CY

Publications

2024

  • Hassard F., Curtis T.P., Dotro G.C., Golyshin P., Gutierrez T., Heaven S., Horsfall L., Jefferson B., Jones D.L., Krasnogor N., Kumar V., Lea-Smith D.J., Le Corre Pidou K., Liu Y., Lyu T., McCarthy R.R., McKew B., Smith C., Yakunin A., Yang Z., Zhang Y., Coulon F. (2024) Scaling-up Engineering Biology for Enhanced Environmental Solutions. ACS Synthetic Biology. 13(6):1586-1588. doi: 10.1021/acssynbio.4c00292.
  • Diep P., Stogios P.J., Evdokimova E., Savchenko A., Mahadevan R., Yakunin A.F. (2024) Ni(II)-binding affinity of CcNikZ-II and its homologs: the role of the HH-prong and variable loop revealed by structural and mutational studies. FEBS Journal. 291(13):2980-2993. doi: 10.1111/febs.17125.
  • Tulloch C.L., Bargiela R., Williams, G.B. Chernikova T.N., Cotterell B.M., Wellington E.M.H., Christie-Oleza J.A., Thomas D.N., Jones D.L., and Golyshin P.N. (2024) Temporal dynamics of microbial communities colonising plastics during transition from the wastewater treatment plant to marine waters. Environmental Microbiome. 19(1):27. doi:10.1186/s40793-024-00569-2.
  • Tulloch C.L., Cotterell B.M., Pântea I., Jones D.L. and Golyshin P.N. (2024) Selective  microbial attachment to LDPE plastic beads during passage through the wastewater network. Chemosphere. 14:142618. doi:10.1016/j.chemosphere.2024.142618.

2023

  • Graf, M., Greenfield, L.M., Reay, M.K., Bargiela, R., Williams, G.B., Onyije, C., Lloyd, C.E.M., Bull, I.D., Evershed,, R.P., Golyshin, P.N., Chadwick, D.R., and Jones D.L. (2023). Increasing concentration of pure micro- and macro-LDPE and PP plastic negatively affect crop biomass, nutrient cycling, and microbial biomass. Journal of Hazardous Materials, 458:131932.
  • La Cono, V., Messina, E., Reva, O., Smedile, F., La Spada, G., Crisafi, F., Marturano, L, Miguez, N., Ferrer, M., Selivanova, E.A., Golyshina, O.V., Golyshin, P.N., Rohde, M., Krupovic, M., Merkel, A.Y., Sorokin, D.Y., Hallsworth ,J.E., and Yakimov M.M. (2023). Nanohaloarchaea as beneficiaries of xylan degradation by haloarchaea. Microbial Biotechnology, 16(9):1803-1822.
  • Williams, G.B., Ma, H., Khusnutdinova, A.N., Yakunin, A.F. and Golyshin, P.N. (2023) Harnessing extremophilic carboxylesterases for applications in polyester depolymerisation and plastic waste recycling. Essays in Biochemistry,  67(4):715-729.
  • Bargiela, R., Korzhenkov, A.A., McIntosh, O.A., Toshchakov, S.V., Yakimov, M.M., Golyshin, P.N., andGolyshina, O.V.  (2023). Evolutionary patterns of archaea predominant in acidic environment. Environmental Microbiome 18:61.
  • Lin, Y.-H., Nishikawa, S., Jia, T. Z., Yeh, F.-I., Khusnutdinova, A.N., Yakunin, A.F., Fujishima, K., and Wang, P.-H. One-pot chemo-enzymatic synthesis and one-step recovery of length-variable long-chain polyphosphates from microalgal biomass. RSC Green Chemistry, 25:9896, 2023
  • Khusnutdinova, A.N., Batyrova, K.A., Brown, G., Fedorchuk, T., Chai, Y.S., Skarina, T., Flick, R., Petit, A-P., Savchenko, A., Stogios, P., and Yakunin, A.F. (2023). Structural insights into hydrolytic defluorination of difluoroacetate by microbial fluoroacetate dehalogenases. FEBS Journal, 290:4966-4983,
  • Diep, P., Shen, S., Wiesner, J.A., Mykytczuk, N., Papangelakis, V., Yakunin, A.F., and Mahadevan, R. (2023) Engineering nickel bioaccumulation in Escherichia coli by NikABCDE transporter and metallothionein overexpression. Engineering in  Life Sciences, e2200133,
  • Diep, P., Kell, B., Yakunin, A.F., Hilfinger, A., and Mahadevan, R. (2023). Quantifying metal-binding specificity of CcNikZ-II from Clostridium carboxidivorans in the presence of competing metal ions. Analytical  Biochemistry, 676:115182
  • Karlikow, M., Amalfitano, E., Yang, X., Doucet, J., Chapman, A., Sadat-Moussavi, P., Homme, P., Sutyrina, P., Chan, W., Lemak, S., Yakunin, A.F., Dolezal, A.G., Kelley, S., Foster, L.J., Harpur, B., and Pardee, K. (2023) A PAM-free CRISPR induced DNA reorganization for multiplexed nucleic acid detection. Nature  Communications, 14(1):1505.
  • Molina-Espeja, P., Sanz-Aparicio, S., Golyshin, P.N., et al., The FuturEnzyme Consortium (2023). Enzymes for consumer products to achieve climate neutrality. Oxford Open Climate Change, kgad003 doi: 10.1093/oxfclm/kgad003
  • Molina-Espeja, P., Fernandez-Lopez, L., Golyshin, P.N., and Ferrer, M. (2023). Assigning Functions of Unknown Enzymes by High-Throughput Enzyme Characterization. Methods in Molecular Biology2555:181-194. doi: 10.1007/978-1-0716-2795-2_13.
  • El Houari, A., Carpenter, M., Chaplin, D., Golyshin, P.N., and McDonald, J.E. (2023) Lutispora saccharofermentanssp. nov., a mesophilic, non-spore-forming bacterium isolated from a lab-scale methanogenic landfill bioreactor digesting anaerobic sludge, and emendation of the genus Lutispora to include species which are non-spore-forming and mesophilic. International  Journal of Systematic and Evolurionary  Microbiology 73(1). doi: 10.1099/ijsem.0.005683.
  • Liu Y., Khusnutdinova A., Chen J., Crisante D., Batyrova K., Venkatesan K., Feigis M., Shirsadi E., Wang X., Dorakhan R., Wang X., Stogios P., Yakunin A.F., Sargent E., Mahadevan R. (2022) Systems engineering of Escherichia coli for net-zero emission butane production. Metabolic Engineering 74:98-107, doi: 10.1016/j.ymben.2022.10.001.
  • Jones, D. L., Grimsley, J.M., Kevill, J. L., Williams, R., Pellett, C., Lambert-Slosarska, K., Singer, A. C., Williams, G. B., Bargiela, R., Brown, R. W., Wade, M. J., & Farkas, K. (2022). Critical evaluation of different passive sampler materials and approaches for the recovery of SARS-COV-2, faecal-indicator viruses and bacteria from wastewater. Water, 14(21):3568.
  • Chakroborty, A., Pritchard, D., Bouillon, M.E., Cervi, A., Kraehenbuehl, R., Wild, C., Fenn, C., Holdsworth, P., Capner, C., Padalino, G., Forde-Thomas, JE., Payne, J., Smith, B.G., Fisher, M., Lahmann, M., Baird, M.S., and Hoffmann, K.F. (2023) Modified Hederagenin Derivatives Demonstrate Ex Vivo Anthelmintic Activity against Fasciola hepatica. Pharmaceutics. 15(7):1869.
  • Farkas, K., Pellett, C., Alex-Sanders, N., Bridgman, M. T., Corbishley, A., Grimsley, J. M., Kasprzyk-Hordern, B., Kevill, J. L., Pântea, I., Richardson-O’Neill, I. S., Lambert-Slosarska, K., Woodhall, N., & Jones, D. L. (2022). Comparative assessment of filtration- and precipitation-based methods for the concentration of SARS-COV-2 and other viruses from wastewater. Microbiology Spectrum 10(4):01102-22
  • Kevill, J. L., Lambert-Slosarska, K., Pellett, C., Woodhall, N., Richardson-O’Neill, I., Pântea, I., Alex-Sanders, N., Farkas, K., & Jones, D. L. (2022). Assessment of two types of passive sampler for the efficient recovery of SARS-COV-2 and other viruses from wastewater. Science of The Total Environment838:156580.
  • Distaso, M., Cea-Rama, I., Coscolín, C., Chernikova T.N., Tran, H., Ferrer, M., Sanz-Aparicio, J., & Golyshin, P.N.(2023). The Mobility of the Cap Domain Is Essential for the Substrate Promiscuity of a Family IV Esterase from Sorghum Rhizosphere Microbiome. Applied and Environmental Microbiology, 89:e0180722. doi:10.1128/aem.01807-22
  • Distaso, M.A., Chernikova, T.N., Bargiela, R., Coscolin, C., Stogios, P., Gonzalez-Alfonso, J.L., Lemak, S., Khusnutdinova, A.N., Plou, F.J., Evdokimova, E., Savchenko, A., Lunev, E.A., Yakimov, M.M., Golyshina, O.V., Ferrer, M., Yakunin, A.F., & Golyshin, P.N. (2023) Thermophilic carboxylesterases from hydrothermal  vents of the volcanic island of Ischia active on synthetic and biobased polymers and mycotoxins. Applied and Environmental Microbiology 89: e0170422. doi: 10.1128/aem.01704-22
  • Marasco, R., Fusi, M., Coscolín, C., Barozzi, A., Almendral, D., Bargiela, R., Gohlke neé Nutschel, C., Pfleger, C., Dittrich, J., Gohlke, H., Matesanz, R., Sanchez-Carrillo, S., Mapelli, F., Chernikova, T.N.,  Golyshin, P.N., Ferrer, M. and Daffonchio, D. (2023) Enzymes adaptation to habitat thermal legacy explains the plasticity of marine microbiomes Nature Communications 14(1):1045 doi: 10.1038/s41467-023-36610-0. 
  • Dell'Anno, F., Joaquim van Zyl, L., Trindade, M., Buschi, E., Cannavacciuolo, A., Pepi, M., Sansone, C., Brunet, C., Ianora, A., de Pascale, D., Golyshin, P.N., Dell'Anno, A., and Rastelli, E. (2023) Microbiome enrichment from contaminated marine sediments unveils novel bacterial strains for petroleum hydrocarbon and heavy metal bioremediation. Environmental Pollution 317:120772. doi:10.1016/j.envpol.2022.120772.

2022

  • Vidal P., Martinez-Martinez M., Fernandez-Lopez L., Roda S., Mendez-Garcia C., Golyshina O.V., Guallar V., Pelaez A.I., Ferrer M. (2022) Metagenomic mining for esterases in the microbial community of Los Rueldos acid mine drainage formation. Frontiers in Microbiology 13:868839. doi: 10.3389/fmicb.2022.868839.
  • Greenfield L.M., Graf M., Rengaraj S., Bargiela R., Williams G., Golyshin P.N., Chadwick D.R. and Jones D.L. (2022) Field response of N2O emissions, microbial communities and soil biochemical processes to the addition of conventional and biodegradable microplastics”) Agriculture, Ecosystems & Environment 336: 108023. https://doi.org/10.1016/j.agee.2022.108023 .
  • Zadjelovic V., l Erni-Cassola G., Lester D., Eley Y., Gibson M.I., Dorador C., Golyshin P.N., Black S., Wellington E.M.H., and Christie-Oleza J.A. (2022) A mechanistic understanding of polyethylene biodegradation by the marine bacterium Alcanivorax, Journal of Hazardous Materials 436:129278. doi: 10.1016/j.jhazmat.2022.129278
    Sorokin D.Y., Merkel A., Messina E., Tugui C., Pabst M., Golyshin P.N. and Yakimov M.M. (2022) Anaerobic carboxydotrophy in sulfur-respiring haloarchaea from hypersaline lake. The ISME Journal doi:10.1038/s41396-022-01206-x 2022
  • Leoni C., Manzari C., Tran H., Golyshin P.N., Pesole G., Volpicella M., Ceci L.R. (2022) Identification of an Amylomaltase from the Halophilic Archaeon Haloquadratum walsbyi by Functional Metagenomics: Structural and Functional Insights. Life 12(1): 85. https://doi.org/10.3390/life12010085
  • Lemak S., Serbanescu M.A., Khusnutdinova A., Ruszkowski M., Beloglazova N., Xu X., Brown G., Cui H., Tan K., Joachimiak A., Cvitkovitch D.G., Savchenko A., Yakunin A.F. (2022) Structural and biochemical insights into CRISPR RNA processing by the Cas5c ribonuclease SMU1763 from Streptococcus mutans. Journal of Biological Chemistry 297: 101251.
  • Chigor C.B., Ibangha I.I., Nweze N.O., Onuora V.C., Ozochi C.A., Titilawo Y., Enebe M.C., Chernikova T.N., Golyshin P.N., Chigor V.N. (2022) Prevalence of integrons in multidrug-resistant Escherichia coli isolates from waters and vegetables in Nsukka and Enugu, Southeast Nigeria. Environmental Science and Pollution Research doi:10.1007/s11356-022-20254-6
  • Yakimov M.M., Bargiela R, Golyshin P.N. (2022) Calm and Frenzy: marine obligate hydrocarbonoclastic bacteria sustain ocean wellness. Current  Opinion in Biotechnology 73:337-345. doi: 10.1016/j.copbio.2021.09.015
  • Distaso M.A., Bargiela R., Johnson B., McIntosh O.A., Williams G.B., Jones D.L., Golyshin P.N., Golyshina O.V. (2022) Microbial Diversity of a Disused Copper Mine Site (Parys Mountain, UK), Dominated by Intensive Eukaryotic Filamentous Growth. Microorganisms 10(9):1694. doi: 10.3390/microorganisms10091694.
  • Haas D., Thamm A., Sun J., Huang L., Sun L., Beaudoin G., Wise K., Lerma-Ortiz C., Bruner S., Breuer M., Luthey-Schulten Z., Lin J., Wilson M., Brown G., Yakunin A., Kurilyak I., Folz J., Fiehn O., Glass J., Hanson A., Henry C., de Crecy-Lagard V. (2022) Metabolite damage and damage-control in a minimal genome. mBio 13: e0163022.
  • Diep P., Cadavid J.L., Yakunin A.F., McGuigan A.P., Mahadevan R. (2022) REVOLVER: A low-cost automated protein purifier based on parallel preparative gravity column workflows. HardwareX 11:e00291. doi:10.1016/j.ohx.2022.e00291.
  • Chan P.W.Y., Chakrabarti N., Ing C., Halgas O., To T.K.W., Wälti M., Petit A.P., Tran C., Savchenko A., Yakunin A.F., Edwards E.A., Pomès R., Pai E.F. (2022) Defluorination capability of L-2-Haloacid dehalogenases in the HAD-like hydrolase superfamily correlates with active site compactness. ChemBioChem, 23:e202100414. doi: 10.1002/cbic.202100414.

2021

  • Chan, P.W.Y., Chakrabarti, N., Ing, C., Halgas, O., To, T.K.W., Walti, M., Petit, A.-P., Tran, C., Savchenko, A., Yakunin, A.F., Edwards, E.A., Pomes, R., and Pai, E.F. Defuorination capability of L-2-haloacid dehalogenases in the α/β hydrolase superfamily correlates with changes in protein dynamics. ChemBioChem, 2021; vol. 22: 1-14: doi: 10.1002/cbic.202100414.
  • Potter C.M., Jones G.R., Barnes S., Jones D.L. Quantitative and qualitative analysis of edible oils using HRAM MS with an atmospheric pressure chemical ionisation (APGC) source. Journal of Food Composition and Analysis, 2021; vol. 96: 103760: doi: 10.1016/j.jfca.2020.103760.
  • Hillary L., Farkas K., Maher K., Lucaci A., Thorpe J., Distaso M., Gaze W., Paterson S., Burke T., Connor T., McDonald J., Malham S., Jones D.L. Monitoring SARS-CoV-2 in municipal wastewater to evaluate the success of lockdown measures for controlling COVID-19 in the UK. Water Research, 2021; vol. 200: 117214: doi: 10.1016/j.watres.2021.117214.
  • Hallsworth J.E., Ball P., Zorzano M-P., Dallas T.D., Martín-Torres J., Golyshina O.V., Burkhardt J., Koop T., Dymond M.K., and McKay C.M. Water-activity analyses of planetary atmospheres show Venus is not habitable. Nature Astronomy, 2021; vol. 5: 665–675. https://doi.org/10.1038/s41550-021-01391-3.
  • Lemak S., Serbanescu M.A., Khusnutdinova A.N., Ruszkowski M., Beloglazova N., Xu X., Brown G., Cui H., Tan K., Joachimiak A., Cvitkovitch D.G., Savchenko A., Yakunin A.F. Structural and biochemical insights into CRISPR RNA processing by the Cas5c ribonuclease SMU1763 from Streptococcus mutans. J. Biol. Chem., 2021; vol. 297: 101251: doi: 10.1016/j.jbc.2021.101251.
  • Raj K., Venayak N., Diep P., Golla S.A., Yakunin A.F., Mahadevan R. Automation assisted anaerobic phenotyping for metabolic engineering. Microb. Cell Fact., 2021; vol. 20: 184. https://doi.org/10.1186/s12934-021-01675-3.
  • Khasimov M.K., Petushkova E.P., Khusnutdinova A.N., Zorin N.A., Batyrova K.A., Yakunin A.F., Tsygankov A.A. The HydS C-terminal domain of the Thiocapsa bogorovii HydSL hydrogenase is involved in membrane anchoring and electron transfer. Biochim. Biophys. Acta Bioenerg., 2021; vol. 1862: 148492: doi: 10.1016/j.bbabio.2021.148492.
  • Cea-Rama I., Coscolín C., Katsonis P., Bargiela R., Golyshin P.N., Lichtarge O., Ferrer M., Sanz-Aparicio J. Structure and evolutionary trace-assisted screening of a residue swapping the substrate ambiguity and chiral specificity in an esterase. Computational and Structural Biotechnology Journal, 2021; vol. 19: 2307-2317: doi: 10.1016/j.csbj.2021.04.041.
  • Choolaei Z., Flick R., Khusnutdinova A.N., Edwards E.A., Yakunin A.F. Lignin-oxidizing activity of bacterial laccases characterized using soluble substrates and polymeric lignin. J. Biotechnol., 2021; vol. 325: 128-137: doi: 10.1016/j.jbiotec.2020.11.007.
  • Potter C.M., Jones D.L. Polyphenolic profiling of green waste determined by UPLC-HDMSE. Processes, 2021; vol. 9 (5): 824: doi: 10.3390/pr8111411.
  • Potter C.M., Jones D.L. Polyphenolic profiling of forestry waste by UPLC-HDMSE. Processes, 2021; vol 8(11): 1411. https://doi.org/10.3390/pr8111411.
  • Ghuneim L.-A., Distaso M.A., Chernikova T.N., Bargiela R., Lunev E.A., Korzhenkov  A.A., Toshchakov  S.V., Rojo D., Barbas C.,  Ferrer M., Golyshina O.V., Golyshin P.N. and Jones D.L. Utilization of low molecular weight organic compounds by the filterable fraction of a lotic microbiome. FEMS Microbiology Ecology, 2021 Feb 5; 97(2): fiaa244. doi: 10.1093/femsec/fiaa244.

2020

  • Alonso Rubido S., Santiago G., Cea-Rama I., Fernandez-Lopez L., Coscolin C., Modregger J., Ressmann A., Martinez-Martinez M., Marrero H., Bargiela R., Pita M., Gonzalez-Alfonso J., Briand M., Rojo D., Barbas C., Plou F., Golyshin P.N., Shahgaldian P., Sanz-Aparicio J., Guallar V. and Ferrer M. Genetically Engineered Proteins with Two Active Sites for Enhanced Biocatalysis and Synergistic Chemo- and Biocatalysis. Nature Catalysis, 2020; vol. 3: 319–328. doi:10.1038/s41929-019-0394-4.
  • Gregson B.H., Metodieva G., Metodiev M.V., Golyshin P.N., McKew B.A. Protein expression in the obligate hydrocarbon-degrading psychrophile Oleispira antarctica RB-8 during alkane degradation and cold tolerance. Environmental Microbiology, 2020, May; vol. 22(5):1870-1883. doi: 10.1111/1462-2920.14956.
  • Brailsford, F.L., Glanville, H.C., Wang, D., Golyshin, P.N., Johnes, P. J., Yates, C. A., Jones, D.L. Rapid depletion of dissolved organic sulphur (DOS) in freshwaters. Biogeochemistry, 2020. https://doi.org/10.1007/s10533-020-00669-4.
  • Boeckemeier L., Kraehenbuehl R., Keszthelyi A., Gasasira M. U., Vernon E. G., Beardmore R., Vågbø C. B., Chaplin D., Gollins S., Krokan H. E., Lambert S. A. E., Paizs B., Hartsuiker E. Mre11 exonuclease activity removes the chain-terminating nucleoside analog gemcitabine from the nascent strand during DNA replication. Science Advances, 2020, May 29; vol. 6(22): eaaz4126. doi: 10.1126/sciadv.aaz4126. PMID: 32523988.
  • Liu Y., Chen J., Khusnutdinova A.N., Correia K., Diep P., Batyrova K.A., Nemr K., Flick R., Stogios P., Yakunin A.F., Mahadevan R. A novel C-terminal degron identified in bacterial aldehyde decarbonylases using directed evolution. Biotechnol. Biofuels, 2020; vol. 13: 114. doi: 10.1186/s13068-020-01753-5.
  • Batyrova K.A., Khusnutdinova A.N., Wang P.H., Di Leo R., Flick R., Edwards E.A., Savchenko A., Yakunin A.F. Biocatalytic in Vitro and in Vivo FMN Prenylation and (De)carboxylase Activation. ACS Chem. Biol., 2020. doi: 10.1021/acschembio.0c00136.
  • Bargiela R., Lanthaler K., Potter C.M., Ferrer M., Yakunin A.F., Paizs B., Golyshin P.N., Golyshina O.V. Proteome Cold-Shock Response in the Extremely Acidophilic Archaeon,

    Cuniculiplasma divulgatum. Microorganisms, 2020, May 19; vol. 8(5): 759. doi: 10.3390/microorganisms8050759.

  • Diep P., Mahadevan R., Yakunin A.F. A microplate screen to estimate metal-binding affinities of metalloproteins. Anal. Biochem., 2020, Aug, vol. 1: 113836. doi: 10.1016/j.ab.2020.113836. Online ahead of print.
  • La Cono V., Messina E., Rohde M., Arcadi E., Ciordia S., Crisafi F., Denaro R., Ferrer M., Giuliano L., Golyshin P.N., Golyshina O.V., Hallsworth J.E., La Spada G., Mena M.C., Merkel A.Y., Shevchenko M.A., Smedile F., Sorokin D.Y., Toshchakov S.V., and Yakimov M.M. Symbiosis between nanohaloarchaeon and haloarchaeon is based on utilization of different polysaccharides. Proceedings of the National Academy of Sciences of the United States of America (PNAS), 2020, Aug 5. https://doi.org/10.1073/pnas.2007232117
  • Fedorchuk T.P., Khusnutdinova A.N., Evdokimova E., Flick R., Di Leo R., Stogios P., Savchenko A., Yakunin A.F. One-pot biocatalytic transformation of adipic acid to 6-aminocaproic acid and 1,6-hexamethylenediamine using carboxylic acid reductases and transaminases. J. Am. Chem. Soc., 2020, vol. 142: 1038-1048, (Epub 2020 Jan 7).
  • Makarova K.S., 17 co-authors, Yakunin A.F., 7 co-authors. Evolutionary classification of CRISPR-Cas systems: a burst of class 2 and derived variants. Nature Rev. Microbiol., 2020; vol. 18: 67-83, (Epub 2019 Dec 19).
  • Wang P.H., Fujishima K., Berhanu S., Kuruma Y., Jia T.Z., Khusnutdinova A.N., Yakunin A.F., McGlynn S.E. A bifunctional polyphosphate kinase driving the regeneration of nucleoside triphosphate and reconstituted cell-free protein synthesis. ACS Synth. Biol., 2020; vol. 9: 36-42, (Epub 2019 Dec 19).
  • Kim T., Stogios P.J., Khusnutdinova A.N., Nemr K., Skarina T., Flick R., Joo J.C., Mahadevan R., Savchenko A., Yakunin A.F. Rational engineering of 2-deoxyribose-5-phosphate aldolases for the biosynthesis of (R)-1,3-butanediol. J. Biol. Chem., 2020; vol. 295: 597-609, (Epub 2019 Dec 5).
  • Dell'Anno F., Brunet C., van Zyl L.J., Trindade M., Golyshin P.N., Dell'Anno A., Ianora A., Sansone C. Degradation of Hydrocarbons and Heavy Metal Reduction by Marine Bacteria in Highly Contaminated Sediments. Microorganisms, 2020; vol. 8(9): 1402. doi: 10.3390/microorganisms8091402.
  • Chernyh N.A., Neukirchen S., Frolov E.N., Sousa F.L., Miroshnichenko M.L., Merkel A.Y., Pimenov N.V., Sorokin D.Y., Ciordia S., Mena M.C., Ferrer M., Golyshin P.N., Lebedinsky A.V., Cardoso Pereira I.A., Bonch-Osmolovskaya E.A. Dissimilatory sulfate reduction in the archaeon 'Candidatus Vulcanisaeta moutnovskia' sheds light on the evolution of sulfur metabolism. Nature  Microbiology, 2020; vol. 5(11): 1428-1438. doi:10.1038/s41564-020-0776-z.

  • Chernikova T.N., Bargiela R., Toshchakov S.V., Shivaraman V., Lunev E.A., Yakimov M.M., Thomas D.N., Golyshin P.N. Hydrocarbon-Degrading Bacteria Alcanivorax and Marinobacter Associated With Microalgae Pavlova lutheri and Nannochloropsis oculata. Frontiers in Microbiology, 2020; vol. 11: 572931. doi:10.3389/fmicb.2020.572931.

  • Distaso M.A., Bargiela R., Brailsford F., Williams G.B., Wright S., Lunev E.A., Toshchakov S.V., Yakimov M.M., Jones D.L., Golyshin P.N. and Golyshina O.V. High representation of archaea across all depths in oxic and low-pH sediment layers underlying an acidic stream. Frontiers in Microbiology, 2020; vol. 11: 2871. https://doi.org/10.3389/fmicb.2020.576520.

  • Potter C.M., Jones D.L. Polyphenolic profiling of forestry waste by UPLC-HDMSE. Processes (MDPI), 2020; vol. 8 :1411.

2019

  • Golyshina O.V., Bargiela R., Golyshin P.N. (2019). Cuniculiplasmataceae, their ecogenomic and metabolic patterns, and interactions with 'ARMAN'. Extremophiles,  23(1):1-7 doi: 10.1007/s00792-018-1071-2.
  • Ferrer M., Méndez-García C., Bargiela R., Chow J., Alonso S., García-Moyano A., Bjerga G.E.K., Steen I.H., Schwabe T, Blom C, Vester J, Weckbecker A, Shahgaldian P., de Carvalho CCCR, Meskys R, Zanaroli G, Glöckner FO, Fernández-Guerra A, Thambisetty S., de la Calle F., Golyshina O.V., Yakimov M.M., Jaeger K.E., Yakunin A.F., Streit W.R., McMeel O., Calewaert J.B., Tonné N., Golyshin P.N.; INMARE Consortium. (2019) Decoding the ocean's microbiological secrets for marine enzyme biodiscovery. FEMS Microbiology Letters, 366(1) doi: 10.1093/femsle/fny285.
  • Khusnutdinova A.N., Xiao J., Wang P.H., Batyrova K.A., Flick R., Edwards E.A. and Yakunin A.F. (2019) Prenylated FMN: Biosynthesis, purification, and Fdc1 activation. Methods in Enzymology, 620:469-488. doi: 10.1016/bs.mie.2019.03.021.
  • Yates C.A., Johnes P.J., Owen A.T., Brailsford F.L., Glanville H.C., Evans C.D., Marshall, M.R., Jones D.L., Lloyd C.E.M., Jickells T., Evershed R.P. (2019) Variation in dissolved organic matter (DOM) stoichiometry in U.K. freshwaters: Assessing the influence of land cover and soil C:N ratio on DOM composition. Limnology and Oceanography,  https://doi.org/10.1002/lno.11186.
  • Brailsford F.L., Glanville H.C., Golyshin P.N., Johnes P.J., Yates C.A., Jones D.L. (2019)  Microbial uptake kinetics of dissolved organic carbon (DOC) compound groups from river water and sediments. Scientific Reports, 9(1):11229. doi: 10.1038/s41598-019-47749-6.
  • Fedorchuk T.P., Khusnutdinova A.N., Flick R., Yakunin A.F. Site-directed mutagenesis and stability of the carboxylic acid reductase MAB4714 from Mycobacterium abscessus. J. Biotechnol., 303: 72-79, 2019 (Epub 2019 Aug 2).
  • Brailsford F.L., Glanville H.C., Golyshin P.N., Marshall M.R., Lloyd C.E., Johnes P.J., Jones D.L.. Nutrient enrichment induces a shift in dissolved organic carbon (DOC) metabolism in oligotrophic freshwater sediments. Sci. Total Environ., 2019 Nov 10; 690:1131-1139. doi: 10.1016/j.scitotenv.2019.07.054.
  • Gavrilov S.N., Korzhenkov A.A., Kublanov I.V., Bargiela R., Zamana L.V., Popova A.A., Toshchakov S.V., Golyshin P.N., Golyshina O.V. (2019). Microbial Communities of Polymetallic Deposits' Acidic Ecosystems of Continental Climatic Zone With High Temperature Contrasts. Frontiers in Microbiology, 10:1573. doi: 10.3389/fmicb.2019.01573
  • Golyshina O.V., Bargiela R., Toshchakov S.V., Chernyh N.A., Ramayah S., Korzhenkov A.A., Kublanov I.V., Golyshin P.N. (2019). Diversity of "Ca. Micrarchaeota" in Two Distinct Types of Acidic Environments and Their Associations with Thermoplasmatales. Genes (Basel), 10(6). pii: E461. doi: 10.3390/genes10060461.

2018

  • Korzhenkov A. A., Teplyuk A. V., Lebedinsky A. V., Khvashchevskaya A. A., Kopylova Yu. G., Arakcha K. D., Golyshin P. N., Lunev E. A., Golyshina O. V., Kublanov I. V., Toshchakov S. V. and Gavrilov S. N. (2018) Members of the Uncultured Taxon OP1 (“Acetothermia”) Predominate in the Microbial Community of an Alkaline Hot Spring at East-Tuvinian Upland. Microbiology, 87(6):783–795.
  • Gregson B.H., Metodieva G., Metodiev M.V., Golyshin P.N., McKew B.A. (2018). Differential Protein Expression During Growth on Medium Versus Long-Chain Alkanes in the Obligate Marine Hydrocarbon-Degrading Bacterium Thalassolituus oleivorans MIL-1. Frontiers in Microbiology, 9:3130. doi: 10.3389/fmicb.2018.03130.
  • Matallana-Surget S., Werner J., Wattiez R., Lebaron K., Intertaglia L, Regan C, Morris J., Teeling H., Ferrer M., Golyshin P.N., Gerogiorgis D., Reilly S.I., and Lebaron P. (2018). Proteogenomic Analysis of Epibacterium mobile BBCC367, a Relevant Marine Bacterium Isolated From the South Pacific Ocean. Frontiers in Microbiology, 9:3125. doi: 10.3389/fmicb.2018.03125.
  • Hajighasemi M., Tchigvintsev A., Nocek B.P., Flick R., Popovic A., Hai T., Khusnutdinova A.N., Brown G., Xu X., Cui H., Anstett J., Chernikova T.N., Bruls T., Le Paslier D., Yakimov M.M., Joachimiak A., Golyshina O.V., Savchenko A., Golyshin P.N., Edwards E.A. and Yakunin A.F. (2018). Screening and characterization of novel polyesterases from environmental metagenomes with high hydrolytic activity against synthetic polyesters. Environmental Science and Technology, 13(1):225-234. doi: 10.1021/acs.est.8b04252.
  • Santiago G., Martínez-Martínez M., Alonso S., Bargiela R., Coscolín C., Golyshin P.N., Guallar V. and Ferrer M. (2018) Rational Engineering of Multiple Active Sites in an Ester Hydrolase. Biochemistry, 57(15):2245-2255. doi: 10.1021/acs.biochem.8b00274.
  • Coscolín C., Katzke N., García-Moyano A., Navarro-Fernández J., Almendral D., Martínez-Martínez M., Bollinger A., Bargiela R., Gertler C., Chernikova T.N., Rojo D., Barbas C., Hai T., Golyshina O.V., Koch R., Yakimov M.M., Bjerga G.E.K., Golyshin P.N., Jaeger K.-E. and Ferrer M; INMARE Consortium (2018). Bioprospecting reveals class III ω-transaminases converting bulky ketones and environmentally relevant polyamines. Applied and Environmental Microbiology, doi: 10.1128/AEM.02404-18.
  • Martinez-Martinez M., Coscolín C., Santiago G., Chow J., Stogios P., Bargiela R., Gertler C., Navarro-Fernández J., Bollinger A., Thies S., Méndez-García C., Popovic A., Brown G., Chernikova T.N., García-Moyano A., Bjerga G., Pérez-García P., Tran H., Del Pozo M., Stokke R., Steen I., Cui H., Xu X., Nocek B., Alcaide M., Distaso M., Mesa V., Peláez A., Sanchez J., Buchholz P., Pleiss J., Fernández-Guerra A., Glöckner F.O., Golyshina O.V., Yakimov M.M., Jaeger K.E., Savchenko A., Yakunin A.F., Streit W.R., Golyshin P.N., Guallar V. and Ferrer M. INMARE Consortium  (2018) Determinants and distribution of substrate promiscuity patterns in microbial ester-hydrolases. ACS Chemical Biology, 13(1):225-234. doi: 10.1021/acschembio.7b00996.
  • Coscolín C., Martínez-Martínez, M., Chow, J., Bargiela, R., García-Moyano, A., Bjerga, G.E.K., Bollinger, A., Stokke, R., Steen, I.H., Golyshina, O.V., Yakimov, M.M., Jaeger, K.-E., Yakunin, A.F., Streit, W.R., Golyshin, P.N., Ferrer, M. (2018) Relationships between Substrate Promiscuity and Chiral Selectivity of Esterases from Phylogenetically and Environmentally Diverse Microorganisms. Catalysts, 8(1):10. doi:10.3390/catal8010010
  • Ghuneim L-A.J., Jones D.L., Golyshin P.N. and Golyshina O.V. (2018) Nano-Sized and Filterable Bacteria and Archaea: Biodiversity and Function. Frontiers in Microbiology, 9:1971. DOI:10.3389/fmicb.2018.
  • Sorokin D.Y., Messina E., La Cono V, Ferrer M., Ciordia S., Mena C.M., Toshchakov S.V., Golyshin P.N. and Yakimov M.M. (2018) Sulfur respiration in a group of facultatively anaerobic natronoarchaea ubiquitous in hypersaline soda lakes.  Frontiers in Microbiology, doi:10.3389/fmicb.2018.02359.