Tanaka, 2020, Journal of biochemistry.

Comparative studies on the activities of collagenases from Grimontia hollisae and Clostridium hystoliticum in the hydrolysis of synthetic substrates

K. Yasukawa, S. Hattori, Keisuke Tanaka, 2018, Journal of biochemistry.

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

J. Jurka, R. Michelmore, J. Dubcovsky, 2011, PloS one.

Analyses of putative anti-cancer potential of three STAT3 signaling inhibitory compounds derived from Salvia officinalis

S. Masuda, M. Nagao, H. Isoda, 2020, Biochemistry and biophysics reports.

A Superfamily of DNA Transposons Targeting Multicopy Small RNA Genes

J. Jurka, K. Kojima, 2013, PloS one.

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

K. Yahara, I. Kobayashi, Yuh Shiwa, 2016, Molecular biology and evolution.

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

K. Kojima, L. Teng, Tatsuo Yamamoto, 2017, PloS one.

The Activity of a Type II Transmembrane Serine Protease, Matriptase, Is Dependent Solely on the Catalytic Domain

K. Inouye, T. Fushiki, K. Kojima, 2009, Bioscience, biotechnology, and biochemistry.

Increase in the thermostability of Bacillus sp. strain TAR-1 xylanase using a site saturation mutagenesis library

R. Yatsunami, Satoshi Nakamura, K. Yasukawa, 2018, Bioscience, biotechnology, and biochemistry.

Recombinase polymerase amplification using novel thermostable strand-displacing DNA polymerases from Aeribacillus pallidus and Geobacillus zalihae.

S. Fujiwara, K. Yasukawa, Wakao Fukuda, 2023, Journal of bioscience and bioengineering.

Modified uvsY by N-terminal hexahistidine tag addition enhances efficiency of recombinase polymerase amplification to detect SARS-CoV-2 DNA

S. Fujiwara, K. Yasukawa, Wakao Fukuda, 2021, Molecular Biology Reports.

High sensitive one-step RT-PCR using MMLV reverse transcriptase, DNA polymerase with reverse transcriptase activity, and DNA/RNA helicase.

H. Okano, S. Fujiwara, K. Yasukawa, 2017, Biochemical and biophysical research communications.

Comparison of sensitivity and rapidness of PCR, recombinase polymerase amplification, and RNA-specific amplification for detection of Rice yellow mottle virus

K. Yasukawa, K. Kojima, Kevin Maafu Juma, 2021, Journal of Biological Macromolecules.

Construction and characterization of ribonuclease H2 knockout NIH3T3 cells

K. Yasukawa, K. Kojima, T. Takita, 2018, Journal of biochemistry.

Comprehensive screening of amber suppressor tRNAs suitable for incorporation of non-natural amino acids in a cell-free translation system.

K. Kojima, T. Hohsaka, Y. Matsushita, 2008, Biochemical and biophysical research communications.

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

K. Kojima, 2020, Mobile DNA.

Further increase in thermostability of Moloney murine leukemia virus reverse transcriptase by mutational combination

K. Yasukawa, K. Kojima, C. Leucht, 2017, Protein engineering, design & selection : PEDS.

IS481EU Shows a New Connection between Eukaryotic and Prokaryotic DNA Transposons

Weidong Bao, K. Kojima, 2023, Biology.

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

K. Kojima, 2020, Mobile DNA.

Val143 of human ribonuclease H2 is not critical for, but plays a role in determining catalytic activity and substrate specificity

K. Yasukawa, K. Kojima, R. Crouch, 2020, PloS one.

Accurate fidelity analysis of the reverse transcriptase by a modified next-generation sequencing.

H. Okano, S. Fujiwara, K. Yasukawa, 2018, Enzyme and microbial technology.

High sensitive RNA detection by one-step RT-PCR using the genetically engineered variant of DNA polymerase with reverse transcriptase activity from hyperthermophilies.

H. Okano, S. Fujiwara, K. Yasukawa, 2017, Journal of bioscience and bioengineering.

Involvement of Val 315 located in the C-terminal region of thermolysin in its expression in Escherichia coli and its thermal stability.

K. Inouye, K. Kojima, Hiroki Nakata, 2014, Biochimica et biophysica acta.

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs

Meganathan P. Ramakodi, D. Haussler, A. Smit, 2014, Science.