Curriculum Vitae

CURRICULUM VITAE

Name: Peter N. Golyshin Nationality Germany Work address: Professor and Chair in Environmental Genomics School of Natural Sciences, Bangor University, ECW Bldg, Deiniol Rd., LL57 2UW Bangor, Wales, UK Phone +44 (0) 1248 38 3629 Fax +44 (0) 1248 37 0731 eMail: [email protected]

Academic Qualifications and Positions Held 1982-1987 Undergraduate study, MV Lomonosov Moscow State University, Department of Soil Microbiology. Diploma (MSc with Distinction) in 1987 1987-1990 Post-graduate work at the same Department of the University. PhD in microbiology (1991). PhD Thesis: ‘The regulatory role of plant root exudates in plant-pathogen relationships (Supervisor - Prof. D.G. Zwyagintsev) 1990-1995 Staff Research Scientist, Laboratory of Microbial Genetics, Bioengineering Centre, Russian Academy of Sciences, Moscow, Russia September 1, 1995- June 30, 2001 Research Associate, Microbial Ecology Group, GBF-German Research Centre for Biotechnology, Braunschweig, Germany (Head, Prof Kenneth N. Timmis (FRS)) July 2001-December 2004 Project leader, Institute of Microbiology, Carolo-Wilhelmina Technische Universität zu Braunschweig, Germany From Jan 1, 2005- Senior Scientist/Group leader Division of Microbiology, HZI-Helmoltz Oct 31, 2007, part time- Centre for Infection Research, Braunschweig, Germany till Oct 31, 2009

From October 31, 2007 Professor and Chair in Environmental Genomics, Bangor University, Bangor, Wales, UK. Fellowships November 1, 1994- January 31, 1995 EERO fellowship “In Situ Detection and Cloning of Genes Involved in PCB Degradation”, Department of Microbiology, GBF German Res Ctr Biotechnol, Braunschweig, Germany Editorial Responsibilities Special Issue Editor, FEMS Microbial Ecology 2003. Section Editor, Chemical Biotechnology, Current Opinion in Biotechnology 2005 Editorial Board, Frontiers in Microbiology

Reviewing activities in Journals: Antoine van Leeuwenhoek Applied and Environmental Microbiology Applied Microbiology and Biotechnology Electrophoresis Environmental Microbiology and Environmental Microbiology Reports FEMS Microbiology Ecology Frontiers in Microbiology Genome Biology International Journal of Systematic and Evolutionary Microbiology ISME Journal Journal of Applied Microbiology Journal of Biotechnology Journal of Proteome Research Microbial Biotechnology Microbial Ecology Microbiology (SGM) Nature Reviews in Microbiology Nucleic Acids Research Proteomics PLoS One Trends in Biotechnology

Reviewing activities at funding agencies: ANR - French National Research Agency ESFRI-European Strategy Forum for Research Infrastructures ERC-European Research Council FNR - Fonds National de la Recherche, Luxembourg NSF - National Science Foundation, USA NTP - Russian Ministry of Education and Science, Directorate of the Program of “MegaGrants” NWO - Netherlands Organisation for Scientific Research Swiss National Science Foundation, Switzerland UC Berkeley, USA Research Councils, UK: - MRC - NERC Peer Review College member - BBSRC Pool of Experts

Memberships in professional associations: Member, American Society for Microbiology (ASM), USA Member, Society for General Microbiology (SGM), UK Advisory Boards “Research and Development of Technology for Bioremediation of Heavy Oil-Contaminated Soil and Groundwater using Okinawan microbes” funded by Okinawa Prefecture, Japan at the Okinawa Environmental Science Center, 720 Kyozuka, Urasoe-shi, Okinawa 901-2111 Japan

Key research experience and activities • Microbial genetics, microbial physiology, extremophilic Archaea, functional genomics • Microbial degradation of petroleum oil in marine systems; microbial diversity of extreme environments; functional genomics of marine oil-degrading bacteria • Metagenomics for mining novel enzymatic diversity

Management of projects and grant income Involvement in the recent/current projects with external financing at the HZI/GBF and Technical University of Braunschweig and Bangor University as Principal Investigator or Coordinator: Finished • EU FP5 2001-2004 Biotechnologies from the deep (“BIODEEP”), PI €219,000 http://www.geo.unimib.it/BioDeep/Project.html • EU, 2002-2005 Consortia of marine microorganisms for oil biodegradation (“COMMODE”), PI, €340 000 http://www.ist.me.cnr.it/commode/home1.php • EU FP5 (2003-2006) Biotic and Abiotic Mechanisms of Transmissive Spongiform Encephalopathy (TSE) Infectivity Retention and Dissemination in Soil (“TSE-SOIL-FATE”), PI €200 000 http://cordis.europa.eu/data/PROJ_FP5/ACTIONeqDndSESSIONeq112482005919ndDOCeq301ndTBLeqEN_PROJ.htm • Federal Ministry of Science and Education (BMBF), GenoMik initiative, Bielefeld Network, 2001-2006. Genome sequencing and functional analysis of marine bacterium Alcanivorax borkumensis SK2, Cluster Coordination, €590 000. https://www.genetik.uni-bielefeld.de/GenoMik/environment.html • ViaLactia Ltd. (NZ) Microbial communities from rumen of grazing dairy cows (PI) € 280.000 • INTAS, 2003-2005, Development of advanced bioremediation techniques for efficient treatment of industrial waste waters; Coordination, € 90 000 • DFG (German Research Foundation) January 1, 2005-December 31, 2006. T86. Methanogenesis at low pH, PI € 132 000. • Federal Ministry of Science and Education (BMBF) GenoMik/GenoMikPlus initiative, Göttingen Network, 2004- 2009 Environmental genomics as a resource for new biocatalysts, metabolic pathways and drugs, PI €540 000 http://www.genomik.uni-goettingen.de/projects/f_projects.html • National Genomic Research Network (NGFN), 2004-2008 Ecological genomics of mucosal microbial communities associated with chronic inflammatory bowel disease, PI €440,000. http://www.science.ngfn.de/6_214.htm • EU FP6 NoE Marine Genomics Europe. 2005-2007, PI €32.000 http://www.marine-genomics- europe.org/index2.php?mode=membres • DFG (German Research Foundation) January 1, 2006-December 31, 2007. DFG Priority Program "Mars and the terrestrial Planets". Project "Mediterranean deep-sea brine lakes: unique terrestrial environments with relevance to putative subsurface ocean on Europa". PI, €145 000. http://ifp.uni- muenster.de/spp1115/index.html • DFG (German Research Foundation) October 1, 2006 – March 31, 2008. German-Israeli Cooperation Project Bioremediation with mineral hydrophobic fertilizers to prevent pollution of aquifers with nitrogen. PI, €90 000. • SysMO A European Transnational Funding and Research Program on Systems Biology of Microorganisms 2007- 2009(+2 yrs) „Systems analysis of biotech induced stresses: towards a quantum increase in process performance in the cell factory Pseudomonas putida (P-D-01-06-12)“, Subproject: "Definition of interactome in Pseudomonas putida KT2440" PI, €530.000. http://www.sysmo.net/index.php?index=58 • BMBF Program: Resistance and susceptibility to intestinal infections - and integrated network to study the interaction between microbial and host factors, Project “Identification of microbial proteins differentially regulated during resilience and infection and their expression profiling in situ (proteomics)”. 2008-2011, PI €570 000. • EU FP7. KBBE-226977 Marine Metagenomics for new Biotechnological Applications (MAMBA) 2009-2013. Coordinator, total 2.9 Mio EUR http://mamba.bangor.ac.uk • EU FP7 KBBE-245226 Molecular Approaches and MetaGenomic Investigations for optimizing Clean-up of PAH- contaminated sites (MAGIC PAH) 2010-2014. €305.000 http://www.magicpah.org/ • Royal Society (RS-DFID Africa Network Grants) Assessment of water quality indices of some recreational surface waters in the Eastern Cape Province of South Africa as a tool for capacity development in the impoverished Province, Sep 1, 2013-Aug 31, 2014, £ 25 000 • EU FP7 KBBE-266473 Unravelling and exploiting Mediterranean Sea microbial diversity and ecology for xenobiotics’ and pollutants’ clean up (ULIXES) 2011-2014. €300 000 http://www.ulixes.unimi.it/ • Royal Society UK (2013 Russia (RFBR) cost share) Mining novel enzymes from new thermophilic microorganisms from subsurface, (PG-lead) Sep 1, 2013-Aug 31, 2015, £12 000 • EU FP7 (OCEAN.2011-2) Contract Nr. 287589), Marine Microorganisms: Biodiversity, Bioinformatics and Biotechnology (MICROB3) (PG-PI) 2012-2016. To Bangor: €300 000 http://microb3.eu/ • EU FP7 Contract Nr 312139, Integrated Biotechnological Solutions for Combating Marine Oil Spills (Kill-Spill) 2013- 2016, (PI) to Bangor: €312 000 http://www.killspill.eu/ • Innovate UK-BBSRC Grant No. 101911 Biotechnology for Antiweeds (BaW) (CoI) 1.09.2014-31.08.2017, £250 000. • NERC (Natural Environment Research Council UK) Grant Nr NE/K01093X/1 (CoI), Characterisation of the nature, origins and ecological significance of dissolved organic matter in freshwater ecosystems (DOMAINE), Apr 1, 2013- May 31, 2018, £440,000 http://www.nerc-domaine.uk/ • EPSRC (UK) EP/L011573/1 an Imperial College led Innovation and Knowledge Centre (IKC) in Synthetic Biology (SynbiCITE) - 2013-2018 http://www.researchperspectives.org/grant/EP/L011573/1_SynbiCITE---An-Imperial- College-Led-Innovation-And-Knowledge-Centre--IKC--In-Synthetic-Biology • ERA-Net IB2-BBSRC [14-ERA IB] Grant Nr BB/M029085/1. A metagenomic collection of novel and highly efficient biocatalysts for industrial biotechnology (MetaCat) (PG-PI), 1.03.2015-28.02.2018, £340,000 http://metacat.eu/ • EU Horizon 2020 Grant Nr 634486 Industrial applications of marine enzymes: Innovative Screening and expression platforms to discover and use the functional protein diversity from the sea (INMARE) (Coordinator with Olga Golyshina) 1.04.2015-31.03.2019, total EUR 6,000,000, to Bangor EUR730,000 http://www.inmare-h2020.eu/

Current: • ERDF/Welsh European Funding Organisation (WEFO)–Bangor University co-funded capacity building project: The Centre of Environmental Biotechnology (CEB). Discovery of novel proteins and metabolites of biotech relevance from extremophiles (Director), total £7,800,000. Nov 1, 2017-Oct 31, 2022. • NERC (Natural Environment Research Council UK) Grant Nr NE/S004548/1. PI, Microbial hitch-hikers of marine plastics: the survival, persistence & ecology of microbial communities in the Plastisphere (PI) 2019-2023, £599,000. • ERA Net (through BBSRC), Synthetic landfill microbiomes for enhanced anaerobic digestion to biogas. John McDonald (PI), CoIs: Peter Golyshin, Davey Jones, Alexander Yakunin. 11/2019-10/2022. EUR 516,000

Relevant oral presentations:

• “Activity-Based Bioprospecting for Hydrolases In Enrichment Cultures from Thermal Vents of Ischia Island (Italy)” Oral presentation 15th International Congress on Thermophiles, “Thermophiles-2019” Fukuoka, Japan, September 2-6, 2019. • “Marine petroleum-degrading microorganisms, their ecology and applications”, Keynote presentation at the Seminar, Biodiversity and applications of marine microorganisms and their enzymes, Catholic University of Valencia, March 5, 2019 • “Enzyme discovery from marine microbial biodiversity hotspots”, oral presentation, 12th International Symposium “Extremophiles-2018”, Ischia-Naples, September 16-20, 2018 • “New enzymes from microbial biodiversity hotspots” Invited Seminar, University of Warwick, November 9, 2017 • “Biology of the cosmopolitan hyperacidophilic archaeon Ferroplasma” Invited, 4th International Symposium in Microbial Diversity “MD2017”, Society of Agricultural, Environmental and Applied Microbiology (Sim3A), Bari (Italy), 23-25.10.2017 • “Activity-based discovery of novel enzymes from marine environments” Invited keynote lecture, 7th European Conference on Prokaryotic and Fungal Genomes “ProkaGenomics 2017” (http://www.prokagenomics.org/ September 19-22, 2017, Goettingen (Germany) • ‘Metagenomic Mining of Enzymes from Marine Microbial Communities’ Invited, Oral presentation, University of Essex, December 8, 2016, Colchester • “INMARE Project” and “MicroB3 Project” presentations at the Marine Biotechnology ERA-NET Stakeholder Meeting 13th-14th October 2016, Brussels, Belgium. • Invited, Oral presentation (cancelled) “Enzyme Discovery From Marine Extremophilic Biodiversity Hotspots”, 11th International Conference “Extremophiles-2016”, Kyoto • Invited, Oral presentation “Challenges in Enzyme Discovery in the Postgenomic Era”, 5th Conference “ENZYMES IN THE ENVIRONMENT” Bangor, UK. • Plenary Lecture, “MINIG METAGENOMES FOR NOVEL ENZYMES”, III Conference on Microbial Diversity “The Challenge of Diversity”, 27-29 October 2015, Perugia. • “MINIG METAGENOMES FOR NOVEL ENZYMES” (plenary), 3rd International Conference on Microbial Diversity (Perugia, Italy), October 2015. • “Metagenomic Mining of Thermophilic Enzymes from Marine Microbial Communities”, 13th International Conference “Thermophiles 2015” (Santiago De Chile), September 2015. • “Mechanisms of oil degradation in oil-degrading marine bacterium, Oleispira antarctica” (invited), 10th International Symposium “Extremophiles 2014” September 6-11, 2014, St Petersburg, Russia. • “Functional genomics of Oleispira antarctica” (invited) 38th FEBS Congress: Mechanisms in Biology, (St. Petersburg, Russia), July 2013. • MAMBA Project: Lessons from successful pan-European collaboration” (invited) CSA MarineBiotech Final Conference “Marine Biotechnology in the European Research Area: Challenges and Opportunities for Europe” (March 2013, Brussels, Belgium) • FP7 Workshop Panel discussion: “Bioinformatics for Microbial Biotechnology and Biocatalysis” (invited), Panel member Oct 14-15, 2013, Groningen, The Netherlands. • “Cold-adapted Oil-degrading Marine Bacteria” (invited) at Marine Microbiology & Biotechnology: Biodiscovery, Biodiversity and Bioremediation, Society of General Microbiology (Cork, Ireland) November 2012. • “New metagenomics-based biotech applications” (invited) THE OCEAN OF TOMORROW DAY”, September 9, 2010, European Commission, Brussels, Belgium. • “Mining Enzymes from extreme environments” BEEM International Symposium “Bioproducts and Enzymes from Environmental Metagenomes”, October 3-4, 2011, Toronto, Canada, • “Mining nature for new protein diversity”: Workshop on Metagenomics, Genoscope, March 7, 2008, Evry, France. • “Psychrophily and Chaperones” (Keynote), Congress of International Society of Environmental Biotechnology (ISEB), The Japan Society for Biotechnology (JSEB); European Federation of Biotechnology (EFB), July 10- 13, 2006, Leipzig, Germany. • Activity-based metagenomic enzyme discovery, BGI-Beijing Genomics Centre, January 4-5, 2006, Beijing, China.

Publications: A. Original peer-reviewed articles (starting from earliest) 1. Guzev V.S., Golyshin P.N., Ivanov P.I., Zwyagintsev D.G. 1990. The role of plant exudates in their defence against microbial damage, Proceedings ot the Academy of Sciences of USSR (Biology Series) (1) 91-96. 2. Golyshin P.N., Guzev V.S. 1992. cAMP and minerals in utilization of polymeric substrata by soil microorganisms, Vestnik Moskovskogo Universiteta N5: 48-52. 3. Dementiev A.A., Shlyapnikov S.V., Golyshin P.N., Ryabchenko N.F. et al. 1992. Extracellular ribonuclease of strain Bacillus sp. BCF256. Preparative isolation and characterization of individual enzyme. Biotechnologia N 5, 84-87. 4. Dementiev A.A., Ryabchenko N.F., Protasevich I.I., Golyshin P.N., Stepanov A.I., Orlov V.M., Pustovaev V.N., Makarov A.A., Moiseev G.P., Karpeiskii M.I., et al. 1992. Extracellular akaline RNase of B. thuringiensis subsp. subtoxicus, Molecular Biology 26: 1338-49. 5. Golovko A.E., Golyshin P.N. and Ryabchenko N.F. 1993. B. thuringiensis in the environment and in experiment. Plant Molecular Biology and Biotechnology 1: 27-35. 6. Dementiev A.A., Golyshin P.N., Riabchenko N.F, Pustobaev V.N., and Shliapnikov S.V. 1993. Two forms of extracellular low molecular mass RNase of Bacillus sp. BCF 247: isolation and characterization of enzyme, Biochemistry 58, 1258- 1265. 7. Golyshin P.N., Kombarova S.P., Ryabchenko N.F., Vorob’eva E.A., Soina V.S., Dement’ev A.A. and Shliapnikov S.V. 1993. Extracellular alkaline RNases produced by bacilli strains from the permafrost of the Kolyma lowland, Applied Biochemistry and Microbiology 29, 844-850. 8. Fedorova N.D., Schulga A.A., Peredel’chuk M.Y., Golyshin P.N., Ryabchenko N.F. 1994. Cloning of the gene for the extracellular Bacillus circulans ribonuclease, Molecular Biology 28: 468-471. 9. Guzev V.S., Golyshin P.N. 1994. Prolonged catabolite repression and introduction of microorganisms into soil, Microbiology 63: 319-323. 10. Akimcheva S.A., Ryabchenko N.F., Mironov V.N., Golyshin P.N., Pozmogova G.E. et al. 1995. The molecular genetic analysis of the Central Asian B. thuringiensis strain collection, Biotechnologia 4: 21-23. 11. Yakimov M.M. and Golyshin P.N. 1997. ComA-dependent transcriptional activation of lichenysin A synthetase promoter in Bacillus subtilis cells. Biotechnology Progress, 13 (6):757-761. 12. Yakimov M.M., Golyshin P.N., Lang S., Moore E.R., Abraham W.R., Lunsdorf H., Timmis K.N. 1998. Alcanivorax borkumensis gen. nov., sp. nov., a new, hydrocarbon-degrading and surfactant-producing marine bacterium. International Journal of Systematic Bacteriology 48:339-348. 13. Yakimov M.M., Kroeger A., Slepak T.N., Giuliano L., Timmis K.N., Golyshin P.N. 1998. A putative lichenysin A synthetase operon in Bacillus licheniformis: initial characterization. Biochimica et Biophysica Acta 1399(2-3):141-153. 14. Yakimov M.M., Abraham W.-R., Meyer H., Giuliano L. and Golyshin P.N. 1999. Structural characterization of lichenysin A components by fast atom bombardment (FAB) tandem mass spectrometry (MS/MS). Biochimica et Biophysica Acta 1438 (2):273-280. 15. Golyshin P.N., Fredrickson H.L., Giuliano L., Rothmel R., Timmis K. N. and Yakimov M. M. 1999. Effect of novel biosurfactants on biodegradation of polychlorinated biphenyls by pure and mixed bacterial cultures. New Microbiology 22(3):257-67. 16. Yakimov M.M., Giuliano L., Bruni V., Scarfi S. and Golyshin P.N. 1999. Characterization of antarctic hydrocarbon- degrading bacteria capable to produce bioemulsifiers. New Microbiology 22(3):249-56. 17. Yakimov M.M., Giuliano L., Timmis K.N, and Golyshin P. N. 2000. Recombinant acylheptapeptide lichenysin: high level of production by Bacillus subtilis cells. Journal of Molecular Microbiology and Biotechnology 2(2): 217-224. 18. Golyshina O.V., Pivovarova,T.A., Karavaiko G. I., Kondrat’eva T. F., Moore E. R. B., Abraham W.-R., Lünsdorf H., Timmis K. N., Yakimov M. M. and Golyshin P. N. 2000. Ferroplasma acidiphilum gen. nov., sp. nov., an acidophilic, autotrophic, ferrous-iron-oxidizing, cell-wall-lacking, mesophilic member of the Ferroplasmaceae fam. nov., comprising a distinct lineage of the Archaea. International Journal of Systematic and Evolutionary Microbiology 50: 997-1006. 19. Yakimov M.M., Giuliano L., Chernikova T.N. , Gentile G., Abraham W.-R., Luensdorf H., Timmis K.N. and Golyshin P.N. 2001. Alcalilimnicola halodurans gen. nov., sp. nov., an alkaliphilic, moderately halophilic and extremely halotolerant bacterium, isolated from sediments of soda-depositing Lake Natron, East Africa Rift Valley. International Journal of Systematic and Evolutionary Microbiology 51:2133-2143. 20. Yakimov M.M., Giuliano L., Timmis K.N. and Golyshin P.N. 2001. Upstream-independent ribosomal RNA amplification analysis (URA): a new approach to characterizing the diversity of natural microbial communities. Environmental Microbiology 3: 662-666. 21. Golyshin P.N., Chernikova T.N., Abraham W.-R., Luensdorf H., Timmis K.N., Yakimov M.M. 2002. Oleiphilaceae fam. nov., to include Oleiphilus messinensis gen. nov., sp. nov., a novel marine bacterium that obligately utilizes hydrocarbons. International Journal of Systematic and Evolutionary Microbiology 52: 901-911 22. Yakimov M. M ., Giuliano L., Crisafi E., Chernikova T.N., Timmis K.N. and Golyshin P.N. 2002. Microbial community of a saline mud volcano at San Biagio-Belpasso, Mt. Etna (Italy). Environmental Microbiology 4(5):249-56. 23. Olaniran A.O., Okoh A.I., Ajisebutu S., Golyshin P., Babalola G.O. 2002. The aerobic dechlorination activities of two bacterial species isolated from a refuse dumpsite in Nigeria. International Microbiology 5(1):21-24. 24. Yakimov M.M., Giuliano L., Gentile G., Crisafi E., Chernikova T.N., Abraham W.-R., Luensdorf H., Timmis K.N., and Golyshin P.N. 2003. Oleispira antarctica gen. nov., sp. nov., a new hydrocarbonoclastic marine bacterium, isolated from an Antarctic coastal seawater. International Journal of Systematic and Evolutionary Microbiology 53: 779-785. 25. Yakimov M.M., Luensdorf H. and Golyshin P.N. 2003. Thermoleophilum album (Zarilla and Perry, 1984) and T. minutum (Zarilla and Perry, 1986) are culturable representatives of the Rubrobacteridae Group 2 (Actinobacteria). International Journal of Systematic and Evolutionary Microbiology 53: 377-380. 26. Golyshin P.N., Martins Dos Santos V.A.P., Kaiser O., Ferrer M., Sabirova I.S., Lünsdorf H., Chernikova T.N., Golyshina O.V., Yakimov M.M., Pühler A. and Timmis K.N. 2003. Genome sequence completed of Alcanivorax borkumensis, a hydrocarbon-degrading bacterium that plays a global role in oil removal from marine systems. Journal of Biotechnology 106(2-3):215-220. 27. Ferrer M, Chernikova TN, Yakimov MM, Golyshin P.N., Timmis KN. 2003. Chaperonins govern growth of Escherichia coli at low temperatures. Nature Biotechnology 21(11):1266-1267. 28. Zouboulis A.I., Matis K.A., Lazaridis N.K. and Golyshin P.N. 2003. The use of biosurfactants in flotation: application for the removal of metal ions. Minerals Engineering 16:1231-1236. 29. Ferrer M., Golyshin P. and Timmis K.N. 2003. Novel maltotriose esters enhance biodegradation of Arochlor 1242 by Burkholderia cepacia LB400. World Journal of Microbiology and Biotechnology 19:637-643. 30. Yakimov M.M., Giuliano L., Denaro R., Crisafi E., Chernikova T.N., Abraham W.-R., Luensdorf H., Timmis K.N., and Golyshin P.N. 2004. Thalassolituus oleivorans gen. nov., sp. nov., a new marine bacterium confined to the utilization of hydrocarbons. International Journal of Systematic and Evolutionary Microbiology 54: 141-148. 31. Ferrer M., Lünsdorf H., Chernikova T.N., Yakimov M.M., Timmis K.N. and Golyshin P.N. 2004 Functional consequences of single:double ring transitions in chaperonins: life in the cold. Molecular Microbiology 53(1):167-182. 32. Ferrer M., Chernikova T.N., Timmis K.N. and Golyshin P.N. 2004. Expression of a temperature-sensitive esterase in a novel chaperone-based Escherichia coli strain. Applied and Environmental Microbiology 70(8): 4499-4504. 33. Yakimov M.M., Gentile G., Bruni V., Cappello S., D’Auria G., Golyshin P.N. and Giuliano L. 2004. Crude oil-induced structural shift of coastal bacterial communities of Rod Bay (Terra Nova Bay, Ross Sea, Antarctica) and characterization of cultured cold-adapted hydrocarbonoclastic bacteria FEMS Microbiology Ecology 49(3):419-432. 34. Yakimov M.M., Denaro R., Genovese M., Cappello S., D’Auria G., Chernikova T.N., Timmis K.N., Golyshin P.N. and Giuliano L. 2005. Natural microbial diversity in superficial sediments of Milazzo harbor (Sicily) and community successions during microcosm enrichment with various hydrocarbons. Environmental Microbiology 7(9):1426-1441. 35. Ryabchenko L.E., Novikov A.D., Golyshin P.N. and Yanenko A.S. 2005. Sequence and structure analysis of cryptic plasmid pN30 from oil-oxidizing strain Rhodococcus erythropolis 30. Genetika 41(12): 1434-1436. 36. Ferrer M., Golyshina O.V., Chernikova T.N., Martins dos Santos V.A.P., Khachane A.N., Yakimov M.M., Timmis K.N. and Golyshin P.N. 2005. Novel microbial enzymes mined from the Urania deep-sea hypersaline anoxic basin. Chemistry & Biology 12(8):895-904. 37. Ferrer M., Golyshina O.V., Plou F.J., Timmis K.N. and Golyshin P.N. 2005. A novel α-glucosidase from the acidophilic archaeon, Ferroplasma acidiphilum Y with strong transglycosylation activity and unique catalytic nucleophile. Biochemical Journal 391(Pt 2):269-276. 38. Ferrer M., Golyshina O.V., Chernikova T.N., Khachane A.N., Martins dos Santos V.A.P., Strompl C., Yakimov M.M., Elborough K., Jarvis G., Neef A., Timmis K.N. and Golyshin P.N. 2005. Novel hydrolase diversity retrieved from a metagenome library of bovine rumen microflora. Environmental Microbiology 7(12): 1996-2010. 39. Reyes-Duarte D., Polaina J., López-Cortés N., Alcalde M., Plou F.J., Ballesteros A., Timmis K.N., Golyshin P.N. and Ferrer M. 2005. Conversion of a carboxylesterase into a triacylglycerol lipase by a random mutation. Angewandte Chemie-International Edition 44:7553-7557. 40. Strocchi M., Ferrer M., Timmis K.N. and Golyshin P.N. 2006. Low temperature-induced systems failure in E. coli: insights from rescue by cold-adapted chaperones. Proteomics 6(1):193-206. 41. Golyshina O.V., Golyshin P.N., Timmis K.N. and Ferrer M. 2006. Anomaly of low pH optima of intracellular enzymes of Ferroplasma acidiphilum. Environmental Microbiology 8(3):416-425. 42. Sabirova J., Ferrer M., Regenhardt D., Timmis K.N. and Golyshin P.N. 2006. Proteomic insights into metabolic adaptations in Alcanivorax borkumensis induced by alkane utilization. Journal of Bacteriology 188(11):3763-3773. 43. Daffonchio D., Borin S., Brusa T., Brusetti L., van der Wielen P.W., Bolhuis H., Yakimov M.M., D’Auria G., Giuliano L., Marty D., Tamburini C., McGenity T.J., Hallsworth J.E., Sass A.M., Timmis K.N., Tselepides A., de Lange G.J., Hubner A., Thomson J., Varnavas S.P., Gasparoni F., Gerber H.W., Malinverno E., Corselli C., Garcin J., McKew B., Golyshin P.N., Lampadariou N., Polymenakou P., Calore D., Cenedese S., Zanon F., Hoog S; Biodeep Scientific Party. 2006. Stratified prokaryote network in the oxic-anoxic transition of a deep-sea halocline. Nature 440(7081):203-207. 44. Beloqui A., Pita M., Polaina J., Martínez A., Golyshina O.V., Zumárraga M., Yakimov M.M., García-Arellano H., Alcalde M., Fernández V.M., Elborough K., Andreu J.M., Ballesteros A., Plou F.J., Timmis K.N., Ferrer M. and Golyshin P.N. 2006. Novel polyphenol oxidase mined from a metagenome expression library of bovine rumen: biochemical properties, structural analysis and phylogenetic relationships. Journal of Biological Chemistry 281(32):22933-22942. 45. Schneiker S., Martins dos Santos V.A.P., Bartels, D., Khachane A.N, Bekel T., Brecht M, Buhrmester J., Chernikova T.N., Denaro R., Ferrer M., Gertler C., Goesmann A., Golyshina O.V., Kaminski F., Lang S., Linke B., McHardy A. C., Meyer F., Nechitaylo T.Y., Pühler A., Regenhardt D., Rupp O., Sabirova J.S., Selbitschka W., Yakimov M.M., Timmis K.N., Vorhölter F.-J., Weidner S., Kaiser O. and Golyshin P.N. 2006. Genome sequence of the ubiquitous hydrocarbon- degrading marine bacterium Alcanivorax borkumensis. Nature Biotechnology 24(8):997-1004. 46. Sabirova J., Ferrer M., Lünsdorf H., Wray V., Kalscheuer R., Steinbüchel A., Timmis K.N. and Golyshin P.N. 2006. Mutation in a ‘tesB-like’ hydroxyacyl-coenzyme A-specific thioesterase gene causes hyper-production of extracellular polyhydroxyalkanoates by Alcanivorax borkumensis SK2. Journal of Bacteriology 188(24):8452-8459. 47. Yakimov M.M., Giuliano L., Cappello S., Denaro R., and Golyshin P.N. 2007. Microbial Community of a Hydrothermal Mud Vent Underneath the Deep-Sea Anoxic Brine Lake Urania (Eastern Mediterranean). Origins of Life and Evolution of the Biospheres 37(2): 177-188. 48. Kalscheuer R., Stöveken T., Malkus U., Reichelt U., Golyshin P.N., Ferrer M., Sabirova J.S., Timmis K.N. and Steinbüchel A. 2007. Analysis of storage lipid accumulation in Alcanivorax borkumensis: Evidence for alternative triacylglycerol biosynthesis routes in bacteria. Journal of Bacteriology 189(3):918-928. 49. Kotsyurbenko O.R., Friedrich M.W., Simankova M.V., Nozhevnikova A.N., Golyshin P.N., Timmis K.N., and Conrad R. 2007. Shift from acetoclastic to H2-dependent methanogenesis in a West Siberian peat bog at low pH and isolation of an acidophilic Methanobacterium strain. Applied and Environmental Microbiology 73(7):2344-2348. 50. Hallsworth J., Yakimov M.M., Golyshin P.N., Gillion J., D’Auria G., de Lima Alves F., La Cono V., Genovese M., McKew B., Hayes S., Harris G., Giuliano L., Timmis K.N., and McGenity T. 2007. Limits of life in MgCl2-containing environments: Chaotropicity defines the window. Environmental Microbiology 9(3), 801–813. 51. Ferrer M., Beloqui A., Golyshina O.V., Plou F.J., Chernikova T.N., Fernández-Arrojo L., Ghazi I., Ballesteros A., Elborough K., Timmis K.N. and Golyshin P.N. 2007. Biochemical and structural features of a novel cyclodextrinase from cow rumen metagenome. Biotechnological Journal 2(2):207-213. 52. Khomyakov N.V., Kharin S.A., Nechitailo T.Yu., Golyshin P.N., Kurakov A.V., Byzov B.A. and Zvyagintsev D.G. 2007. Reaction of microorganisms to the digestive fluid of earthworms. Microbiology 76(1):45-54. 52. Ferrer M., Golyshina O.V., Beloqui A., Golyshin P.N.* and Timmis K.N.* (*-equal contribution). 2007. The cellular machinery of Ferroplasma acidiphilum is iron-protein-dominated. Nature 445(1):91-94. 53. Kim H.S., Timmis K.N. and Golyshin P.N. 2007. Characterization of a chitinolytic enzyme from Serratia sp. KCK isolated from kimchi juice. Applied Microbiology and Biotechnology 75(6):1275-1283. 54. Kim H.S., Golyshin P.N. and Timmis K.N. 2007. Characterization and role of a metalloprotease induced by chitin in Serratia sp. KCK. Journal of Industrial Microbiology & Biotechnology 34(11):715-721. 55. Lopez-Cortes N., Reyes-Duarte D., Beloqui A., Polaina J., Ghazi I., Golyshina O.V., Ballesteros A., Golyshin P.N., Ferrer M. 2007. Catalytic role of conserved HQGE motif in the CE6 carbohydrate esterase family. FEBS Letters 581(24):4657- 4662. 56. Yakimov M.M., La Cono V, Denaro R., D’Auria G., Decembrini F., Golyshin P.N.* and Giuliano L.* (Equal contribution) 2007. Evaluation of dark deep-sea primary production in the Eastern Mediterranean Sea and in the halocline of deep anoxic brine lake L’Atalante: a polyphasic study ISME Journal 1(8):743-755. 57. Kurakov A.V., Lavrent'ev R.B., Nechitaylo T.Iu., Golyshin P.N. and Zviagintsev D.G. 2008. Diversity of facultatively anaerobic microscopic mycelial fungi in soils. Microbiology 77(1):103-112. 58. Sabirova J.S., Chernikova T.N., Timmis K.N. and Golyshin P.N. 2008. Niche-specificity factors of a marine oil-degrading bacterium Alcanivorax borkumensis SK2. FEMS Microbiology Letters 285:89-96. 59. Ferrer M., Golyshina O.V., Beloqui A., Böttger L-H,. Andreu J.M., Polaina J., López de Lacey A., Trautwein A.X., Timmis K.N. and Golyshin P.N. 2008. A purple acidophilic di-ferric DNA ligase from Ferroplasma. Proceedings of the National Academy of Sciences of the U.S.A. 105(26):8878-8883. 60. Gertler C., Gerdts G., Yakimov M.M., Timmis K.N. and Golyshin P.N. 2009. Populations of heavy fuel oil-degrading marine microbial community on oil sorbent material surface. Journal of Applied Microbiology 107(2):590-605. 61. Golyshina O.V., Yakimov, M.M., Lünsdorf, H., Ferrer M., Nimtz M., Timmis K.N., Wray V., Tindall B.J., and Golyshin P.N. 2009. Acidiplasma aeolicum gen. nov., sp. nov., a novel euryarchaeon of the family Ferroplasmaceae, isolated from the hydrothermal pool on Vulcano Island, Italy and the transfer of Ferroplasma cupricumulans to Acidiplasma cupricumulans comb. nov. International Journal of Systematic and Evolutionary Microbiology 59(11):2815-2823. 62. Byzov B.A., Nechitaylo T.Y., Bumazhkin B.K., Kharin S.A., Kurakov A.V., Golyshin P.N. and Zvjagintsev D.G. (2009). Cultivable microorganisms from digestive tract of earthworms. Microbiology 78(3):404-413. 63. Nechitaylo T.Y., Timmis K.N. and Golyshin P.N. 2009. 'Candidatus Lumbricincola', a novel lineage of uncultured Mollicutes from earthworms of family Lumbricidae. Environmental Microbiology 11(4): 1016–1026. 64. Bobadilla Fazzini R.A., Bielecka A., Poucas Quintas A.K., Golyshin P.N., Preto M.J., Timmis K.N., Martins Dos Santos V.A. 2009. Bacterial consortium proteomics under 4-chlorosalicylate carbon-limiting conditions. Proteomics 9(8):2273- 2285. 65. Gertler C., Gerdts G., Timmis K.N. and Golyshin P.N. 2009. Microbial consortia in mesocosm bioremediation trial using oil sorbents, slow-release fertilizer and bioaugmentation. FEMS Microbiology Ecology 69(2):288-300. 66. Vieites J.M., Beloqui A., Ghazi A., Polaina J., Andreu J.M., Golyshina O.V., Nechitaylo T.Y., Waliczek A., Yakimov M.M., Golyshin P.N.* and Ferrer M.* (*Equal contribution) 2010. Inter-conversion of catalytic abilities in a bifunctional carboxyl/feruloyl-esterase from earthworm gut metagenome. Microbial Biotechnology 3(1):48–58. 67. Nechitaylo T.Y., Yakimov M.M., Godinho M., Timmis K.N., Belogolova E., Byzov B.A., Kurakov A.V., Jones D.L., and Golyshin P.N. 2010. Effect of the earthworms Lumbricus terrestris and Aporrectodea caliginosa on bacterial diversity in soil. Microbial Ecology 59(3), 574-587. 68. Nechitaylo T.Y., Yakimov M.M., Timmis K.N., Jones D.L., Ferrer M., and Golyshin P.N. 2010. Fate of prions in soil: Degradation of recombinant prion in aqueous extracts from soil and casts of two earthworm species. Soil Biology and Biochemistry 42(7):1168-1171. 69. Gertler C., Näther D.J., Gerdts G., Malpass M.C. and Golyshin P.N. 2010. A Mesocosm Study of the Changes in Marine Flagellate and Ciliate Communities in a Crude Oil Bioremediation Trial. Microbial Ecology 60(1):180-191. 70. Beloqui A., Vieites J.M., Polaina J., Torres R., Golyshina O.V., Chernikova T.N., Waliczek A., Aharoni A., Yakimov M.M., Timmis K.N., Golyshin P.N.* and Ferrer M.* (*Equal contribution). 2010. Novel bifunctional esterase-haloacid dehalogenase and its conversion into a haloalkane dehalogenase CHEMBIOCHEM 11(14):1975-1978. 71. Beloqui A., Nechitaylo T.Y., López-Cortés N., Ghazi A., Guazzaroni M.E., Polaina J., Strittmatter A.W., Reva O., Waliczek A., Yakimov M.M., Golyshina O.V., Ferrer M. and Golyshin P.N. 2010. Diversity of glycosyl hydrolases from cellulose-depleting communities enriched from casts of two earthworm species. Applied and Environmental Microbiology 76(17):5934-5946. 72. La Cono V., Smedile F., Ferrer M., Golyshin P.N., Giuliano L. and Yakimov M.M. 2010. Genomic signatures of fifth autotrophic carbon assimilation pathway in bathypelagic Crenarchaeota. Microbial Biotechnology 3(5):595-606. 73. Ferrer M., Beloqui A. and Golyshin P.N. 2010. Screening metagenomic libraries for laccase activities. Methods in Molecular Biology 668:189-202. 74. Yakimov M.M.,* La Cono V., Smedile F., DeLuca T.H., Juárez S., Ciordia S., Fernández M., Albar J.P., Ferrer M., Golyshin P.N.* and Giuliano L. (*corresponding authors) 2011. Contribution of crenarchaeal autotrophic ammonia oxidizers to the dark primary production in Tyrrhenian Deep Waters (Central Mediterranean Sea). ISME Journal 5(6):945-961. 75. Berestovskaya J.J., Kotsyurbenko O.R., Tourova T.P., Kolganova T.V., Doronina N.V., Golyshin P.N. and Vasilyeva L.V. 2011. Methylorosula polaris, gen. nov., sp. nov., a new aerobic, facultatively methylotrophic psychrotolerant bacterium from Tundra wetland soil. International Journal of Systematic and Evolutionary Microbiology 62(Pt 3):638-646. 76. La Cono V., Smedil, F., Bortoluzz, G., Arcad, E., Maimone G., Messina E., Borghini M., Oliveri E., Mazzola, S., L'Haridon, S., Toffin, L., Genovese, L., Ferrer, M., Giuliano, L., Golyshin P. N. and Yakimov M. M. 2011. Unveiling microbial life in new deep-sea hypersaline Lake Thetis. Part I: Prokaryotes and environmental settings. Environmental Microbiology 13(8): 2250–2268. 77. Sabirova J.S., Becker A., Lünsdorf H., Nicaud J.M., Timmis K.N. and Golyshin P.N. 2011. Transcriptional profiling of the marine oil-degrading bacterium Alcanivorax borkumensis during growth on n-alkanes. FEMS Microbiology Letters. 319(2):160-168. 78. Navarro-Fernández J., Nechitaylo T.Y., Guerrero J.A., Golyshina O.V., García-Carmona F., Sánchez-Ferrer A. and Golyshin P.N. 2011. A novel platelet-activating factor acetylhydrolase discovered in a metagenome from the earthworm– associated microbial community. Environmental Microbiology 13(11):3036-3046. 79. Glanville H., Rousk J., Golyshin P., and Jones D.L. 2012. Mineralization of low molecular weight carbon substrates in soil solution under laboratory and field conditions Soil Biology and Biochemistry 48:88-95. 80. Gertler C., Näther D.J., Cappello S., Gerdts G., Quilliam R.S., Yakimov M.M. and Golyshin P.N. 2012. Composition and dynamics of biostimulated indigenous oil-degrading microbial consortia from the Irish, North and Mediterranean Seas: a mesocosm study. FEMS Microbiology Ecology 81(3):520-536. 81. Ferrer M., Werner J., Chernikova T.N., Bargiela R., Fernández L., La Cono V., Waldmann J., Teeling H., Golyshina O.V., Glöckner F.O., Yakimov M.M. and Golyshin P.N. The MAMBA Scientific Consortium. 2012. Unveiling microbial life in the new deep-sea hypersaline Lake Thetis. Part II: a metagenomic study. Environmental Microbiology 14(1):268- 281. 82. Gwyther C.L., Jones D.L., Golyshin P.N., Edwards-Jones G., and Williams A.P. 2012. Fate of pathogens in a simulated bioreduction system for livestock carcasses. Waste Management 32(5):933-938. 83. Lemak S., Tchigvintsev A., Petit P., Flick R., Singer AU, Brown G, Evdokimova E., Egorova O., Gonzalez C., Chernikova T.N., Yakimov M.M., Kube M, Reinhardt R., Golyshin P.N., Savchenko A., and Yakunin A.F. 2012 Structure and activity of the cold-active and anion-activated carboxyl esterase OLEI01171 from the oil-degrading marine bacterium Oleispira antarctica. Biochemical Journal 445(2):193-203. 84. Ferrer M., Ghazi A., Beloqui A., Vieites J.M., López-Cortés N., Marín-Navarro J., Nechitaylo T.Y., Guazzaroni M.-E., Polaina J., Waliczek A., Chernikova T.N., Reva O.N., Golyshina O.V. and Golyshin P.N. 2012. Functional metagenomics unveils a multifunctional glycosyl hydrolase from the family 43 catalysing the breakdown of plant polymers in the calf rumen PLoS One 7(6):e38134. 85. Smedile F., Messina E., La Cono V., Tsoy O., Monticelli L.S., Borghini M., Giuliano L., Golyshin P.N., Mushegian A., Yakimov M.M.. 2012. Metagenomic analysis of hadopelagic microbial assemblages thriving at the deepest part of Mediterranean Sea, Matapan-Vavilov Deep. Environmental Microbiology 15(1):167-182. 86. Del Pozo M.V., Fernández-Arrojo L., Gil-Martínez J., Montesinos A., Chernikova T..N., Nechitaylo T.Y., Waliszek A., Tortajada M., Rojas A., Huws S.A., Golyshina O.V., Newbold C.J., Polaina J., Ferrer M. and Golyshin P.N. 2012. Microbial β-glucosidases from cow rumen metagenome enhance the saccharification of lignocellulose in combination with commercial cellulase cocktail. Biotechnology for Biofuels 5 (1): 73. 87. Glanville H.G., Hill P.W., Maccarone L.D., Golyshin P.N., Murphy D.V., Jones D.L. 2012. Temperature and water controls on vegetation emergence, microbial dynamics, and soil carbon and nitrogen fluxes in a high Arctic tundra ecosystem. Functional Ecology 26(6):1366-1380. 88. Alcaide M., Messina E., Richter M., Bargiela R., Peplies J., Huws S.A., Newbold C.J., Golyshin P.N., Simón M.A., López G., Yakimov M.M., Ferrer M. 2012. Gene sets for utilization of primary and secondary nutrition supplies in the distal gut of endangerediberian lynx. PLoS One 7(12):e51521. 89. Gwyther C., Jones D.L., Golyshin P.N., Edwards-Jones G., McKillen J., McNair I., McDonald J., Williams P. 2013. Bioreduction of sheep carcasses effectively contains and reduces pathogen levels under operational and simulated breakdown conditions. Environmental Science and Technology 47(10):5267-5275. 90. Golyshin P.N., Werner J., Chernikova T.N., Ferrer M., Yakimov M.M., Teeling H. and Golyshina O.V. MAMBA Scoientifiic Consortium. 2013. Genome sequence of Thalassolituus oleivorans MIL-1 (DSM 14913T). Genome Announcements 1(2): e0014113. 91. Daffonchio D., Ferrer M., Mapelli F., Cherif A., Lafraya A., Malkawi H.I., Yakimov M.M., Abdel-Fattah Y.R., Blaghen M., Golyshin P.N., Kalogerakis N., Boon N., Magagnini M., and Fava F. 2013. Bioremediation of Southern Mediterranean oil polluted sites comes of age. New Biotechnology 30(6):743-748. 92. Alcaide M, Tornés J., Stogios P.J., Xu X., Gertler C., Di Leo R., Bargiela R., Lafraya A., Guazzaroni M.E., López-Cortés N., Chernikova T.N., Golyshina O.V., Nechitaylo T.Y., Plumeier I., Pieper D.H., Yakimov M.M., Savchenko A., Golyshin P.N.,* Ferrer M.* (*Equal contributions, corresponding authors). 2013. Single residues dictate the co-evolution of dual esterases - MCP hydrolases from the α/β hydrolase family. Biochemical Journal 454(1):157-166. 93. Kube M., Chernikova T.N., Al-Ramahi Y., Beloqui A., Lopez-Cortez N., Guazzaroni M.E., Heipieper H.J., Klages S., Kotsyurbenko O.R., Langer I., Nechitaylo T.Y., Fernández M., Juárez S., Ciordia S., Singer A., Kagan O., Egorova O., Petit P.A., Stogios P., Kim Y., Tchigvintsev A., Flick R., Denaro R., Genovese M., Albar J.P., Reva O.N., Martínez- Gomariz M., Tran H., Ferrer M., Savchenko A., Yakunin A.F., Yakimov M.M., Golyshina O.V., Reinhardt R. and Golyshin P.N. 2013. Genome sequence and functional genomic analysis of the oil-degrading bacterium Oleispira antarctica. Nature Communications 4:2156. 94. Yakimov M.M.,* La Cono V.,* Slepak V.Z.,* Spada G., Arcadi E., Messina E., Borghini M., Monticelli L., Rojo D., Barbas C., Golyshina O.V., Ferrer M., Golyshin P.N.* and Giuliano L. (*Equal contributions) (2013) Microbial life in the Lake Medee, the largest salt-saturated formation in the deep-sea environment. Scientific Reports 3:3554. 95. Werner J., Ferrer M., Michel G., Mann A.J., Huang S., Juarez S., Ciordia S., Albar J.P., Alcaide M., Yakimov M.M., Antunes A., Taborda M., da Costa M.S., Tran H., Glöckner F.O., Golyshina O.V., Golyshin P.N.,* Teeling H.* The MAMBA consortium. (*Equal contributions, corresponding authors). (2014) Halorhabdus tiamatea: Whole genome sequence analyses and proteomics identify the first cultivated euryarchaeon from a deep-sea anoxic brine lake as potential polysaccharide degrader. Environmental Microbiology 16(8):2525-2537. doi: 10.1111/1462-2920.12393. 96. Jan C., Petersen J.M., Werner J., Teeling H., Huang S., Glöckner F.O., Golyshina O.V., Dubilier N., Golyshin P.N., Jebbar M., Cambon-Bonavita M.A. (2014) The gill chamber epibiosis of deep-sea shrimp Rimicaris exoculata: an in- depth metagenomic investigation and discovery of Zetaproteobacteria. Environmental Microbiology 16(9):2723-2738. 97. Genovese M., Crisafi F., Denaro R., Cappello S., Russo D., Calogero R., Santisi S., Catalfamo M., Modica A., Smedile F., Genovese L., Golyshin P.N., Giuliano L. and Yakimov M.M. (2014) Effective bioremediation strategy for rapid in situ cleanup of anoxic marine sediments in mesocosm oil spill simulation. Frontiers in Microbiology 5:162. 98. Denaro R., Crisafi F., Russo D., Genovese M., Messina E., Genovese L., Carbone M, Ciavatta M.L., Ferrer M., Golyshin P., Yakimov M. (2014) Alcanivorax borkumensis produces an extracellular siderophore in iron-limitation condition maintaining the hydrocarbon-degradation efficiency. Marine Genomics 17:43-52. 99. Yakimov M.M., La Cono V., Smedile F., Crisafi F., Arcadi E., Leonardi M., Decembrini F., Catalfamo M., Bargiela R., Ferrer M., Golyshin P.N., Giuliano L. (2014) Heterotrophic bicarbonate assimilation is the main process of de novo organic carbon synthesis in hadal zone of the Hellenic Trench, the deepest part of Mediterranean Sea. Environmental Microbiology Reports 6(6):709-722. 100. Tchigvintsev A., Tran H., Popovic A., Kovacic F., Brown G., Flick R., Hajighasemi M., Egorova O., Somody J.C., Tchigvintsev D., Khusnutdinova A., Chernikova T.N., Golyshina O.V., Yakimov M.M., Savchenko A., Golyshin P.N., Jaeger K.E. and Yakunin A.F. (2015) The environment shapes microbial enzymes: five cold-active and salt-resistant carboxylesterases from marine metagenomes. Applied Microbiology and Biotechnology 99(5):2165-2178. doi: 10.1007/s00253-014-6038-3. 101. Yakimov M.M., La Cono V., La Spada G., Bortoluzzi G., Messina E., Smedile F., Arcadi E., Borghini M., Ferrer M., Schmitt‐Kopplin P., Hertkorn N., Cray J.A., Hallsworth J.E., Golyshin P.N. and Giuliano L. (2015) Microbial community of the deep-sea brine Lake Kryos seawater-brine interface is active below the chaotropicity limit of life as revealed by recovery of mRNA. Environmental Microbiology 7(2):364-382. doi: 10.1111/1462-2920.12587 102. Doonan J., Denman S., Gertler C., Pachebat J.A., Golyshin P.N., and McDonald J.E. (2015) The intergenic transcribed spacer region 1 as a molecular marker for identification and discrimination of Enterobacteriaceae associated with acute oak decline. Journal of Applied Microbiology 18(1):193-201. doi: 10.1111/jam.12677. 103. Alcaide M., Stogios P.J., Lafraya A., Tchigvintsev A., Flick R., Bargiela R., Chernikova T.N., Reva O.N., Hai T., Leggewie C.C., Katzke N., La Cono V., Matesanz R., Jebbar M., Jaeger K.E., Yakimov M.M., Yakunin A.F., Golyshin P.N., Golyshina O.V., Savchenko A., Ferrer M.; MAMBA consortium. (2015) Pressure adaptation is linked to thermal adaptation in salt-saturated marine habitats. Environmental Microbiology 17(2):332-345. doi: 10.1111/1462- 2920.12660. 104. Privé F., Newbold C.J., Kaderbhai N.N., Girdwood S.G., Golyshina O.V., Golyshin P.N., Scollan N.D. and Huws S.A. (2015) Isolation and characterization of novel lipases/esterases from a bovine rumen metagenome. Applied Microbiology and Biotechnology. 99(13):5475-5485. doi: 10.1007/s00253-014-6355-6. 105. Alcaide M., Tchigvintsev A., Martinez-Martinez M., Popovic A., Reva O.N., Lafraya A., Bargiela R., Nechitaylo T.Y., Matesanz R., Cambon-Bonavita M.A., Jebbar M., Yakimov M.M., Savchenko A., Golyshina O.V., Yakunin A.F., Golyshin P.N.* and Ferrer M.* (*corresponding autors) (2015) Identification and characterization of carboxyl esterases of gill chamber-associated microbiota in the deep-sea shrimp Rimicaris exoculata using functional metagenomics. Applied and Environmental Microbiology 81(6):2125-2136. doi: 10.1128/AEM.03387-14. 106. Gertler C., Bargiela R., Mapelli F., Han X., Chen J., Hai T., Amer R.A., Mahjoubi M., Malkawi H., Magagnini M., Cherif A., Abdel-Fattah Y.R., Kalogerakis N., Daffonchio D., Ferrer M., and Golyshin P.N. (2015) Conversion of Uric Acid into Ammonium in Oil-Degrading Marine Microbial Communities: a Possible Role of Halomonads. Microbial Ecology 70(3):724-740. doi: 10.1007/s00248-015-0606-7. 107. Bargiela R., Herbst F.A., Martínez-Martínez M., Seifert J., Rojo D., Cappello S., Genovese M., Crisafi F., Denaro R., Chernikova T.N., Barbas C., von Bergen M., Yakimov M.M., Ferrer M. and Golyshin P.N. (2015) Metaproteomics and metabolomics analyses of chronically petroleum-polluted sites reveal the importance of general anaerobic processes uncoupled with degradation. Proteomics 15(20):3508-3520. doi: 10.1002/pmic.201400614.). 108. Kopf A., Bicak M., Kottmann R., Schnetzer J., Kostadinov I., Lehmann K., Fernandez-Guerra A., Jeanthon C., Rahav E., Ullrich M., Wichels A., Gerdts G., Polymenakou P., Kotoulas G., Siam R., Abdallah R.Z., Sonnenschein E.C., Cariou T, O'GaraF, Jackson S, Orlic S, Steinke M, Busch J, Duarte B, Caçador I, Canning-Clode J., Bobrova O., Marteinsson V., Reynisson E., Loureiro C.M., Luna .GM., Quero G.M., Löscher C.R., Kremp A., DeLorenzo M.E., Øvreås L., Tolman J., LaRoche J., Penna A., Frischer M., Davis T., Katherine B., Meyer C.P., Ramos S., Magalhães C., Jude-Lemeilleur F., Aguirre-Macedo M.L., Wang S., Poulton N., Jones S., Collin R., Fuhrman J.A, Conan P., Alonso C., Stambler N., Goodwin K., Yakimov M.M., Baltar F., Bodrossy L., Van De Kamp J., Frampton D.M., Ostrowski M., Van Ruth P., Malthouse P., Claus S., Deneudt K., Mortelmans J,. Pitois S., Wallom D., Salter I., Costa R., Schroeder D.C., Kandil M.M., Amaral V,Biancalana F., Santana R., Pedrotti M.L., Yoshida T., Ogata H., Ingleton T., Munnik K., Rodriguez-Ezpeleta N., Berteaux-Lecellier V., Wecker P., Cancio I., Vaulot D., Bienhold C., Ghazal H., Chaouni B., Essayeh S., Ettamimi S., Zaid E.H., Boukhatem N., Bouali A., Chahboune R., Barrijal S., Timinouni M., El Otmani F., Bennani M., Mea M., Todorova N., Karamfilov V., Ten Hoopen P., Cochrane G., L'Haridon S., Bizsel K.C., Vezzi A., Lauro F.M., Martin P., Jensen R.M., Hinks J., Gebbels S., Rosselli R., De Pascale F., Schiavon R., Dos Santos A., Villar E., Pesant S., Cataletto B., Malfatti F., Edirisinghe R., Silveira J.A., Barbier M., Turk V., Tinta T., Fuller W.J., Salihoglu I., Serakinci N., Ergoren M.C., Bresnan E., Iriberri J., Nyhus P.A., Bente E., Karlsen H.E., Golyshin P.N., Gasol J.M., Moncheva S., Dzhembekova N., Johnson Z., Sinigalliano C.D., Gidley M.L., Zingone A., Danovaro R., Tsiamis G., Clark M.S., Costa A.C., El Bour M., Martins A.M., Collins R.E., Ducluzeau A.L., Martinez J., Costello M.J., Amaral-Zettler L.A., Gilbert J.A., Davies N., Field D., Glöckner F.O. (2015) The ocean sampling day consortium. Gigascience. 4:27. eCollection. PubMed PMID: 26097697. 109. Bargiela R., Mapelli F., Rojo D., Chouaia B., Tornes J., Borin S., Richter M., Del Pozo M.V., Cappello S., Gertler C., Genovese M., Denaro R., Martinez-Martinez M., Fodelianakis S., Amer R., Bigazzi D., Han X., Chen J., Chernikova T.N., Golsyhina O.V., Mahjoubi M., Jaouani A., Benzha F., Magagnini M., Hussein E., Al-Horani F., Cherif A., Blaghen M., Abdel-Fattah Y.R., Kalogerakis N., Barbas C., Malkawi H., Golyshin P.N., Yakimov M.M., Daffonchio D. and Ferrer M. (2015) Bacterial population and biodegradation potential in chronically crude oil-contaminated marine sites are strongly linked to temperature. Scientific Reports 5:11651. DOI: 10.1038/srep11651 110. Leis B., Heinze S., Angelov A., Pham V.T., Thürmer A., Jebbar M., Golyshin P.N., Streit W.R., Daniel R., Liebl W. (2015) Functional Screening of Hydrolytic Activities Reveals an Extremely Thermostable Cellulase from a Deep-Sea Archaeon. Frontiers in Bioengineering and Biotechnology 3:95. doi: 10.3389/fbioe.2015.00095. 111. Placido A., Hai T., Ferrer M., Chernikova T.N., Distaso M., Armstrong D., Yakunin A.F., Toshchakov S.V., Yakimov M.M., Kublanov I.V., Golyshina O.V., Pesole G., Ceci L.R. and Golyshin P.N. (2015) Diversity of hydrolases from hydrothermal vent sediments of the Levante Bay, Vulcano Island (Aeolian archipelago) identified by activity-based metagenomics and biochemical characterization of new esterases and an arabinopyranosidase. Applied Microbiology and Biotechnology. 99(23):10031-10046. doi: 10.1007/s00253-015-6873-x. 112. Messina E., Denaro R., Crisafi F., Smedile F., Cappello S., Genovese M., Genovese L., Giuliano L., Russo D., Ferrer M., Golyshin P. and Yakimov M.M. (2015) Genome sequence of obligate marine polycyclic aromatic hydrocarbons- degrading bacterium Cycloclasticus sp. 78-ME, isolated from petroleum deposits of the sunken tanker Amoco Milford Haven, Mediterranean Sea. Marine Genomics. 25:11-13. doi:10.1016/j.margen.2015.10.006. 113. Golyshina O.V., Lünsdorf H., Kublanov I.V., Goldenstein N.I., Hinrichs K.U. and Golyshin P.N. (2016) The novel, extremely acidophilic, cell wall-deficient archaeon Cuniculiplasma divulgatum gen. nov., sp. nov. represents a new Family of Cuniculiplasmataceae fam. nov., order Thermoplasmatales. International Journal of Systematic and Evolutionary Microbiology 66(1):332-340. doi: 10.1099/ijsem.0.000725. 114. Bargiela R., Gertler C., Magagnini M., Mapelli F., Chen J., Daffonchio D., Golyshin P.N. and Ferrer M. (2015) Degradation Network Reconstruction in Uric Acid and Ammonium Amendments in Oil-Degrading Marine Microcosms Guided by Metagenomic Data. Frontiers in Microbiology 6:1270. doi: 10.3389/fmicb.2015.01270. 115. Popovic A., Tchigvintsev A., Tran H., Chernikova T.N., Golyshina O.V., Yakimov M.M., Golyshin P.N., Yakunin A.F. (2015) Metagenomics as a Tool for Enzyme Discovery: Hydrolytic Enzymes from Marine-Related Metagenomes. Adv Exp Med Biol. 883:1-20. doi:10.1007/978-3-319-23603-2_1. 116. Sorokin D.Y., Kublanov I.V., Gavrilov S.N., Rojo D., Roman P., Golyshin P.N., Slepak V.Z., Smedile F., Ferrer M., Messina E., La Cono V., Yakimov M.M. (2016) Elemental sulfur and acetate can support life of a novel strictly anaerobic haloarchaeon. ISME Journal 10(1):240-252. doi: 10.1038/ismej.2015.79. 117. Ferrer M., Martínez-Martínez M., Bargiela R., Streit W.R., Golyshina O.V. and Golyshin P.N. (2016) Estimating the success of enzyme bioprospecting through metagenomics: current status and future trends. Microbial Biotechnology 9:22-34. doi:10.1111/1751-7915.12309. 118. Hajighasemi M., Nocek B.P., Tchigvintsev A., Brown G., Flick R., Xu X., Cui H., Hai T., Joachimiak A., Golyshin P.N., Savchenko A., Edwards E.A. and Yakunin A.F. (2016) Biochemical and Structural Insights into Enzymatic Depolymerization of Polylactic Acid and Other Polyesters by Microbial Carboxylesterases. Biomacromolecules 17(6):2027-39. doi: 10.1021/acs.biomac.6b00223. 119. Messina E., Denaro R., Crisafi F., Smedile F., Cappello S., Genovese M., Genovese L., Giuliano L., Russo D., Ferrer M., Golyshin P., Yakimov M.M. (2016) Genome sequence of obligate marine polycyclic aromatic hydrocarbons-degrading bacterium Cycloclasticus sp. 78-ME, isolated from petroleum deposits of the sunken tanker Amoco Milford Haven, Mediterranean Sea. Marine Genomics 25:11-13. doi: 10.1016/j.margen.2015.10.006. 120. Yakimov M.M., Crisafi F., Messina E., Smedile F., Lopatina A., Denaro R., Pieper D.H., Golyshin P.N. and Giuliano L. (2016) Analysis of defence systems and a conjugative IncP-1 plasmid in the marine polyaromatic hydrocarbons-degrading bacterium Cycloclasticus sp. 78-ME. Environmental Microbiology Reports 8(4):508-519. doi:10.1111/1758- 2229.12424. 121. Ramírez-Escudero M., Del Pozo M.V., Marín-Navarro J., González B., Golyshin P.N., Polaina J., Ferrer M., Sanz- Aparicio J. (2016). Structural and Functional Characterization of a Ruminal β-Glycosidase Defines a Novel Subfamily of Glycoside Hydrolase Family 3 with Permuted Domain Topology. Journal of Biological Chemistry 291(46):24200- 24214. doi: 10.1074/jbc.M116.747527. 122. Zapata-Pérez R. García-Saura A.G., Jebbar M., Golyshin P.N.*, and Sánchez-Ferrer A.* (*corresponding authors) (2016) Combined whole-cell high-throughput functional screening for identification of new nicotinamidases/pyrazinamidases in metagenomic/polygenomic libraries. Frontiers in Microbiology 7:1915. doi: 10.3389/fmicb.2016.01915. 123. Chigor C.B., Ibangha I.-A., OnuoraV.C.; Omotosho O.E., Chernikova T., Chigor V.N. and Golyshin P.N. (2016) Multidrug Resistance and High Prevalence of class 1 Integrons in Escherichia coli Isolated from Irrigation Water and Vegetables in Parts of Nsukka and Enugu, Nigeria. The FASEB Journal 31(Supplement 1):777.22. 124. Golyshina O.V., Kublanov I.V., Tran H., Korzhenkov A.A., Lünsdorf H., Nechitaylo T.Y., Gavrilov S.N., Toshchakov S.V. and Golyshin P.N. (2016) Biology of archaea from a novel family Cuniculiplasmataceae (Thermoplasmata) ubiquitous in hyperacidic environments. Scientific Reports 6:39034. doi: 10.1038/srep39034. 125. Doonan J., Denman S., McDonald J.E., Golyshin P.N. (2017) Shotgun Metagenomic Sequencing Analysis of Soft-Rot Enterobacteriaceae in Polymicrobial Communities. Methods in Molecular Biology 1539:85-97. 126. Bortoluzzi G., Romeo T., La Cono V., La Spada G., Smedile F., Esposito V, Sabatino G., Di Bella M., Canese S., Scotti G., Bo M., Giuliano L., Jones D., Golyshin P.N., Yakimov M.M. and Andaloro F. (2017) Ferrous iron- and ammonium- rich diffuse vents support habitat-specific communities in a shallow hydrothermal field off the Basiluzzo Islet (Aeolian Volcanic Archipelago). Geobiology. 15:664–677. doi:10.1111/gbi.12237. 127. Chigor C.B., Ibangha I.-A.I., Onuora V.C., Omotosho O.E., Chernikova T.N., Chigor V.N. and Golyshin P.N. (2017) Multidrug Resistance and High Prevalence of class 1 Integrons in Escherichia coli Isolated from Irrigation Water and Vegetables in Parts of Nsukka and Enugu, Nigeria. The FASEB Journal 31(Suppl. 1):777.22-777.22 128. Popovic A., Tran H., Hagikqashemi M., Nocek B., Khusnutdinova A.N., Brown G., Glinos J., Flick R., Skarina T., Chernikova T.N., Yim V., Bruls T., Le Paslier D., Yakimov M.M., Ioachimiak A., Ferrer M., Golyshina O.V., Savchenko A., Golyshin P.N.* and Yakunin A.F.* (*corresponding authors). 2017. Activity screening of metagenomic libraries reveals novel carboxylesterase families. Scientific Reports 7:44103. DOI: 10.1038/srep44103) 129. Sorokin D.Y., Messina E., Smedile F., Roman P., Damsté J.S., Ciordia S., Carmen Mena M., Ferrer M., Golyshin P.N., Kublanov I.V., Samarov N.I., Toshchakov S.V., La Cono V, Yakimov MM. (2017) Discovery of anaerobic lithoheterotrophic haloarchaea, ubiquitous in hypersaline habitats. ISME Journal 11(5):1245-1260. doi: 10.1038/ismej.2016.203. 130. Sorokin D.Y., Makarova K.S., Abbas B., Ferrer M., Golyshin P.N., Galinski Е., Ciordia S., Mena M., Merkel A.Y, Wolf Y.I., van Loosdrecht M. and Koonin E. (2017). Discovery of extremely halophilic, methyl-reducing euryarchaea provides insights into the evolutionary origin of methanogenesis. Nature Microbiology 2:17081. doi:10.1038/nmicrobiol.2017.81. 131. Golyshina O.V., Tran H., Reva O.N., Lemak S., Yakunin A.F., Goesmann A., Nechitaylo T.Y., La Cono V., Smedile F., Slesarev A., Rojo D., Barbas C., Ferrer M., Yakimov M.M. and Golyshin P.N. (2017) Metabolic and evolutionary patterns in the extremely acidophilic archaeon Ferroplasma acidiphilum YT. Scientific Reports 7:3682 doi: 10.1038/s41598-017- 03904-5. 132. Brailsford F.L., Glanville H.C., Marshall M.R., Golyshin P.N., Johnes P.J., Yates C.A., Owen A.T., Jones D.L. (2017) Microbial use of low molecular weight DOM in filtered and unfiltered freshwater: Role of ultra-small microorganisms and implications for water quality monitoring. Science of the Total Environment 598:377-384. doi:10.1016/j.scitotenv.2017.04.049. 133. Potter C., Freeman C., Golyshin P.N., Ackermann G., Fenner N., McDonald J.E., Ehbair A., Jones T.G., Murphy L.M. and Creer S. (2017) Subtle shifts in microbial communities occur alongside the release of carbon induced by drought and rewetting in contrasting peatland ecosystems. Scientific Reports 7(1):11314. doi: 10.1038/s41598-017-11546-w. 134. Denman S., Doonan J., Ransom-Jones E., Broberg M., Plummer S., Kirk S., Scarlett K., Griffiths A.R., Kaczmarek M., Forster J., Peace A., Golyshin P.N., Hassard F., Brown N., Kenny J.G. and McDonald J.E. (2018) Microbiome and infectivity studies reveal complex polyspecies tree disease in Acute Oak Decline. ISME J 2(2):386-399. doi: 10.1038/ismej.2017.170. 135. Golyshina O.V., Toshchakov S.V., Makarova K.S., Gavrilov S.N., Korzhenkov A.A., La Cono V., Arcadi E., Nechitaylo T.Y., Ferrer M., Kublanov I.V., Wolf Y.I., Yakimov M.M. and Golyshin P.N. (2017). “ARMAN” archaea depend on association with euryarchaeal host in culture and in situ. Nature Communications 8:60. DOI:10.1038/s41467-017-00104- 7. 136. Oyama L.B., Crochet J.-A., Edwards J.E., Girdwood S.E., Cookson A.R., Fernandez-Fuentes N., Hilpert K., Golyshin P.N., Golyshina O.V., Prive F., Hess M., Mantovani H.C., Creevey C.J., Huws S.A. (2017). Buwchitin: A Ruminal Peptide with Antimicrobial Potential against Enterococcus faecalis. Frontiers in Chemistry 5:51. doi: 10.3389/fchem.2017.00051 137. Chernikova T.N., Dallimore J., Lünsdorf H., Heipieper H.J. and Golyshin P.N. (2017) Monaibacterium marinum, gen. nov, sp. nov, a new member of the Alphaproteobacteria isolated from seawater of Menai Straits, Wales, UK. International Journal of Systematic and Evolutionary Microbiology. 67(9):3310-3317. doi: 10.1099/ijsem.0.002111. 138. Oyama L., Girdwood S., Cookson A., Fernandez-Fuentes N., Privé F., Vallin H., Wilkinson T., Golyshin P.N., Golyshina O.V., Mikut R., Hilpert K, Richards J., Wooton M., Edwards J., Maresca M., Perrier J., Lundy F., Luo Y., Zhou M., Mantovani H., Creevey C. and Huws S. (2017) The rumen microbiome: an underexplored resource for novel antimicrobial discovery. NPJ Biofilms and Microbiomes 3:33. doi:10.1038/s41522-017-0042-1 139. 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 (*equal contributions) (2018) Determinants and distribution of substrate promiscuity patterns in microbial ester-hydrolases. ACS Chemical Biology 13(1):225-234. doi:10.1021/acschembio.7b00996. 140. Chernikova T.N., Kyrpides N., Bargiela R., Woyke T., Shapiro N., Whitman W.B., and Golyshin P.N. (2018) Draft Genome Sequence of Monaibacterium marinum C7(T), Isolated from Seawater from the Menai Straits, Wales, United Kingdom. Genome Announcements 6(5). pii: e01444-17. doi: 10.1128/genomeA.01444-17. 141. 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 142. 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. 143. 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 9:2359 doi:10.3389/fmicb.2018.02359. 144. 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 52(21):12388-12401. doi: 10.1021/acs.est.8b04252. 145. 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. 146. 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. 147. 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. 148. 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. 149. 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. 150. Korzhenkov A.A., Toshchakov S.V., Bargiela R., Gibbard H., Ferrer M., Teplyuk A.V., Jones D.L., Kublanov I.V., Golyshin P.N., Golyshina OV. (2019) Archaea dominate the microbial community in an ecosystem with low-to- moderate temperature and extreme acidity. Microbiome 7(1):11. doi: 10.1186/s40168-019-0623-8. 151. 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. (2019) 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. 152. Brailsford FL, Glanville HC, Golyshin PN, Johnes PJ, Yates CA, Jones DL. (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. 153. 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 154. 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.

B. Review articles 155. Golovko A.E., Golyshin P.N., Ryabchenko N.F. 1993. The role of B. thuringiensis in natural biocenoses. Microbiological Journal 55, 104-109. 156. olyshin P.N., Timmis K.N., Yakimov M. M. 2001. Oil eating bacteria. Bioworld N2. p.4-6. 157. Abraham W.R., Nogales B., Golyshin P.N., Pieper D.H., Timmis K.N. 2002. Polychlorinated biphenyl-degrading microbial communities in soils and sediments. Current Opinion in Microbiology Jun;5(3):246-253. 158. Pieper D.H. Dos Santos V.M., Golyshin P.N. 2004. Genomic and mechanistic insights into biodegradation of organic pollutants Current Opinion in Biotechnology 15(3):215-224. 159. Ferrer M., Martínez-Abarca F., and Golyshin P.N. 2005. Genome and “metagenome” mining for novel catalysts. Current Opinion in Biotechnology 16(6):588-593. 160. Ferrer M., Beloqui A. and Golyshin P.N. 2007. Metagenomics update/Perspectives. Microbial metagenomes: moving forward industrial biotechnology. Journal of Chemical Technology and Biotechnology 82(5): 421-423. 161. Ferrer M., Golyshina O.V. Beloqui A. and Golyshin P.N. 2007. Mining enzymes from extreme environments. Current Opinion in Microbiology 10(3):207-214. 162. Yakimov M.M., Timmis K.N. and Golyshin P.N. 2007. Obligate marine hydrocarbonoclastic bacteria. Current Opinion in Biotechnology 8(3):257-266. 163. Beloqui A., Dominguez de Maria P., Golyshin P.N. and Ferrer M. 2008. Recent trends in industrial microbiology Current Opinion in Microbiology 11(3):240-248. 164. Ferrer M., Beloqui A., Timmis K.N. and Golyshin P.N. 2009. Metagenomics for mining new genetic resources of microbial communities. Journal of Molecular Microbiology and Biotechnology 16(1-2):109-123. 165. Vieites J., Guazzaroni M.E., Beloqui A., Golyshin P.N. and Ferrer M. 2009. Metagenomics approaches in Systems Microbiology. FEMS Microbiology Reviews 33(1):236-255. 166. Vieites J.M., Guazzaroni M.E., Beloqui A., Golyshin P.N. and Ferrer M. 2010. Molecular methods to study complex microbial communities. Methods in Molecular Biology 668:1-37. 167. Röling W.F.M., Ferrer M. and Golyshin P.N. 2010. Systems approaches to microbial communities and their functioning. Current Opinion in Biotechnology 21(4):532-538. 168. Gwyther C.L., Williams A.P., Golyshin P.N., Edwards-Jones G. and Jones D.L. 2011. The environmental and biosecurity characteristics of livestock carcass disposal methods: A review. Waste Management 31(4):767-778. 169. Streit, Wolfgang; Chow, Jennifer; Jaeger, Karl-Erich; Katzke, Nadine; Koch, Rainhard; Borchert, Martin; Bj'rnvad, Mads; Roggenbuck, Michael; Lippold, Felix; Golyshin, Peter (2018) A metagenomic collection of novel and highly efficient biocatalysts for industrial biotechnology. Impact 2018:(5): 82-84 C. Book chapters 170. Golyshin P.N., Harayama S., Timmis K.N., Yakimov M.M. 2005. Family Alcanivoraceae. In: Bergey’s Manual of Systematic Bacteriology, 2nd Edition, (by D.J. Brenner, N.R. Krieg, J.R. Staley and G. Garrity (Eds.)), vol. 2, Springer, 295-298 . ISBN-10: 0387241442. 171. Ferrer M. and Golyshin P.N. 2009. Rare metabolic conversions: harvesting diversity through nature. In: Handbook for Metabolic Pathway Engineering (Ed. C. Smolke), Vol. 1, CRC Press, Boca Raton (FL), pp. 5-1. 172. Martins dos Santos V.A.P., Yakimov M.M., Timmis K.N. and Golyshin P.N. 2007. Genomic insights into oil biodegradation in marine systems. In: Microbial Biodegradation: Genomics and Molecular Biology, (Ed. E. Diaz), Caister Acade Press, 269-296. ISBN-10: 1904455174. 173. Beloqui A., Zumárraga M., Alcalde M. and Golyshin P.N. and Ferrer M., 2009. Microbes and enzymes: recent trends and new directions to explore protein diversity space. In: Protein Engineering Handbook (S. Lutz and U.T. Bornscheuer, eds.), Wiley VCH, pp. 233-289. ISBN-10: 352731850X 174. Golyshin P.N., Lünsdorf H., Ferrer M. and Yakimov M.M. 2009. Thermoleophilum - a Gram-positive hydrocarboloclastic thermophilic bacterium. In: Handbook of Hydrocarbon Microbiology: Microbial Interactions with Hydrocarbons Oils, Fats And Related Hydrophobic Substrates And Products Springer Berlin-Heidelberg, pp. 1881-1886. 175. Martins Dos Santos V.A.P., Yakimov M.M., Timmis K.N. and Golyshin P.N. 2009. Paradigms of hydrocarbon- degrading microorganisms: Alcanivorax borlumensis. In: Handbook of Hydrocarbon Microbiology: Microbial Interactions with Hydrocarbons Oils, Fats And Related Hydrophobic Substrates And Products Springer, Berlin- Heidelberg, pp. 1265-1288. 176. Golyshin P.N., Ferrer M., Chernikova T.N., Golyshina O.V. and Yakimov M.M. Oleispira. In: Handbook of Hydrocarbon Microbiology: Microbial Interactions with Hydrocarbons Oils, Fats And Related Hydrophobic Substrates And Products, Springer, Berlin-Heidelberg, pp. 1755-1763. 177. Gertler M., Yakimov M.M., Malpass M.C. and Golyshin P.N. 2009. Oil tanker sludges and slops. In: Handbook of Hydrocarbon Microbiology: Microbial Interactions with Hydrocarbons Oils, Fats And Related Hydrophobic Substrates And Products, Springer Berlin-Heidelberg, pp. 257-265. 178. Gertler M., Golyshin P.N. and Yakimov M.M. 2009. Shipping-related accidental and deliberate release into the environment. In: Handbook of Hydrocarbon Microbiology: Microbial Interactions with Hydrocarbons Oils, Fats And Related Hydrophobic Substrates And Products, Springer Berlin-Heidelberg, pp. 243-256. 179. Vieites J.M., Beloqui A., Guazzaroni M.E., Al-Ramahi Y., Cortes N.L. Ghazi A., Golyshin P.N., Ferrer M. 2009. Metagenomic Mining of Enzyme Diversity. In: Handbook of Hydrocarbon Microbiology: Microbial Interactions with Hydrocarbons Oils, Fats And Related Hydrophobic Substrates And Products, Springer, Berlin-Heidelberg (in press). 180. Cowan D.A., Kirby B.B., Meiring T.L., Ferrer M., Guazzaroni M.E., Golyshina O.V. and Golyshin P.N. (2010). Enzymes from Extreme Environments In: Manual of Industrial Microbiology and Biotechnology, 3rd Ed. (Baltz, Davies and Demain, eds.) ASM Press, Washington (DC) pp. 43-61. 181. Nechitaylo T.Y., Ferrer M. and Golyshin P.N. (2014). Microbial communities from earthworm-egested matter and their potential for discovery of new hydrolytic enzymes. In: The Encyclopedia of Metagenomics (K.E. Nelson, Ed). Springer, Berlin-Heidelberg, pp. 1-11. 182. Yakimov M.M., La Cono V., Ferrer M., Golyshin P.N. and Giuliano L. (2014) Metagenomics of Deep Hypersaline Anoxic Basins. In: The Encyclopedia of Metagenomics (K.E. Nelson, Ed). Springer, Berlin-Heidelberg, pp.1-9. 183. Yakimov M.M., Golyshin P.N. (2014) The Family Oleiphilaceae. In: The Prokaryotes. (E. Rosenberg, E. F. DeLong, S. Lory, E. Stackebrandt, F. Thompson, Eds), Springer, Berlin-Heidelberg, 529-533. 184. Toshchakov S.V., Kublanov I.V., Messina E., Yakimov M.M. and Golyshin P.N. (2015) In: Springer Protocols Handbooks Springer, Berlin-Heidelberg 185. Golyshina O.V. and Golyshin P.N. (2016) Diversity and Physiologies of acidophilic Archaea. In: Acidophiles. Life in extremely acidic environments. Eds, Quatrini R. and Johnson DB. Caister Academic Press. pp. 93-107. 186. Golyshina O.V., Ferrer M., Golyshin P.N. (2016) The genus Ferroplasma. In: Bergey's Manual of Systematics of Archaea and Bacteria. Wiley DOI: 10.1002/9781118960608.gbm01373 187. Golyshina O.V., Ferrer M., Golyshin P.N. (2016) The family Ferroplasmaceae. In: Bergey's Manual of Systematics of Archaea and Bacteria Wiley. DOI: 10.1002/9781118960608.fbm00273 188. Golyshina O.V., Ferrer M., Golyshin P.N. (2016) The genus Acidiplasma. In: Bergey's Manual of Systematics of Archaea and Bacteria Wiley. DOI: 10.1002/9781118960608.gbm01372 189. Martínez-Martínez M., Golyshin P.N., Ferrer M. (2017) Functional Screening of Metagenomic Libraries: Enzymes Acting on Greasy Molecules as Study Case In: Springer Protocols Handbooks Springer, Berlin-Heidelberg, DOI: 10.1007/8623_2015_104

D. Editorials 190. Fry J.C., Giuliano L. and Golyshin, P.N. 2003. New tools for elucidating the ecology of micro-organisms in aquatic environments. FEMS Microbiology Ecology 46(3): 231. 191. Golyshin P.N. 2005. Chemical biotechnology: what’s new, what’s next? Current Opinion in Biotechnology 16(6):585- 587.

E. Patents 192. European Patent PCT/EP2004/052492-2403 Transgenic organisms with lower growth temperature (13.10.2003). Based on this invention, licensed by Stratagene Ltd./Agilent, which produce a series of E. coli cell lines ArcticExpressTM for protein expression. 193. International Application WO 2006/00375 European Patent PCT/EP2005/053104. Cellulases from rumen (02.07.2004). 194. International Application WO 2006/003009 European Patent PCT/EP2005/007305. Esterases from rumen. (06.07.2004). 195. European Patent EP 05101628.5 Acidic enzymes from Ferroplasma (2005). 196. European Patent EP 05017308.7. Extracellular polyhydroxyalkanoates produced by genetically engineered microorganisms (2005). 197. European Patent. EP06003721.5 Polypeptides with laccase activity (2006). 198. European Patent EP09003977.7 and US Patent US61/210,482. Probe compound for detecting and isolating enzymes and means and methods for using the same (2009). Licensed by Reactomix Ltd. 199. UK Patent GB1012428.7 Multiple-approach oil spill bioremediation technique (2010).