Koonin, Eugene V.

Viral AlkB proteins repair RNA damage by oxidative demethylation

van den Born, E., Omelchenko, M. V., Bekkelund, A., Leihne, V., Koonin, E. V., Dolja, V. V., & Falnes, P. Ø. (2008) · Nucleic Acids Research

Plant Virus Research StudiesDNA Repair Mechanisms

Cited by 134

Avoidance of palindromic words in bacterial and archaeal genomes: a close connection with restriction enzymes

Gelfand, M. S., & Koonin, E. V. (1997) · Nucleic Acids Research

Bacterial Genetics and BiotechnologyChromosomal and Genetic Variations

Cited by 134

Horizontal Gene Transfer Can Rescue Prokaryotes from Muller’s Ratchet: Benefit of DNA from Dead Cells and Population Subdivision

Takeuchi, N., Kaneko, K., & Koonin, E. V. (2014) · G3 Genes|Genomes|Genetics

Evolution and Genetic DynamicsGenomics and Phylogenetic Studies

Cited by 125

Evolution of the genetic code: partial optimization of a random code for robustness to translation error in a rugged fitness landscape

Novozhilov, A. S., Wolf, Y. I., & Koonin, E. V. (2007) · Biology Direct

RNA and protein synthesis mechanismsEvolution and Genetic Dynamics

Cited by 122

How stands the Tree of Life a century and a half after The Origin?

O'Malley, M. A., & Koonin, E. V. (2011) · Biology Direct

Genomics and Phylogenetic StudiesProtist diversity and phylogeny

Cited by 106

A unique role for DNA (hydroxy)methylation in epigenetic regulation of human inhibitory neurons

Kozlenkov, A., Li, J., Apontes, P., Hurd, Y. L., Byne, W. M., Koonin, E. V., Wegner, M., Mukamel, E. A., & Dracheva, S. (2018) · Science Advances

Epigenetics and DNA MethylationGenomics and Chromatin Dynamics

Cited by 103

The cosmological model of eternal inflation and the transition from chance to biological evolution in the history of life

Koonin, E. V. (2007) · Biology Direct

Origins and Evolution of LifeRNA and protein synthesis mechanisms

Cited by 97

Eukaryote-specific Domains in Translation Initiation Factors: Implications for Translation Regulation and Evolution of the Translation System

Aravind, L., & Koonin, E. V. (2000) · Genome Research

RNA and protein synthesis mechanismsRNA Research and Splicing

Cited by 93

Inevitability of Genetic Parasites

Iranzo, J., Puigbò, P., Lobkovsky, A. E., Wolf, Y. I., & Koonin, E. V. (2016) · Genome Biology and Evolution

Evolution and Genetic DynamicsChromosomal and Genetic Variations

Cited by 90

Archaeology of Eukaryotic DNA Replication

Makarova, K. S., & Koonin, E. V. (2013) · Cold Spring Harbor Perspectives in Biology

DNA Repair MechanismsGenomics and Chromatin Dynamics

Cited by 87

Frozen Accident Pushing 50: Stereochemistry, Expansion, and Chance in the Evolution of the Genetic Code

Koonin, E. (2017) · Life

RNA and protein synthesis mechanismsOrigins and Evolution of Life

Cited by 85

Frozen Accident Pushing 50: Stereochemistry, Expansion and Chance in the Evolution of the Genetic Code

Koonin, E. (2017) · Life

RNA and protein synthesis mechanismsOrigins and Evolution of Life

Cited by 85

Inevitability of the emergence and persistence of genetic parasites caused by evolutionary instability of parasite-free states

Koonin, E. V., Wolf, Y. I., & Katsnelson, M. I. (2017) · Biology Direct

Evolution and Genetic DynamicsOrigins and Evolution of Life

Cited by 74

A late origin of the extant eukaryotic diversity: divergence time estimates using rare genomic changes

Chernikova, D., Motamedi, S., Csürös, M., Koonin, E. V., & Rogozin, I. B. (2011) · Biology Direct

Protist diversity and phylogenyGenomics and Phylogenetic Studies

Cited by 72

On the origin of reverse transcriptase-using CRISPR-Cas systems and their hyperdiverse, enigmatic spacer repertoires

Silas, S., Makarova, K. S., Shmakov, S., Páez-Espino, D., Mohr, G., Liu, Y., Davison, M., Roux, S., Krishnamurthy, S. R., Fu, B. X. H., et al. (2017) · mBio

CRISPR and Genetic EngineeringBacterial Genetics and Biotechnology

Cited by 62

Programmable RNA-guided DNA endonucleases are widespread in eukaryotes and their viruses

Jiang, K., Lim, J., Sgrizzi, S., Trinh, M., Kayabolen, A., Yutin, N., Bao, W., Kato, K., Koonin, E. V., Gootenberg, J. S., et al. (2023) · Science Advances

CRISPR and Genetic EngineeringRNA regulation and disease

Cited by 60

Why the Central Dogma: on the nature of the great biological exclusion principle

Koonin, E. V. (2015) · Biology Direct

RNA and protein synthesis mechanismsPhilosophy of Biology and Scientific Explanation

Cited by 54

Structural atlas of a human gut crassvirus

Bayfield, O. W., Shkoporov, A. N., Yutin, N., Khokhlova, E. V., Smith, J. L. R., Hawkins, D. E. D. P., Koonin, E. V., Hill, C., & Antson, A. A. (2023) · Nature

Bacteriophages and microbial interactionsAdvanced Electron Microscopy Techniques and Applications

Cited by 48

Structure and function of virion RNA polymerase of a crAss-like phage

Drobysheva, A. V., Panafidina, S. A., Kolesnik, M. V., Klimuk, E. I., Minakhin, L., Yakunina, M. V., Borukhov, S., Nilsson, E., Holmfeldt, K., Yutin, N., et al. (2021) · Nature

Bacteriophages and microbial interactionsEnzyme Structure and Function

Cited by 44

Exceptional error minimization in putative primordial genetic codes

Novozhilov, A. S., & Koonin, E. V. (2009) · Biology Direct

RNA and protein synthesis mechanismsOrigins and Evolution of Life

Cited by 37

Diversity, Origin and Evolution of the ESCRT Systems

Makarova, K. S., Tobiasson, V., Wolf, Y. I., Lu, Z., Liu, Y., Zhang, S., Krupovic, M., Li, M., & Koonin, E. V. (2024) · mBio

Cellular transport and secretionUbiquitin and proteasome pathways

Cited by 36

Diversity, origin, and evolution of the ESCRT systems

Makarova, K. S., Tobiasson, V., Wolf, Y. I., Lu, Z., Liu, Y., Zhang, S., Krupovic, M., Li, M., & Koonin, E. V. (2024) · mBio

Cellular transport and secretionUbiquitin and proteasome pathways

Cited by 36

The origins of cellular life

Koonin, E. V. (2014) · Antonie van Leeuwenhoek

Origins and Evolution of LifeEvolution and Genetic Dynamics

Cited by 34

Double-stranded RNA sequencing reveals distinct riboviruses associated with thermoacidophilic bacteria from hot springs in Japan

Urayama, S.-I., Fukudome, A., Hirai, M., Okumura, T., Nishimura, Y., Takaki, Y., Kurosawa, N., Koonin, E. V., Krupovic, M., & Nunoura, T. (2024) · Nature Microbiology

Bacteriophages and microbial interactionsPlant and Fungal Interactions Research

Cited by 34