Makarova, Kira

Publication with MATCHING institution:

Makarova K, Grishin NV (1999) The Zn-peptidase superfamily: functional convergence after evolutionary divergence.
Journal of Molecular Biology. [IF=1.281, Cited=60, 10493853].
Makarova K, Koonin EV (2015) Annotation and Classification of CRISPR-Cas Systems. Methods in Molecular Biology.
[IF=0.413, Cited=173, 25981466].
Makarova K, Wolf YI, Koonin EV (2003) Potential genomic determinants of hyperthermophily. Trends in Genetics. [IF=2.117,
Cited=55, 12683966].
Makarova K, Koonin EV (2003) Filling a gap in the central metabolism of archaea: prediction of a novel aconitase by
comparative-genomic analysis. FEMS Microbiology Letters. [IF=0.605, Cited=19, 14568143].
Makarova K, Galperin MY, Koonin EV (2015) Comparative genomic analysis of evolutionarily conserved but functionally
uncharacterized membrane proteins in archaea: Prediction of novel components of secretion, membrane remodeling and
glycosylation systems. None. [IF=None, Cited=6, 25583072].
Zetsche B, Gootenberg JS, Abudayyeh OO, ..., Zhang F (2015) Cpf1 is a single RNA-guided endonuclease of a class 2
CRISPR-Cas system. Cell. [IF=8.479, Cited=1000, 26422227].
Yamano T, Nishimasu H, Zetsche B, ..., Nureki O (2016) Crystal Structure of Cpf1 in Complex with Guide RNA and Target
DNA. Cell. [IF=8.479, Cited=320, 27114038].
Makarova K, Zhang F, Koonin EV (2017) SnapShot: Class 2 CRISPR-Cas Systems. Cell. [IF=8.479, Cited=89, 28086097].
Makarova K, Zhang F, Koonin EV (2017) SnapShot: Class 1 CRISPR-Cas Systems. Cell. [IF=8.479, Cited=69, 28235204].
Fernandez-Lopez L, Sanchez-Carrillo S, García-Moyano A, ..., Ferrer M (2021) The bone-degrading enzyme machinery: From
multi-component understanding to the treatment of residues from the meat industry. Computational and Structural
Biotechnology Journal. [IF=1.199, Cited=0, 34938409].
Faure G, Makarova K, Koonin EV (2018) CRISPR-Cas: Complex Functional Networks and Multiple Roles beyond Adaptive
Immunity. Journal of Molecular Biology. [IF=1.281, Cited=35, 30193985].
Makarova K, Koonin EV (2005) Evolutionary and functional genomics of the Archaea. Current Opinion in Microbiology.
[IF=1.52, Cited=31, 16111915].
Smargon AA, Cox DBT, Pyzocha NK, ..., Zhang F (2017) Cas13b Is a Type VI-B CRISPR-Associated RNA-Guided RNase
Differentially Regulated by Accessory Proteins Csx27 and Csx28. Molecular Cell. [IF=2.773, Cited=276, 28065598].
Yan WX, Chong S, Zhang H, ..., Scott DA (2018) Cas13d Is a Compact RNA-Targeting Type VI CRISPR Effector Positively
Modulated by a WYL-Domain-Containing Accessory Protein. Molecular Cell. [IF=2.773, Cited=223, 29551514].
Wu WY, Mohanraju P, Liao C, ..., van der Oost J (2022) The miniature CRISPR-Cas12m effector binds DNA to block
transcription. Molecular Cell. [IF=2.773, Cited=20, 36427491].
Lavysh D, Sokolova M, Minakhin L, ..., Severinov K (2016) The genome of AR9, a giant transducing Bacillus phage encoding
two multisubunit RNA polymerases. Virology. [IF=0.835, Cited=44, 27236306].
Makarova K, Wolf YI, White O, ..., Daly MJ (1999) Short repeats and IS elements in the extremely radiation-resistant
bacterium Deinococcus radiodurans and comparison to other bacterial species. Research in Microbiology. [IF=0.814,
Cited=14, 10673009].
Makarova K, Aravind L, Koonin EV (2002) SWIM, a novel Zn-chelating domain present in bacteria, archaea and eukaryotes.
Trends in Biochemical Sciences. [IF=2.462, Cited=56, 12151216].
Zhao G, Kosek D, Liu HB, ..., Bewley CA (2021) Structural Basis for a Dual Function ATP Grasp Ligase That Installs
Single and Bicyclic ω-Ester Macrocycles in a New Multicore RiPP Natural Product. Journal of the American Chemical
Society. [IF=2.573, Cited=14, 34028251].
Ran FA, Cong L, Yan WX, ..., Zhang F (2015) In vivo genome editing using Staphylococcus aureus Cas9. Nature. [IF=11.591,
Cited=1000, 25830891].
Liu B, Ouyang S, Makarova K, ..., Huang L (2015) A primase subunit essential for efficient primer synthesis by an
archaeal eukaryotic-type primase. Nature Communications. [IF=3.268, Cited=14, 26095544].
Sorokin DY, Makarova K, Abbas B, ..., Koonin EV (2017) Discovery of extremely halophilic, methyl-reducing euryarchaea
provides insights into the evolutionary origin of methanogenesis. Nature Microbiology. [IF=4.448, Cited=93, 28555626].
Shmakov S, Smargon A, Scott D, ..., Koonin EV (2017) Diversity and evolution of class 2 CRISPR-Cas systems. Nature
Reviews Microbiology. [IF=6.979, Cited=448, 28111461].
Makarova K, Yutin N, Bell SD, Koonin EV (2010) Evolution of diverse cell division and vesicle formation systems in
Archaea. Nature Reviews Microbiology. [IF=6.979, Cited=134, 20818414].
Makarova K, Makarova KS, Haft DH, ..., Koonin EV (2011) Evolution and classification of the CRISPR-Cas systems. Nature
Reviews Microbiology. [IF=6.979, Cited=1000, 21552286].
Makarova K, Makarova KS, Wolf YI, ..., Koonin EV (2015) An updated evolutionary classification of CRISPR-Cas systems.
Nature Reviews Microbiology. [IF=6.979, Cited=1000, 26411297].
Swarts DC, Makarova K, Wang Y, ..., van der Oost J (2014) The evolutionary journey of Argonaute proteins. Nature
Structural and Molecular Biology. [IF=2.542, Cited=245, 25192263].
Golyshina OV, Toshchakov SV, Makarova K, ..., Golyshin PN (2017) 'ARMAN' archaea depend on association with euryarchaeal
host in culture and in situ. Nature Communications. [IF=3.268, Cited=51, 28680072].
Strecker J, Jones S, Koopal B, ..., Zhang F (2019) Engineering of CRISPR-Cas12b for human genome editing. Nature
Communications. [IF=3.268, Cited=138, 30670702].
Gussow AB, Park AE, Borges AL, ..., Koonin EV (2020) Machine-learning approach expands the repertoire of anti-CRISPR
protein families. Nature Communications. [IF=3.268, Cited=43, 32728052].
Kato K, Okazaki S, Kannan S, ..., Nishimasu H (2022) Structure of the IscB-ωRNA ribonucleoprotein complex, the likely
ancestor of CRISPR-Cas9. Nature Communications. [IF=3.268, Cited=10, 36344504].
Tang SK, Zhi XY, Zhang Y, ..., Xu P (2023) Cellular differentiation into hyphae and spores in halophilic archaea. Nature
Communications. [IF=3.268, Cited=3, 37005419].
Chaban A, Minakhin L, Goldobina E, ..., Sokolova ML (2024) Tail-tape-fused virion and non-virion RNA polymerases of a
thermophilic virus with an extremely long tail. Nature Communications. [IF=3.268, Cited=1, 38182597].
Tang SK, Zhi XY, Zhang Y, ..., Xu P (2024) Addendum: Cellular differentiation into hyphae and spores in halophilic
archaea. Nature Communications. [IF=3.268, Cited=0, 38302496].
Sorokin DY, Makarova K, Abbas B, ..., Koonin EV (2019) Reply to 'Evolutionary placement of Methanonatronarchaeia'.
Nature Microbiology. [IF=4.448, Cited=6, 30804545].
Zhao S, Makarova K, Zheng W, ..., Du S (2024) Widespread photosynthesis reaction centre barrel proteins are necessary
for haloarchaeal cell division. Nature Microbiology. [IF=4.448, Cited=1, 38443574].
Faure G, Shmakov SA, Yan WX, ..., Koonin EV (2019) CRISPR-Cas in mobile genetic elements: counter-defence and beyond.
Nature Reviews Microbiology. [IF=6.979, Cited=120, 31165781].
Drobysheva AV, Panafidina SA, Kolesnik MV, ..., Sokolova ML (2020) Structure and function of virion RNA polymerase of a
crAss-like phage. Nature. [IF=11.591, Cited=21, 33208949].
Liu Y, Makarova K, Huang WC, ..., Li M (2021) Expanded diversity of Asgard archaea and their relationships with
eukaryotes. Nature. [IF=11.591, Cited=104, 33911286].
Özcan A, Krajeski R, Ioannidi E, ..., Gootenberg JS (2021) Programmable RNA targeting with the single-protein CRISPR
effector Cas7-11. Nature. [IF=11.591, Cited=89, 34489594].
Özcan A, Krajeski R, Ioannidi E, ..., Gootenberg JS (2022) Author Correction: Programmable RNA targeting with the
single-protein CRISPR effector Cas7-11. Nature. [IF=11.591, Cited=0, 35896753].
Hirano S, Kappel K, Altae-Tran H, ..., Zhang F (2022) Structure of the OMEGA nickase IsrB in complex with ωRNA and
target DNA. Nature. [IF=11.591, Cited=9, 36224386].
Kannan S, Altae-Tran H, Jin X, ..., Zhang F (2021) Compact RNA editors with small Cas13 proteins. Nature Biotechnology.
[IF=8.861, Cited=62, 34462587].
Marinsek N, Barry ER, Makarova K, ..., Bell SD (2006) GINS, a central nexus in the archaeal DNA replication fork. EMBO
Reports. [IF=1.375, Cited=90, 16485022].
Rai R, Mushegian A, Makarova K, Kashina A (2006) Molecular dissection of arginyltransferases guided by similarity to
bacterial peptidoglycan synthases. EMBO Reports. [IF=1.375, Cited=22, 16826240].
Makarova K, Wolf YI, Koonin EV (2013) The basic building blocks and evolution of CRISPR-CAS systems. Biochemical Society
Transactions. [IF=0.925, Cited=97, 24256226].
Slesarev AI, Mezhevaya KV, Makarova K, ..., Kozyavkin SA (2002) The complete genome of hyperthermophile Methanopyrus
kandleri AV19 and monophyly of archaeal methanogens. Proceedings of the National Academy of Sciences of the United
States of America. [IF=2.765, Cited=167, 11930014].
Kolker E, Picone AF, Galperin MY, ..., Tiedje JM (2005) Global profiling of Shewanella oneidensis MR-1: expression of
hypothetical genes and improved functional annotations. Proceedings of the National Academy of Sciences of the United
States of America. [IF=2.765, Cited=78, 15684069].
Mulkidjanian AY, Koonin EV, Makarova K, ..., Galperin MY (2006) The cyanobacterial genome core and the origin of
photosynthesis. Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765, Cited=152, 16924101].
Makarova K, Slesarev A, Wolf Y, ..., Mills D (2006) Comparative genomics of the lactic acid bacteria. Proceedings of the
National Academy of Sciences of the United States of America. [IF=2.765, Cited=737, 17030793].
Liu Y, Zhou J, Omelchenko MV, ..., Daly MJ (2003) Transcriptome dynamics of Deinococcus radiodurans recovering from
ionizing radiation. Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765,
Cited=224, 12651953].
Elkins JG, Podar M, Graham DE, ..., Stetter KO (2008) A korarchaeal genome reveals insights into the evolution of the
Archaea. Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765, Cited=151, 18535141].
Paytubi S, McMahon SA, Graham S, ..., White MF (2011) Displacement of the canonical single-stranded DNA-binding protein
in the Thermoproteales. Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765,
Cited=23, 22106294].
Kurth EG, Peremyslov VV, Turner HL, ..., Dolja VV (2017) Myosin-driven transport network in plants. Proceedings of the
National Academy of Sciences of the United States of America. [IF=2.765, Cited=27, 28096376].
Peters JE, Makarova K, Shmakov S, Koonin EV (2017) Recruitment of CRISPR-Cas systems by Tn7-like transposons.
Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765, Cited=122, 28811374].
Dufresne A, Salanoubat M, Partensky F, ..., Hess WR (2003) Genome sequence of the cyanobacterium Prochlorococcus marinus
SS120, a nearly minimal oxyphototrophic genome. Proceedings of the National Academy of Sciences of the United States of
America. [IF=2.765, Cited=249, 12917486].
Kuznetsova E, Nocek B, Brown G, ..., Yakunin AF (2015) Functional Diversity of Haloacid Dehalogenase Superfamily
Phosphatases from Saccharomyces cerevisiae: BIOCHEMICAL, STRUCTURAL, AND EVOLUTIONARY INSIGHTS. Journal of Biological
Chemistry. [IF=1.122, Cited=43, 26071590].
Faure G, Shmakov SA, Makarova K, ..., Koonin EV (2018) Comparative genomics and evolution of trans-activating RNAs in
Class 2 CRISPR-Cas systems. RNA Biology. [IF=0.745, Cited=21, 30103650].
Makarova K, Wolf YI, Shmakov SA, ..., Koonin EV (2020) Unprecedented Diversity of Unique CRISPR-Cas-Related Systems and
Cas1 Homologs in Asgard Archaea. CRISPR Journal. [IF=0.697, Cited=10, 33555973].
Shmakov SA, Utkina I, Wolf YI, ..., Koonin EV (2020) CRISPR Arrays Away from cas Genes. CRISPR Journal.
[IF=0.697, Cited=11, 33346707].
Sahakyan H, Makarova K, Koonin EV (2023) Search for Origins of Anti-CRISPR Proteins by Structure Comparison. CRISPR
Journal. [IF=0.697, Cited=1, 37272863].
Makarova K, Koonin EV, Haselkorn R, Galperin MY (2006) Cyanobacterial response regulator PatA contains a conserved
N-terminal domain (PATAN) with an alpha-helical insertion. Bioinformatics. [IF=1.954, Cited=27, 16543275].
Makarova K, Grishin NV, Koonin EV (2006) The HicAB cassette, a putative novel, RNA-targeting toxin-antitoxin system in
archaea and bacteria. Bioinformatics. [IF=1.954, Cited=79, 16895922].
Willkomm S, Makarova K, Grohmann D (2018) DNA silencing by prokaryotic Argonaute proteins adds a new layer of defense
against invading nucleic acids. FEMS Microbiology Reviews. [IF=2.966, Cited=29, 29579258].
Krupovic M, Shmakov S, Makarova K, ..., Koonin EV (2016) Recent Mobility of Casposons, Self-Synthesizing Transposons at
the Origin of the CRISPR-Cas Immunity. Genome Biology and Evolution. [IF=0.889, Cited=26, 26764427].
Petitjean C, Makarova K, Wolf YI, Koonin EV (2017) Extreme Deviations from Expected Evolutionary Rates in Archaeal
Protein Families. Genome Biology and Evolution. [IF=0.889, Cited=6, 28985292].
Koonin EV, Makarova K (2017) Mobile Genetic Elements and Evolution of CRISPR-Cas Systems: All the Way There and Back.
Genome Biology and Evolution. [IF=0.889, Cited=68, 28985291].
Makarova K, Aravind L, Grishin NV, ..., Koonin EV (2002) A DNA repair system specific for thermophilic Archaea and
bacteria predicted by genomic context analysis. Nucleic Acids Research. [IF=4.663, Cited=205, 11788711].
Galperin MY, Wolf YI, Makarova K, ..., Koonin EV (2021) COG database update: focus on microbial diversity, model
organisms, and widespread pathogens. Nucleic Acids Research. [IF=4.663, Cited=299, 33167031].
Mitrofanov A, Alkhnbashi OS, Shmakov SA, ..., Backofen R (2021) CRISPRidentify: identification of CRISPR arrays using
machine learning approach. Nucleic Acids Research. [IF=4.663, Cited=26, 33290505].
Zhang H, Gong X, Zhao Q, ..., Fu X (2022) The tRNA discriminator base defines the mutual orthogonality of two distinct
pyrrolysyl-tRNA synthetase/tRNAPyl pairs in the same organism. Nucleic Acids Research. [IF=4.663, Cited=8, 35466371].
Makarova K, Wolf YI, Mekhedov SL, ..., Koonin EV (2005) Ancestral paralogs and pseudoparalogs and their role in the
emergence of the eukaryotic cell. Nucleic Acids Research. [IF=4.663, Cited=120, 16106042].
Makarova K, Wolf YI, Koonin EV (2013) Comparative genomics of defense systems in archaea and bacteria. Nucleic Acids
Research. [IF=4.663, Cited=229, 23470997].
Galperin MY, Makarova K, Wolf YI, Koonin EV (2014) Expanded microbial genome coverage and improved protein family
annotation in the COG database. Nucleic Acids Research. [IF=4.663, Cited=740, 25428365].
Chylinski K, Makarova K, Makarova KS, ..., Koonin EV (2014) Classification and evolution of type II CRISPR-Cas systems.
Nucleic Acids Research. [IF=4.663, Cited=231, 24728998].
Yakunina M, Artamonova T, Borukhov S, ..., Minakhin L (2015) A non-canonical multisubunit RNA polymerase encoded by a
giant bacteriophage. Nucleic Acids Research. [IF=4.663, Cited=31, 26490960].
Sorokin DY, Merkel AY, Abbas B, ..., van Loosdrecht MCM (2018) Methanonatronarchaeum thermophilum gen. nov., sp. nov.
and 'Candidatus Methanohalarchaeum thermophilum', extremely halo(natrono)philic methyl-reducing methanogens from
hypersaline lakes comprising a new euryarchaeal class Methanonatronarchaeia classis nov. International Journal of
Systematic and Evolutionary Microbiology. [IF=0.861, Cited=20, 29781801].
Bell RT, Sahakyan H, Makarova K, ..., Koonin EV (2024) CoCoNuTs: A diverse subclass of Type IV restriction systems
predicted to target RNA. None. [IF=None, Cited=0, 37790407].
Makarova K, Koonin EV (2013) Archaeology of eukaryotic DNA replication. Cold Spring Harbor perspectives in biology.
[IF=1.926, Cited=48, 23881942].
Avisar D, Prokhnevsky AI, Makarova K, ..., Dolja VV (2008) Myosin XI-K Is required for rapid trafficking of Golgi
stacks, peroxisomes, and mitochondria in leaf cells of Nicotiana benthamiana. Plant Physiology. [IF=1.719, Cited=143, 18178670].
Peremyslov VV, Mockler TC, Filichkin SA, ..., Dolja VV (2011) Expression, splicing, and evolution of the myosin gene
family in plants. Plant Physiology. [IF=1.719, Cited=53, 21233331].
Peremyslov VV, Morgun EA, Kurth EG, ..., Dolja VV (2013) Identification of myosin XI receptors in Arabidopsis defines a
distinct class of transport vesicles. Plant Cell. [IF=2.394, Cited=55, 23995081].
Makarova K, Grishin NV (1999) Thermolysin and mitochondrial processing peptidase: how far structure-functional
convergence goes. Protein Science. [IF=1.97, Cited=13, 10595562].
Pirkmajer S, Kirchner H, Lundell LS, ..., Chibalin AV (2017) Early vertebrate origin and diversification of small
transmembrane regulators of cellular ion transport. Journal of Physiology. [IF=1.417, Cited=6, 28436536].
Jain I, Kolesnik M, Kuznedelov K, ..., Semenova E (2024) tRNA anticodon cleavage by target-activated CRISPR-Cas13a
effector. Science advances. [IF=2.861, Cited=1, 38657076].
Daly MJ, Gaidamakova EK, Matrosova VY, ..., Ghosal D (2004) Accumulation of Mn(II) in Deinococcus radiodurans
facilitates gamma-radiation resistance. Science. [IF=7.729, Cited=340, 15459345].
Abudayyeh OO, Gootenberg JS, Konermann S, ..., Zhang F (2016) C2c2 is a single-component programmable RNA-guided RNA-
targeting CRISPR effector. Science. [IF=7.729, Cited=911, 27256883].
Yan WX, Hunnewell P, Alfonse LE, ..., Scott DA (2018) Functionally diverse type V CRISPR-Cas systems. Science.
[IF=7.729, Cited=186, 30523077].
Strecker J, Ladha A, Gardner Z, ..., Zhang F (2019) RNA-guided DNA insertion with CRISPR-associated transposases.
Science. [IF=7.729, Cited=246, 31171706].
Gao L, Altae-Tran H, Böhning F, ..., Zhang F (2020) Diverse enzymatic activities mediate antiviral immunity in
prokaryotes. Science. [IF=7.729, Cited=162, 32855333].
Strecker J, Ladha A, Makarova K, ..., Zhang F (2020) Response to Comment on "RNA-guided DNA insertion with CRISPR-
associated transposases". Science. [IF=7.729, Cited=15, 32499411].
Gao LA, Wilkinson ME, Strecker J, ..., Zhang F (2022) Prokaryotic innate immunity through pattern recognition of
conserved viral proteins. Science. [IF=7.729, Cited=53, 35951700].
Kato K, Okazaki S, Schmitt-Ulms C, ..., Nishimasu H (2022) RNA-triggered protein cleavage and cell growth arrest by the
type III-E CRISPR nuclease-protease. Science. [IF=7.729, Cited=17, 36423304].
Altae-Tran H, Kannan S, Suberski AJ, ..., Zhang F (2023) Uncovering the functional diversity of rare CRISPR-Cas systems
with deep terascale clustering. Science. [IF=7.729, Cited=12, 37995242].
Benninghoff JC, Kuschmierz L, Zhou X, ..., Siebers B (2021) Exposure to 1-Butanol Exemplifies the Response of the
Thermoacidophilic Archaeon Sulfolobus acidocaldarius to Solvent Stress. Applied and Environmental Microbiology.
[IF=1.103, Cited=6, 33741627].
Venkateswaran A, McFarlan SC, Ghosal D, ..., Daly MJ (2000) Physiologic determinants of radiation resistance in
Deinococcus radiodurans. Applied and Environmental Microbiology. [IF=1.103, Cited=66, 10831446].
Galperin MY, Makarova K, Wolf YI, Koonin EV (2018) Phyletic Distribution and Lineage-Specific Domain Architectures of
Archaeal Two-Component Signal Transduction Systems. Journal of Bacteriology. [IF=0.898, Cited=23, 29263101].
Kapitonov VV, Makarova K, Koonin EV (2015) ISC, a Novel Group of Bacterial and Archaeal DNA Transposons That Encode Cas9
Homologs. Journal of Bacteriology. [IF=0.898, Cited=46, 26712934].
Correia FF, D'Onofrio A, Rejtar T, ..., Lewis K (2006) Kinase activity of overexpressed HipA is required for growth
arrest and multidrug tolerance in Escherichia coli. Journal of Bacteriology. [IF=0.898, Cited=121, 17041039].
Makarova K, Koonin EV (2006) Evolutionary genomics of lactic acid bacteria. Journal of Bacteriology. [IF=0.898,
Cited=128, 17085562].
Marcobal AM, Sela DA, Wolf YI, ..., Mills DA (2007) Role of hypermutability in the evolution of the genus Oenococcus.
Journal of Bacteriology. [IF=0.898, Cited=34, 17993526].
Makarova K, Wolf YI, Snir S, Koonin EV (2011) Defense islands in bacterial and archaeal genomes and prediction of novel
defense systems. Journal of Bacteriology. [IF=0.898, Cited=202, 21908672].
Takeuchi N, Wolf YI, Makarova K, Koonin EV (2011) Nature and intensity of selection pressure on CRISPR-associated genes.
Journal of Bacteriology. [IF=0.898, Cited=63, 22178975].
Nölling J, Breton G, Omelchenko MV, ..., Smith DR (2001) Genome sequence and comparative analysis of the solvent-
producing bacterium Clostridium acetobutylicum. Journal of Bacteriology. [IF=0.898, Cited=450, 11466286].
Kolker E, Purvine S, Galperin MY, ..., Smith AL (2003) Initial proteome analysis of model microorganism Haemophilus
influenzae strain Rd KW20. Journal of Bacteriology. [IF=0.898, Cited=46, 12867470].
Ettema TJG, Makarova K, Jellema GL, ..., van der Oost J (2004) Identification and functional verification of archaeal-
type phosphoenolpyruvate carboxylase, a missing link in archaeal central carbohydrate metabolism. Journal of
Bacteriology. [IF=0.898, Cited=23, 15516590].
Makarova K, Aravind L, Wolf YI, ..., Daly MJ (2001) Genome of the extremely radiation-resistant bacterium Deinococcus
radiodurans viewed from the perspective of comparative genomics. Microbiology and Molecular Biology Reviews. [IF=2.842,
Cited=375, 11238985].
Silas S, Makarova K, Shmakov S, ..., Fire AZ (2017) On the Origin of Reverse Transcriptase-Using CRISPR-Cas Systems and
Their Hyperdiverse, Enigmatic Spacer Repertoires. mBio. [IF=1.357, Cited=35, 28698278].
Bantysh O, Serebryakova M, Makarova K, ..., Severinov K (2014) Enzymatic synthesis of bioinformatically predicted
microcin C-like compounds encoded by diverse bacteria. mBio. [IF=1.357, Cited=18, 24803518].
Shimosaka T, Makarova K, Koonin EV, Atomi H (2019) Identification of Dephospho-Coenzyme A (Dephospho-CoA) Kinase in
Thermococcus kodakarensis and Elucidation of the Entire CoA Biosynthesis Pathway in Archaea. mBio. [IF=1.357, Cited=10, 31337720].
Makarova K, Galperin MY, Koonin EV (2017) Proposed Role for KaiC-Like ATPases as Major Signal Transduction Hubs in
Archaea. mBio. [IF=1.357, Cited=8, 29208747].
Makarova K, Zhang C, Wolf YI, ..., Koonin EV (2024) Computational analysis of genes with lethal knockout phenotype and
prediction of essential genes in archaea. mBio. [IF=1.357, Cited=0, 38189270].
Gaidamakova EK, Sharma A, Matrosova VY, ..., Daly MJ (2022) Small-Molecule Mn Antioxidants in Caenorhabditis elegans and
Deinococcus radiodurans Supplant MnSOD Enzymes during Aging and Irradiation. mBio. [IF=1.357, Cited=6, 35012337].
Koonin EV, Makarova K, Wolf YI (2017) Evolutionary Genomics of Defense Systems in Archaea and Bacteria. Annual Review of
Microbiology. [IF=3.167, Cited=144, 28657885].
Koonin EV, Makarova K, Aravind L (2001) Horizontal gene transfer in prokaryotes: quantification and classification.
Annual Review of Microbiology. [IF=3.167, Cited=643, 11544372].
Makarova K, Koonin EV (2010) Archaeal ubiquitin-like proteins: functional versatility and putative ancestral involvement
in tRNA modification revealed by comparative genomic analysis. Archaea. [IF=0.615, Cited=14, 20936112].
Makarova K, Grishin NV, Shabalina SA, ..., Koonin EV (2006) A putative RNA-interference-based immune system in
prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and
hypothetical mechanisms of action. Biology Direct. [IF=0.893, Cited=634, 16545108].
Makarova K, Sorokin AV, Novichkov PS, ..., Koonin EV (2007) Clusters of orthologous genes for 41 archaeal genomes and
implications for evolutionary genomics of archaea. Biology Direct. [IF=0.893, Cited=126, 18042280].
Makarova K, Wolf YI, Koonin EV (2009) Comprehensive comparative-genomic analysis of type 2 toxin-antitoxin systems and
related mobile stress response systems in prokaryotes. Biology Direct. [IF=0.893, Cited=295, 19493340].
Makarova K, Wolf YI, van der Oost J, Koonin EV (2009) Prokaryotic homologs of Argonaute proteins are predicted to
function as key components of a novel system of defense against mobile genetic elements. Biology Direct. [IF=0.893,
Cited=123, 19706170].
Makarova K, Koonin EV (2010) Two new families of the FtsZ-tubulin protein superfamily implicated in membrane remodeling
in diverse bacteria and archaea. Biology Direct. [IF=0.893, Cited=31, 20459678].
Makarova K, Aravind L, Wolf YI, Koonin EV (2011) Unification of Cas protein families and a simple scenario for the
origin and evolution of CRISPR-Cas systems. Biology Direct. [IF=0.893, Cited=275, 21756346].
Makarova K, Koonin EV, Kelman Z (2012) The CMG (CDC45/RecJ, MCM, GINS) complex is a conserved component of the DNA
replication system in all archaea and eukaryotes. Biology Direct. [IF=0.893, Cited=52, 22329974].
Makarova K, Ponomarev VA, Koonin EV (2001) Two C or not two C: recurrent disruption of Zn-ribbons, gene duplication,
lineage-specific gene loss, and horizontal gene transfer in evolution of bacterial ribosomal proteins. None. [IF=None,
Cited=49, 11574053].
Makarova K, Koonin EV (2003) Comparative genomics of Archaea: how much have we learned in six years, and what's next?
None. [IF=None, Cited=57, 12914651].
Puigbò P, Makarova K, Kristensen DM, ..., Koonin EV (2017) Reconstruction of the evolution of microbial defense systems.
None. [IF=None, Cited=27, 28376755].
Hudaiberdiev S, Shmakov S, Wolf YI, ..., Koonin EV (2017) Phylogenomics of Cas4 family nucleases. None. [IF=None,
Cited=42, 29179671].
Pagnier I, Yutin N, Croce O, ..., La Scola B (2015) Babela massiliensis, a representative of a widespread bacterial
phylum with unusual adaptations to parasitism in amoebae. Biology Direct. [IF=0.893, Cited=22, 25884386].
Mekhedov SL, Makarova K, Koonin EV (2017) The complex domain architecture of SAMD9 family proteins, predicted STAND-like
NTPases, suggests new links to inflammation and apoptosis. Biology Direct. [IF=0.893, Cited=28, 28545555].
Makarova K, Blackburne B, Wolf YI, ..., Koonin EV (2022) Phylogenomic analysis of the diversity of graspetides and
proteins involved in their biosynthesis. Biology Direct. [IF=0.893, Cited=8, 35313954].
Matrosova VY, Gaidamakova EK, Makarova K, ..., Daly MJ (2017) High-quality genome sequence of the radioresistant
bacterium Deinococcus ficus KS 0460. None. [IF=None, Cited=6, 28775794].
Koonin EV, Makarova K (2022) Evolutionary plasticity and functional versatility of CRISPR systems. PLoS Biology.
[IF=2.285, Cited=31, 34986140].
Makarova K, Omelchenko MV, Gaidamakova EK, ..., Daly MJ (2007) Deinococcus geothermalis: the pool of extreme radiation
resistance genes shrinks. PLoS ONE. [IF=1.253, Cited=139, 17895995].
Makarova K, Anantharaman V, Grishin NV, ..., Aravind L (2014) CARF and WYL domains: ligand-binding regulators of
prokaryotic defense systems. Frontiers in Genetics. [IF=0.935, Cited=117, 24817877].
Makarova K, Krupovic M, Koonin EV (2014) Evolution of replicative DNA polymerases in archaea and their contributions to
the eukaryotic replication machinery. Frontiers in Microbiology. [IF=1.331, Cited=46, 25101062].
Makarova K, Koonin EV, Albers SV (2016) Diversity and Evolution of Type IV pili Systems in Archaea. Frontiers in
Microbiology. [IF=1.331, Cited=60, 27199977].
Forlani G, Makarova K, Ruszkowski M, ..., Nocek B (2015) Evolution of plant δ(1)-pyrroline-5-carboxylate reductases from
phylogenetic and structural perspectives. Frontiers in Plant Science. [IF=1.58, Cited=10, 26284089].
Ferrer M, Sorokin DY, Wolf YI, ..., Makarova K (2018) Proteomic Analysis of Methanonatronarchaeum thermophilum AMET1, a
Representative of a Putative New Class of Euryarchaeota, "Methanonatronarchaeia". Genes. [IF=0.941, Cited=3, 29360740].
Makarova K, Wolf YI, Koonin EV (2015) Archaeal Clusters of Orthologous Genes (arCOGs): An Update and Application for
Analysis of Shared Features between Thermococcales, Methanococcales, and Methanobacteriales. Life. [IF=0.709,
Cited=140, 25764277].
Bell RT, Sahakyan H, Makarova K, ..., Koonin EV (2024) CoCoNuTs are a diverse subclass of Type IV restriction systems
predicted to target RNA. eLife. [IF=1.743, Cited=1, 38739430].
Makarova K, Aravind L, Galperin MY, ..., Koonin EV (1999) Comparative genomics of the Archaea (Euryarchaeota): evolution
of conserved protein families, the stable core, and the variable shell. Genome Research. [IF=1.745, Cited=0, 10413400].

Publication with MISMATCHING institution:

Kita A, Ishida Y, Shimosaka T, ..., Miki K (2024) Crystal structure of GTP-dependent dephospho-coenzyme A kinase from
the hyperthermophilic archaeon, Thermococcus kodakarensis. Proteins: Structure, Function and Bioinformatics. [IF=0.897,
Cited=0, 38235908].
Makarova K, Wolf YI, Forterre P, ..., Koonin EV (2014) Dark matter in archaeal genomes: a rich source of novel mobile
elements, defense systems and secretory complexes. Extremophiles. [IF=0.793, Cited=37, 25113822].
Makarova K, Wolf YI, Koonin EV (2023) In Silico Approaches for Prediction of Anti-CRISPR Proteins. Journal of Molecular
Biology. [IF=1.281, Cited=2, 36868398].
Koonin EV, Makarova K, Zhang F (2017) Diversity, classification and evolution of CRISPR-Cas systems. Current Opinion in
Microbiology. [IF=1.52, Cited=599, 28605718].
Shmakov S, Abudayyeh OO, Makarova K, ..., Koonin EV (2015) Discovery and Functional Characterization of Diverse Class 2
CRISPR-Cas Systems. Molecular Cell. [IF=2.773, Cited=562, 26593719].
Mohr G, Silas S, Stamos JL, ..., Lambowitz AM (2018) A Reverse Transcriptase-Cas1 Fusion Protein Contains a Cas6 Domain
Required for Both CRISPR RNA Biogenesis and RNA Spacer Acquisition. Molecular Cell. [IF=2.773, Cited=16, 30344094].
Faure G, Saito M, Benler S, ..., Zhang F (2023) Modularity and diversity of target selectors in Tn7 transposons.
Molecular Cell. [IF=2.773, Cited=3, 37267947].
Koonin EV, Makarova K, Wolf YI (2021) Evolution of Microbial Genomics: Conceptual Shifts over a Quarter Century. Trends
in Microbiology. [IF=3.2, Cited=22, 33541841].
Makarova K, Aravind L, Koonin EV (2000) A novel superfamily of predicted cysteine proteases from eukaryotes, viruses and
Chlamydia pneumoniae. Trends in Biochemical Sciences. [IF=2.462, Cited=175, 10664582].
Koonin EV, Makarova K (2017) Discovery of Oligonucleotide Signaling Mediated by CRISPR-Associated Polymerases Solves Two
Puzzles but Leaves an Enigma. ACS Chemical Biology. [IF=0.963, Cited=22, 28937734].
Makarova K, Aravind L, Daly MJ, Koonin EV (2000) Specific expansion of protein families in the radioresistant bacterium
Deinococcus radiodurans. Genetica. [IF=0.531, Cited=19, 11145417].
Wolf YI, Makarova K, Lobkovsky AE, Koonin EV (2016) Two fundamentally different classes of microbial genes. Nature
Microbiology. [IF=4.448, Cited=22, 27819663].
Bhoobalan-Chitty Y, Xu S, Martinez-Alvarez L, ..., Peng X (2024) Regulatory sequence-based discovery of anti-defense
genes in archaeal viruses. Nature Communications. [IF=3.268, Cited=0, 38698035].
Yutin N, Makarova K, Gussow AB, ..., Koonin EV (2017) Discovery of an expansive bacteriophage family that includes the
most abundant viruses from the human gut. Nature Microbiology. [IF=4.448, Cited=131, 29133882].
He F, Bhoobalan-Chitty Y, Van LB, ..., Peng X (2018) Anti-CRISPR proteins encoded by archaeal lytic viruses inhibit
subtype I-D immunity. Nature Microbiology. [IF=4.448, Cited=76, 29507349].
He F, Bhoobalan-Chitty Y, Van LB, ..., Peng X (2018) Publisher Correction: Anti-CRISPR proteins encoded by archaeal
lytic viruses inhibit subtype I-D immunity. Nature Microbiology. [IF=4.448, Cited=1, 29934592].
Koonin EV, Makarova K, Wolf YI, Krupovic M (2019) Evolutionary entanglement of mobile genetic elements and host defence
systems: guns for hire. Nature Reviews Genetics. [IF=8.261, Cited=87, 31611667].
Makarova K, Makarova KS, Wolf YI, ..., Koonin EV (2019) Evolutionary classification of CRISPR-Cas systems: a burst of
class 2 and derived variants. Nature Reviews Microbiology. [IF=6.979, Cited=809, 31857715].
Shmakov SA, Faure G, Makarova K, ..., Koonin EV (2019) Systematic prediction of functionally linked genes in bacterial
and archaeal genomes. None. [IF=None, Cited=14, 31520072].
Eseev MK, Goshev AA, Makarova K, Makarov DN (2021) X-ray diffraction analysis of matter taking into account the second
harmonic in the scattering of powerful ultrashort pulses of an electromagnetic field. Scientific Reports. [IF=1.312,
Cited=3, 33574452].
Makarov DN, Gusarevich ES, Goshev AA, ..., Tsykareva YV (2021) Quantum entanglement and statistics of photons on a beam
splitter in the form of coupled waveguides. Scientific Reports. [IF=1.312, Cited=2, 33986464].
Makarov DN, Makarova K, Kharlamova AA (2022) Specificity of scattering of ultrashort laser pulses by molecules with
polyatomic structure. Scientific Reports. [IF=1.312, Cited=2, 35322132].
Smirnova E, Goldberg EB, Makarova K, ..., Jackson CL (2006) ATGL has a key role in lipid droplet/adiposome degradation
in mammalian cells. EMBO Reports. [IF=1.375, Cited=205, 16239926].
Makarova K, Wolf YI, Koonin EV (2019) Towards functional characterization of archaeal genomic dark matter. Biochemical
Society Transactions. [IF=0.925, Cited=23, 30710061].
Hou S, Saw JH, Lee KS, ..., Alam M (2004) Genome sequence of the deep-sea gamma-proteobacterium Idiomarina loihiensis
reveals amino acid fermentation as a source of carbon and energy. Proceedings of the National Academy of Sciences of the
United States of America. [IF=2.765, Cited=77, 15596722].
Shmakov SA, Makarova K, Wolf YI, ..., Koonin EV (2018) Systematic prediction of genes functionally linked to CRISPR-Cas
systems by gene neighborhood analysis. Proceedings of the National Academy of Sciences of the United States of America.
[IF=2.765, Cited=75, 29784811].
Krupovic M, Makarova K, Koonin EV (2022) Cellular homologs of the double jelly-roll major capsid proteins clarify the
origins of an ancient virus kingdom. Proceedings of the National Academy of Sciences of the United States of America.
[IF=2.765, Cited=16, 35078938].
Persi E, Wolf YI, Karamycheva S, ..., Koonin EV (2023) Compensatory relationship between low-complexity regions and gene
paralogy in the evolution of prokaryotes. Proceedings of the National Academy of Sciences of the United States of
America. [IF=2.765, Cited=3, 37036997].
Altae-Tran H, Shmakov SA, Makarova K, ..., Koonin EV (2023) Diversity, evolution, and classification of the RNA-guided
nucleases TnpB and Cas12. Proceedings of the National Academy of Sciences of the United States of America. [IF=2.765,
Cited=2, 37983496].
Raghunathan A, Price ND, Galperin MY, ..., Kolker E (2004) In Silico Metabolic Model and Protein Expression of
Haemophilus influenzae Strain Rd KW20 in Rich Medium. OMICS A Journal of Integrative Biology. [IF=0.652, Cited=28, 15107235].
Makarova K, Wolf YI, Koonin EV (2018) Classification and Nomenclature of CRISPR-Cas Systems: Where from Here? CRISPR
Journal. [IF=0.697, Cited=108, 31021272].
Nethery MA, Korvink M, Makarova K, ..., Barrangou R (2021) CRISPRclassify: Repeat-Based Classification of CRISPR Loci.
CRISPR Journal. [IF=0.697, Cited=8, 34406047].
Moya-Beltrán A, Makarova K, Acuña LG, ..., Quatrini R (2021) Evolution of Type IV CRISPR-Cas Systems: Insights from
CRISPR Loci in Integrative Conjugative Elements of Acidithiobacillia. CRISPR Journal. [IF=0.697, Cited=14, 34582696].
Makarova K, Mazin AV, Wolf YI, Soloviev VV (1992) DIROM: an experimental design interactive system for directed
mutagenesis and nucleic acids engineering. None. [IF=None, Cited=1, 1422875].
Makarova K, Karamycheva S, Shah SA, ..., Koonin EV (2019) Predicted highly derived class 1 CRISPR-Cas system in
Haloarchaea containing diverged Cas5 and Cas7 homologs but no CRISPR array. FEMS Microbiology Letters. [IF=0.605,
Cited=7, 30993331].
Makarova K, Gao L, Zhang F, Koonin EV (2019) Unexpected connections between type VI-B CRISPR-Cas systems, bacterial
natural competence, ubiquitin signaling network and DNA modification through a distinct family of membrane proteins.
FEMS Microbiology Letters. [IF=0.605, Cited=9, 31089700].
Ausiannikava D, Mitchell L, Marriott H, ..., Allers T (2018) Evolution of Genome Architecture in Archaea: Spontaneous
Generation of a New Chromosome in Haloferax volcanii. Molecular Biology and Evolution. [IF=3.197, Cited=13, 29668953].
Makarova K, Timinskas A, Wolf YI, ..., Koonin EV (2020) Evolutionary and functional classification of the CARF domain
superfamily, key sensors in prokaryotic antivirus defense. Nucleic Acids Research. [IF=4.663, Cited=43, 32735657].
Shmakov SA, Barth ZK, Makarova K, ..., Koonin EV (2023) Widespread CRISPR-derived RNA regulatory elements in CRISPR-Cas
systems. Nucleic Acids Research. [IF=4.663, Cited=7, 37283088].
Fonfara I, Le Rhun A, Chylinski K, ..., Charpentier E (2013) Phylogeny of Cas9 determines functional exchangeability of
dual-RNA and Cas9 among orthologous type II CRISPR-Cas systems. Nucleic Acids Research. [IF=4.663, Cited=200, 24270795].
Wilcox B, Osterman I, Serebryakova M, ..., Severinov K (2018) Escherichia coli ItaT is a type II toxin that inhibits
translation by acetylating isoleucyl-tRNAIle. Nucleic Acids Research. [IF=4.663, Cited=22, 29931259].
Koonin EV, Makarova K (2019) Origins and evolution of CRISPR-Cas systems. Philosophical Transactions of the Royal
Society B: Biological Sciences. [IF=1.629, Cited=138, 30905284].
Shmakov SA, Barth ZK, Makarova K, ..., Koonin EV (2023) Widespread CRISPR repeat-like RNA regulatory elements in CRISPR-
Cas systems. None. [IF=None, Cited=0, 37090614].
Zhao S, Makarova K, Zheng W, ..., Du S (2023) Widespread PRC barrel proteins play critical roles in archaeal cell
division. None. [IF=None, Cited=0, 37090588].
Makarova K, Tobiasson V, Wolf YI, ..., Koonin EV (2024) Diversity, Origin and Evolution of the ESCRT Systems. None.
[IF=None, Cited=0, 38903064].
Wolf YI, Schurov IV, Makarova K, ..., Koonin EV (2024) Long range segmentation of prokaryotic genomes by gene age and
functionality. None. [IF=None, Cited=0, 38903122].
Makarova K, Aravind L, Koonin EV (1999) A superfamily of archaeal, bacterial, and eukaryotic proteins homologous to
animal transglutaminases. Protein Science. [IF=1.97, Cited=96, 10452618].
Krupovic M, Makarova K, Wolf YI, ..., Koonin EV (2019) Integrated mobile genetic elements in Thaumarchaeota.
Environmental Microbiology. [IF=1.263, Cited=23, 30773816].
Brouns SJJ, Jore MM, Lundgren M, ..., van der Oost J (2008) Small CRISPR RNAs guide antiviral defense in prokaryotes.
Science. [IF=7.729, Cited=1000, 18703739].
White O, Eisen JA, Heidelberg JF, ..., Fraser CM (1999) Genome sequence of the radioresistant bacterium Deinococcus
radiodurans R1. Science. [IF=7.729, Cited=537, 10567266].
Mohanraju P, Makarova K, Zetsche B, ..., van der Oost J (2016) Diverse evolutionary roots and mechanistic variations of
the CRISPR-Cas systems. Science. [IF=7.729, Cited=304, 27493190].
Koonin EV, Makarova K (2018) Anti-CRISPRs on the march. Science. [IF=7.729, Cited=13, 30309933].
Altae-Tran H, Kannan S, Demircioglu FE, ..., Zhang F (2021) The widespread IS200/IS605 transposon family encodes diverse
programmable RNA-guided endonucleases. Science. [IF=7.729, Cited=111, 34591643].
Ariel N, Zvi A, Makarova K, ..., Shafferman A (2003) Genome-based bioinformatic selection of chromosomal Bacillus
anthracis putative vaccine candidates coupled with proteomic identification of surface-associated antigens. Infection
and Immunity. [IF=0.766, Cited=63, 12874336].
Makarova K, Wolf YI, Karamycheva S, ..., Koonin EV (2019) Antimicrobial Peptides, Polymorphic Toxins, and Self-Nonself
Recognition Systems in Archaea: an Untapped Armory for Intermicrobial Conflicts. mBio. [IF=1.357, Cited=29, 31064832].
Shmakov SA, Sitnik V, Makarova K, ..., Koonin EV (2017) The CRISPR Spacer Space Is Dominated by Sequences from Species-
Specific Mobilomes. mBio. [IF=1.357, Cited=116, 28928211].
Makarova K, Tobiasson V, Wolf YI, ..., Koonin EV (2024) Diversity, origin, and evolution of the ESCRT systems. mBio.
[IF=1.357, Cited=0, 38380930].
Makarova K, Anantharaman V, Aravind L, Koonin EV (2012) Live virus-free or die: coupling of antivirus immunity and
programmed suicide or dormancy in prokaryotes. Biology Direct. [IF=0.893, Cited=86, 23151069].
Makarova K, Mironov AA, Gelfand MS (2001) Conservation of the binding site for the arginine repressor in all bacterial
lineages. None. [IF=None, Cited=35, 11305941].
Karamycheva S, Wolf YI, Persi E, ..., Makarova K (2022) Analysis of lineage-specific protein family variability in
prokaryotes combined with evolutionary reconstructions. Biology Direct. [IF=0.893, Cited=4, 36042479].
Makarova K, Wolf YI, Karamycheva S, Koonin EV (2021) A Unique Gene Module in Thermococcales Archaea Centered on a
Hypervariable Protein Containing Immunoglobulin Domains. Frontiers in Microbiology. [IF=1.331, Cited=1, 34489912].
Makarova K, Wulf YuI N, Tereza EP, Ratner VA (1998) [Different patterns of molecular evolution of influenza A viruses in
avian and human population]. None. [IF=None, Cited=0, 9749330].
Makarova K, Wulf II, Tereza EP, Ratner VA (1998) [Comparison of the synonymous and non-synonymous substitution rates in
various regions of the neuraminidase and hemagglutinin genes of the influenza A virus]. None. [IF=None, Cited=0, 9777350].

Publication with MISSING institution:

Lyozin GT, Makarova K, Velikodvorskaja VV, ..., Evgen'ev MB (2001) The structure and evolution of Penelope in the
virilis species group of Drosophila: an ancient lineage of retroelements. Journal of Molecular Evolution. [IF=0.895,
Cited=36, 11443348].
Esser D, Kouril T, Zaparty M, ..., Siebers B (2011) Functional curation of the Sulfolobus solfataricus P2 and S.
acidocaldarius 98-3 complete genome sequences. Extremophiles. [IF=0.793, Cited=15, 21912952].
Quax TEF, Wolf YI, Koehorst JJ, ..., van der Oost J (2013) Differential translation tunes uneven production of operon-
encoded proteins. Cell Reports. [IF=1.738, Cited=52, 24012761].
Ghosal D, Omelchenko MV, Gaidamakova EK, ..., Daly MJ (2005) How radiation kills cells: survival of Deinococcus
radiodurans and Shewanella oneidensis under oxidative stress. FEMS Microbiology Reviews. [IF=2.966, Cited=134, 15808748].
Mills DA, Rawsthorne H, Parker C, ..., Makarova K (2005) Genomic analysis of Oenococcus oeni PSU-1 and its relevance to
winemaking. FEMS Microbiology Reviews. [IF=2.966, Cited=86, 16125008].
Moroz OV, Murzin AG, Makarova K, ..., Galperin MY (2005) Dimeric dUTPases, HisE, and MazG belong to a new superfamily of
all-alpha NTP pyrophosphohydrolases with potential "house-cleaning" functions. Journal of Molecular Biology. [IF=1.281,
Cited=56, 15740738].
Nocek B, Tikhonov A, Babnigg G, ..., Joachimiak A (2012) Structural and functional characterization of microcin C
resistance peptidase MccF from Bacillus anthracis. Journal of Molecular Biology. [IF=1.281, Cited=16, 22516613].
Klimuk E, Akulenko N, Makarova K, ..., Severinov K (2012) Host RNA polymerase inhibitors encoded by ϕKMV-like phages of
Pseudomonas. Virology. [IF=0.835, Cited=12, 23127595].
Kozmin SG, Schaaper RM, Shcherbakova PV, ..., Pavlov YI (1998) Multiple antimutagenesis mechanisms affect mutagenic
activity and specificity of the base analog 6-N-hydroxylaminopurine in bacteria and yeast. Mutation Research -
Fundamental and Molecular Mechanisms of Mutagenesis. [IF=0.498, Cited=34, 9675240].
Jordan IK, Makarova K, Wolf YI, Koonin EV (2001) Gene conversions in genes encoding outer-membrane proteins in H. pylori
and C. pneumoniae. Trends in Genetics. [IF=2.117, Cited=14, 11163905].
Mulkidjanian AY, Makarova K, Galperin MY, Koonin EV (2007) Inventing the dynamo machine: the evolution of the F-type and
V-type ATPases. Nature Reviews Microbiology. [IF=6.979, Cited=102, 17938630].
Beloglazova N, Brown G, Zimmerman MD, ..., Yakunin AF (2008) A novel family of sequence-specific endoribonucleases
associated with the clustered regularly interspaced short palindromic repeats. Journal of Biological Chemistry.
[IF=1.122, Cited=126, 18482976].
Rogozin IB, Makarova K, Wolf YI, Koonin EV (2004) Computational approaches for the analysis of gene neighbourhoods in
prokaryotic genomes. Briefings in Bioinformatics. [IF=1.732, Cited=37, 15260894].
Galperin MY, Kristensen DM, Makarova K, ..., Koonin EV (2019) Microbial genome analysis: the COG approach. Briefings in
Bioinformatics. [IF=1.732, Cited=111, 28968633].
Solovyev VV, Makarova K (1993) A novel method of protein sequence classification based on oligopeptide frequency
analysis and its application to search for functional sites and to domain localization. None. [IF=None, Cited=13, 8435763].
Yutin N, Makarova K, Mekhedov SL, ..., Koonin EV (2008) The deep archaeal roots of eukaryotes. Molecular Biology and
Evolution. [IF=3.197, Cited=121, 18463089].
Aravind L, Makarova K, Koonin EV (2000) SURVEY AND SUMMARY: holliday junction resolvases and related nucleases:
identification of new families, phyletic distribution and evolutionary trajectories. Nucleic Acids Research. [IF=4.663,
Cited=213, 10982859].
Rogozin IB, Makarova K, Murvai J, ..., Koonin EV (2002) Connected gene neighborhoods in prokaryotic genomes. Nucleic
Acids Research. [IF=4.663, Cited=117, 12000841].
Rogozin IB, Makarova K, Natale DA, ..., Koonin EV (2002) Congruent evolution of different classes of non-coding DNA in
prokaryotic genomes. Nucleic Acids Research. [IF=4.663, Cited=59, 12364605].
Kolker E, Makarova K, Shabalina S, ..., Galperin MY (2004) Identification and functional analysis of 'hypothetical'
genes expressed in Haemophilus influenzae. Nucleic Acids Research. [IF=4.663, Cited=51, 15121896].
Iyer LM, Makarova K, Koonin EV, Aravind L (2004) Comparative genomics of the FtsK-HerA superfamily of pumping ATPases:
implications for the origins of chromosome segregation, cell division and viral capsid packaging. Nucleic Acids
Research. [IF=4.663, Cited=223, 15466593].
Fozo EM, Makarova K, Shabalina SA, ..., Storz G (2010) Abundance of type I toxin-antitoxin systems in bacteria: searches
for new candidates and discovery of novel families. Nucleic Acids Research. [IF=4.663, Cited=169, 20156992].
Jordan IK, Makarova K, Spouge JL, ..., Koonin EV (2001) Lineage-specific gene expansions in bacterial and archaeal
genomes. Genome Research. [IF=1.745, Cited=116, 11282971].
Rogozin IB, Babenko VN, Fedorova ND, ..., Koonin EV (2003) Evolution of eukaryotic gene repertoire and gene structure:
discovering the unexpected dynamics of genome evolution. Cold Spring Harbor Symposia on Quantitative Biology. [IF=0.889,
Cited=1, 15338629].
Omelchenko MV, Makarova K, Koonin EV (2002) Recurrent intragenomic recombination leading to sequence homogenization
during the evolution of the lipoyl-binding domain. FEMS Microbiology Letters. [IF=0.605, Cited=0, 12007814].
Ponomarev VA, Makarova K, Aravind L, Koonin EV (2003) Gene duplication with displacement and rearrangement: origin of
the bacterial replication protein PriB from the single-stranded DNA-binding protein Ssb. None. [IF=None, Cited=18, 12867746].
Omelchenko MV, Wolf YI, Gaidamakova EK, ..., Makarova K (2005) Comparative genomics of Thermus thermophilus and
Deinococcus radiodurans: divergent routes of adaptation to thermophily and radiation resistance. None. [IF=None,
Cited=106, 16242020].
Mukhamedyarov D, Makarova K, Severinov K, Kuznedelov K (2011) Francisella RNA polymerase contains a heterodimer of non-
identical α subunits. BMC Molecular Biology. [IF=1.193, Cited=5, 22108176].
Krupovic M, Makarova K, Forterre P, ..., Koonin EV (2014) Casposons: a new superfamily of self-synthesizing DNA
transposons at the origin of prokaryotic CRISPR-Cas immunity. BMC Biology. [IF=1.461, Cited=117, 24884953].
Koonin EV, Makarova K, Elkins JG (2007) Orthologs of the small RPB8 subunit of the eukaryotic RNA polymerases are
conserved in hyperthermophilic Crenarchaeota and "Korarchaeota". Biology Direct. [IF=0.893, Cited=25, 18081935].
Mulkidjanian AY, Galperin MY, Makarova K, ..., Koonin EV (2008) Evolutionary primacy of sodium bioenergetics. Biology
Direct. [IF=0.893, Cited=82, 18380897].
Podar M, Wall MA, Makarova K, Koonin EV (2008) The prokaryotic V4R domain is the likely ancestor of a key component of
the eukaryotic vesicle transport system. Biology Direct. [IF=0.893, Cited=20, 18221539].
Hou S, Makarova K, Saw JHW, ..., Alam M (2008) Complete genome sequence of the extremely acidophilic methanotroph
isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia. Biology Direct.
[IF=0.893, Cited=109, 18593465].
Rogozin IB, Makarova K, Pavlov YI, Koonin EV (2008) A highly conserved family of inactivated archaeal B family DNA
polymerases. Biology Direct. [IF=0.893, Cited=27, 18684330].
Tahirov TH, Makarova K, Rogozin IB, ..., Koonin EV (2009) Evolution of DNA polymerases: an inactivated polymerase-
exonuclease module in Pol epsilon and a chimeric origin of eukaryotic polymerases from two classes of archaeal
ancestors. Biology Direct. [IF=0.893, Cited=75, 19296856].
Blombach F, Makarova K, Marrero J, ..., van der Oost J (2009) Identification of an ortholog of the eukaryotic RNA
polymerase III subunit RPC34 in Crenarchaeota and Thaumarchaeota suggests specialization of RNA polymerases for coding
and non-coding RNAs in Archaea. Biology Direct. [IF=0.893, Cited=24, 19828044].
Wolf YI, Makarova K, Yutin N, Koonin EV (2012) Updated clusters of orthologous genes for Archaea: a complex ancestor of
the Archaea and the byways of horizontal gene transfer. Biology Direct. [IF=0.893, Cited=114, 23241446].
Anantharaman V, Makarova K, Burroughs AM, ..., Aravind L (2013) Comprehensive analysis of the HEPN superfamily:
identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing. Biology Direct.
[IF=0.893, Cited=148, 23768067].
Podar M, Makarova K, Graham DE, ..., Reysenbach AL (2013) Insights into archaeal evolution and symbiosis from the
genomes of a nanoarchaeon and its inferred crenarchaeal host from Obsidian Pool, Yellowstone National Park. Biology
Direct. [IF=0.893, Cited=59, 23607440].
Koonin EV, Makarova K, Rogozin IB, ..., Pellegrini L (2003) The rhomboids: a nearly ubiquitous family of intramembrane
serine proteases that probably evolved by multiple ancient horizontal gene transfers. None. [IF=None, Cited=132, 12620104].
Omelchenko MV, Makarova K, Wolf YI, ..., Koonin EV (2003) Evolution of mosaic operons by horizontal gene transfer and
gene displacement in situ. None. [IF=None, Cited=94, 12952534].
Koonin EV, Fedorova ND, Jackson JD, ..., Natale DA (2004) A comprehensive evolutionary classification of proteins
encoded in complete eukaryotic genomes. None. [IF=None, Cited=529, 14759257].
Podar M, Anderson I, Makarova K, ..., Stetter KO (2008) A genomic analysis of the archaeal system Ignicoccus hospitalis-
Nanoarchaeum equitans. None. [IF=None, Cited=81, 19000309].
Saw JH, Mountain BW, Feng L, ..., Alam M (2008) Encapsulated in silica: genome, proteome and physiology of the
thermophilic bacterium Anoxybacillus flavithermus WK1. None. [IF=None, Cited=45, 19014707].
Makarov DN, Makarova K (2024) Quantum beam splitter based on free charged particles. Optics Letters. [IF=1.297,
Cited=0, 38824323].
Foster J, Ganatra M, Kamal I, ..., Slatko B (2005) The Wolbachia genome of Brugia malayi: endosymbiont evolution within
a human pathogenic nematode. PLoS Biology. [IF=2.285, Cited=381, 15780005].
Siebers B, Zaparty M, Raddatz G, ..., Hensel R (2011) The complete genome sequence of Thermoproteus tenax: a
physiologically versatile member of the Crenarchaeota. PLoS ONE. [IF=1.253, Cited=34, 22003381].
Swanson MM, Reavy B, Makarova K, ..., Taliansky M (2012) Novel bacteriophages containing a genome of another
bacteriophage within their genomes. PLoS ONE. [IF=1.253, Cited=30, 22815791].
Koonin EV, Makarova K (2009) CRISPR-Cas: an adaptive immunity system in prokaryotes. None. [IF=None, Cited=51, 20556198].
Koonin EV, Makarova K (2013) CRISPR-Cas: evolution of an RNA-based adaptive immunity system in prokaryotes. RNA Biology.
[IF=0.745, Cited=96, 23439366].
Makarova K, Popova MM (1975) [The Olympiad health for school children of junior grades]. None. [IF=None, Cited=0, 1041938].
Lezin GT, Makarova K, Velikodvorskaia VV, ..., Evgen'ev MB (2001) [Structure and evolutionary role of the Penelope
mobile element in Drosophila species of the virilis group]. None. [IF=None, Cited=0, 11605533].
Petrova AS, Shapiro NA, Makarova K (1975) [Cytologic diagnosis of different histologic forms of lung cancer]. Arkhiv
Patologii. [IF=0.235, Cited=0, 1221987].
Solov'ev VV, Makarova K (1992) [Search for functional domain boundaries and localization of functional sites based on
oligopeptide vocabularies]. None. [IF=None, Cited=0, 1339954].
Makarova K, Bul'f IV, Mazin AV, Solov'ev VV (1992) ["DIROM"--an interactive system for planning experiments on directed
mutagenesis and design of artificial genes]. None. [IF=None, Cited=0, 1508174].
Makarova K (1986) [Optimizing the hygiene education of younger schoolchildren]. None. [IF=None, Cited=0, 3646117].
Shapiro NA, Makarova K (1973) [Cytological diagnosis of sarcoidosis of the organs of respiration]. None. [IF=None,
Cited=0, 4133147].
Manevich VL, Stonogin VD, Bogdanov AV, ..., Tsipel'zon AM (1968) [Bronchial adenomas]. None. [IF=None, Cited=0, 4299305].
Shapiro NA, Makarova K, Tsipel'zon AM (1973) [Cytologic diagnosis of bronchial carcinoid]. Voprosy Onkologii. [IF=0.136,
Cited=0, 4363295].
Gorokhova EM, Gokhberg VP, Makarova K, Shapiro NA (1974) [Bronchological study in sarcoidosis of the respiratory
organs]. None. [IF=None, Cited=0, 4408706].
Stonogin VD, Makarova K (1972) [Hemangiopericytomas of the lung]. None. [IF=None, Cited=0, 4662332].
Stonogin VD, Makarova K (1972) [Pathomorphologic changes in the scannographic images of patients with suppurative
diseases and tumors of the lungs]. None. [IF=None, Cited=0, 4665123].
Kharitonov LG, Makarova K (1972) [Clinico-morphological parallels in cancer of the esophagus and cardia]. Pirogov
Russian Journal of Surgery. [IF=0.214, Cited=0, 4667288].
Kushniruk TT, Makarova K (1973) [Experimental "calculous" appendicitis]. None. [IF=None, Cited=0, 4755357].
Makarova K, Shapiro NA, Linnik TI (1973) [Endometrial sarcoidosis]. Akusherstvo i Ginekologiya (Russian Federation).
[IF=0.226, Cited=0, 4760977].
Makarova K, Shapiro NA (1973) [Morphology of sarcoid granuloma]. Arkhiv Patologii. [IF=0.235, Cited=0, 4770199].
Makarova K, Shapiro NA, Tret'iakova ZV (1973) [Case of isolated sarcoidosis of lymphoepithelial pharyngeal ring (an
18-year-long case)]. Vestnik Otorinolaringologii. [IF=0.341, Cited=0, 4774956].
Shul'tsev GP, Makarova K (1973) [Clinical analysis of lethal outcome in treated patients]. None. [IF=None, Cited=0, 4779008].
Gloriozova TG, Makarova K (1973) [Acute disorders of the cerebral circulation in chronic kidney diseases]. None.
[IF=None, Cited=0, 4791352].
Bogdanov AV, Stonogin VD, Makarova K (1970) [Rare tumors of the pleura]. None. [IF=None, Cited=0, 4911510].
Manevich VL, Filonenko AP, Visaitov BA, ..., Makarova K (1971) [Functional disorders in chronic suppurative and
neoplastic diseases of the lungs]. None. [IF=None, Cited=0, 5098833].
Zaslavskaia RM, Ovchinnikova GM, Makarova K (1971) [Marfan's syndrome]. None. [IF=None, Cited=0, 5151421].
Dibizheva GV, Makarova K (1968) [A case of massive gastric hemorrhage in anticoagulant therapy with the development of
marked azotemia]. None. [IF=None, Cited=0, 5304784].
Kraĭtser LI, Kharitonov LG, Mumladze RB, Makarova K (1969) [Surgical aspects of sarcoidosis]. Pirogov Russian Journal of
Surgery. [IF=0.214, Cited=0, 5358299].
Antonidze AV, Krylova EA, Makarova K (1969) [Clinical picture of systemic vasculitis with lung involvement and asthmatic
state]. None. [IF=None, Cited=0, 5382398].
Gloriozova TG, Makarova K (1967) [Lesions of the nervous systme in lymphogranulomatosis]. None. [IF=None, Cited=0, 5598770].
Lezhnev AN, Makarova K (1967) [A rare form of nodular goiter--an adenoma of Huerthle's cells]. None. [IF=None, Cited=0, 5606605].
Zhingel' IP, Makarova K (1968) [Mediastinoscopy in some diseases of the lungs and mediastinum]. None. [IF=None,
Cited=0, 5668946].
Bugaeva MI, Guseva EM, Makarova K (1968) [Cystic dilatation of mucous glands of the bronchi in a child after
intratracheal infusion of Tibon suspension]. Vestnik Otorinolaringologii. [IF=0.341, Cited=0, 5716173].
Prokhorov EP, Rabukhin AE, Shul'tsev GP, ..., Tiukavkin AM (1968) [Peculiarities of pathogenesis and pathomorphology of
tuberculosis during corticosteroid therapy of patients with collagenosis]. None. [IF=None, Cited=0, 5737383].
Makarova K, Bogdanov AV (1965) [Status of esphago-intestinal anastomosis 15 years after gastectomy in cancer of the
upper portion of the stomach spreading to the esophagus]. Pirogov Russian Journal of Surgery. [IF=0.214, Cited=0, 5845467].
Vilkovyskiĭ AL, Ostapiuk FE, Makarova K (1965) [Heart rupture in myocardial infarct]. None. [IF=None, Cited=0, 5868535].
Makarova K, Ponomarev LE, Petrova MM, Kurbatova LI (1965) [Clinical and anatomical studies of some forms of toxic goiter
following treatment with radioactive iodine]. Terapevticheskii Arkhiv. [IF=0.295, Cited=0, 5873503].
Kulakov GP, Konovalov GA, Melikian AM, Makarova K (1983) [Sequential ultrafiltration with hemodialysis in treating
chronic kidney failure]. None. [IF=None, Cited=0, 6829090].
Makarova K (1980) [Daily regimen of young schoolchildren according to questionnaire sampling data of the students and
their parents]. None. [IF=None, Cited=0, 6898492].
Petelin LS, Fokin MA, Kulakov GP, ..., Makarova K (1978) [Clinical aspects and pathogenesis of nervous system diseases
in acute renal insufficiency]. None. [IF=None, Cited=0, 703241].
Chesnokova EV, Charnyĭ AM, Makarova K (1982) [Clinical aspects and diagnosis of gastric sarcomas]. None. [IF=None,
Cited=0, 7040796].
Dmitrieva KV, Brezgin VS, Zhukova LG, Makarova K (1978) [Causes of death in tuberculosis of the respiratory organs].
None. [IF=None, Cited=0, 704585].
Manevich VL, Iurchenko SV, Upyrev AV, ..., Shaniro NA (1982) [Endoscopic pancreatocholangiography and brush biopsy in
diseases of the pancreas and biliary tract]. Pirogov Russian Journal of Surgery. [IF=0.214, Cited=0, 7062655].
Shul'tsev GP, Makarova K, Chebotareva VM (1980) [Case of Hamman-Rich disease]. None. [IF=None, Cited=0, 7206626].
Manevich VL, Bogdanov AV, Stonogin VD, Makarova K (1981) [Causes of bronchial stump incompetence (clinical and
morphological parallels)]. None. [IF=None, Cited=0, 7215928].
Shul'tsev GP, Vladimirova AV, Makarova K (1978) [Renal infarcts]. None. [IF=None, Cited=0, 723201].
Khudushina TA, Maslakova MG, Makarova K, Iakovleva NK (1980) [Primary disability as a consequence of tuberculosis].
None. [IF=None, Cited=0, 7384023].
Seledtsov IA, Vul'f II, Makarova K (1995) [Multiple alignment of biopolymer sequences, based on the search for
statistically significant common segments]. None. [IF=None, Cited=0, 8538598].
Makarova K, Vul'f II, Seledtsov IA, Ratner VA (1995) [Evolution of gypsy-group retrotransposons: phylogenetic analysis
of domains included in the pol-polyprotein]. None. [IF=None, Cited=0, 8601507].
Vul'f II, Makarova K, Ratner VA (1996) [Evolution modes of eukaryote retrotransposons]. None. [IF=None, Cited=0, 8647422].
Tsoĭ GV, Struzhko KG, Makarova K, Grigorevskiĭ VP (1977) [Role of puncture biopsy in the study of morphological changes
in the pancreas]. Pirogov Russian Journal of Surgery. [IF=0.214, Cited=0, 904207].
Makarova K (1997) [A small open reading frame of the Stalker retrotransposon reveals a high similarity to the second
small frame of the MDG1 retrotransposon]. None. [IF=None, Cited=0, 9378281].
Gruntenko NE, Kochetov AV, Makarova K, ..., Kokoza VA (1998) [Gene Nc73EF of Drosophila melanogaster encodes a protein
highly homologous to E1 subunit of human 2-oxoglutarate dehydrogenase]. None. [IF=None, Cited=0, 9532450].
Shul'tsev GP, Makarova K, Vladimirova AV (1976) [Changes in the internal organs of persons having been injured during
the Great Patriotic War]. None. [IF=None, Cited=0, 972508].