Select Publications

Journal articles

Hamm JN; Erdmann S; Eloe-Fadrosh EA; Angeloni A; Zhong L; Brownlee C; Williams TJ; Barton K; Carswell S; Smith MA; Brazendale S; Hancock AM; Allen MA; Raftery MJ; Cavicchioli R, 2019, 'Unexpected host dependency of Antarctic Nanohaloarchaeota', Proceedings of the National Academy of Sciences of the United States of America, vol. 116, pp. 14661 - 14670, http://dx.doi.org/10.1073/pnas.1905179116

Cavicchioli R; Ripple WJ; Timmis KN; Azam F; Bakken LR; Baylis M; Behrenfeld MJ; Boetius A; Boyd PW; Classen AT; Crowther TW; Danovaro R; Foreman CM; Huisman J; Hutchins DA; Jansson JK; Karl DM; Koskella B; Mark Welch DB; Martiny JBH; Moran MA; Orphan VJ; Reay DS; Remais JV; Rich VI; Singh BK; Stein LY; Stewart FJ; Sullivan MB; van Oppen MJH; Weaver SC; Webb EA; Webster NS, 2019, 'Scientists’ warning to humanity: microorganisms and climate change', Nature Reviews Microbiology, vol. 17, pp. 569 - 586, http://dx.doi.org/10.1038/s41579-019-0222-5

Timmis K; Cavicchioli R; Garcia JL; Nogales B; Chavarría M; Stein L; McGenity TJ; Webster N; Singh BK; Handelsman J; de Lorenzo V; Pruzzo C; Timmis J; Martín JLR; Verstraete W; Jetten M; Danchin A; Huang W; Gilbert J; Lal R; Santos H; Lee SY; Sessitsch A; Bonfante P; Gram L; Lin RTP; Ron E; Karahan ZC; van der Meer JR; Artunkal S; Jahn D; Harper L, 2019, 'The urgent need for microbiology literacy in society', Environmental Microbiology, vol. 21, pp. 1513 - 1528, http://dx.doi.org/10.1111/1462-2920.14611

Williams TJ; Allen MA; Liao Y; Raftery MJ; Cavicchioli R, 2019, 'Sucrose metabolism in haloarchaea: Reassessment using genomics, proteomics, and metagenomics', Applied and Environmental Microbiology, vol. 85, http://dx.doi.org/10.1128/AEM.02935-18

Cavicchioli R, 2019, 'A vision for a ‘microbcentric’ future', Microbial Biotechnology, vol. 12, pp. 26 - 29, http://dx.doi.org/10.1111/1751-7915.13262

Tschitschko B; Erdmann S; DeMaere MZ; Roux S; Panwar P; Allen MA; Williams TJ; Brazendale S; Hancock AM; Eloe-Fadrosh EA; Cavicchioli R, 2018, 'Genomic variation and biogeography of Antarctic haloarchaea', Microbiome, vol. 6, http://dx.doi.org/10.1186/s40168-018-0495-3

2018, 'Extreme Excitement about Archaea', Cell, vol. 172, pp. 1153 - 1154, http://dx.doi.org/10.1016/j.cell.2018.02.038

Erdmann S; Tschitschko B; Zhong L; Raftery MJ; Cavicchioli R, 2017, 'A plasmid from an Antarctic haloarchaeon uses specialized membrane vesicles to disseminate and infect plasmid-free cells', Nature Microbiology, vol. 2, pp. 1446 - 1455, http://dx.doi.org/10.1038/s41564-017-0009-2

Williams TJ; Liao Y; Ye J; Kuchel RP; Poljak A; Raftery MJ; Cavicchioli R, 2017, 'Cold adaptation of the Antarctic haloarchaea Halohasta litchfieldiae and Halorubrum lacusprofundi', Environmental Microbiology, vol. 19, pp. 2210 - 2227, http://dx.doi.org/10.1111/1462-2920.13705

Jayawardena MB; Yee LH; Poljak A; Cavicchioli R; Kjelleberg SJ; Siddiqui KS, 2017, 'Enhancement of lipase stability and productivity through chemical modification and its application to latex-based polymer emulsions', Process Biochemistry, vol. 57, pp. 131 - 140, http://dx.doi.org/10.1016/j.procbio.2017.03.014

Williams TJ; Allen M; Tschitschko B; Cavicchioli R, 2017, 'Glycerol metabolism of haloarchaea', Environmental Microbiology, vol. 19, pp. 864 - 877, http://dx.doi.org/10.1111/1462-2920.13580

Paez-Espino D; Chen IMA; Palaniappan K; Ratner A; Chu K; Szeto E; Pillay M; Huang J; Markowitz VM; Nielsen T; Huntemann M; Reddy TBK; Pavlopoulos GA; Sullivan MB; Campbell BJ; Chen F; McMahon K; Hallam SJ; Denef V; Cavicchioli R; Caffrey SM; Streit WR; Webster J; Handley KM; Salekdeh GH; Tsesmetzis N; Setubal JC; Pope PB; Liu WT; Rivers AR; Ivanova NN; Kyrpides NC, 2017, 'IMG/VR: A database of cultured and uncultured DNA viruses and retroviruses', Nucleic Acids Research, vol. 45, pp. D457 - D465, http://dx.doi.org/10.1093/nar/gkw1030

Allen MA; Cavicchioli R, 2017, 'Microbial communities of aquatic environments on Heard Island characterized by pyrotag sequencing and environmental data', Scientific Reports, vol. 7, http://dx.doi.org/10.1038/srep44480

Danovaro R; Dell'anno A; Corinaldesi C; Rastelli E; Cavicchioli R; Krupovic M; Noble RT; Nunoura T; Prangishvili D, 2016, 'Virus-mediated archaeal hecatomb in the deep seafloor', Science Advances, vol. 2, http://dx.doi.org/10.1126/sciadv.1600492

Cavicchioli R, 2016, 'On the concept of a psychrophile', ISME Journal, vol. 10, pp. 793 - 795, http://dx.doi.org/10.1038/ismej.2015.160

Anderson IJ; DasSarma P; Lucas S; Copeland A; Lapidus A; Del Rio TG; Tice H; Dalin E; Bruce DC; Goodwin L; Pitluck S; Sims D; Brettin TS; Detter JC; Han CS; Larimer F; Hauser L; Land M; Ivanova N; Richardson P; Cavicchioli R; DasSarma S; Woese CR; Kyrpides NC, 2016, 'Complete genome sequence of the Antarctic Halorubrum lacusprofundi type strain ACAM 34', Standards in Genomic Sciences, vol. 11, http://dx.doi.org/10.1186/s40793-016-0194-2

Liao Y; Williams TJ; Ye J; Charlesworth J; Burns BP; Poljak A; Raftery MJ; Cavicchioli R, 2016, 'Morphological and proteomic analysis of biofilms from the Antarctic archaeon, Halorubrum lacusprofundi', Scientific Reports, vol. 6, http://dx.doi.org/10.1038/srep37454

Liao Y; Williams TJ; Walsh JC; Ji M; Poljak A; Curmi PMG; Duggin IG; Cavicchioli R, 2016, 'Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: Investigating acetamidase gene function', Scientific Reports, vol. 6, http://dx.doi.org/10.1038/srep34639

Taha ; Siddiqui KS; Campanaro S; Najnin T; Deshpande N; Williams TJ; Aldrich-Wright J; Wilkins M; Curmi PMG; Cavicchioli R, 2016, 'Single TRAM domain RNA-binding proteins in Archaea: functional insight from Ctr3 from the Antarctic methanogen Methanococcoides burtonii', Environmental microbiology, vol. 18, pp. 2810 - 2824, http://dx.doi.org/10.1111/1462-2920.13229

Tschitschko B; Williams TJ; Allen MA; Zhong L; Raftery MJ; Cavicchioli R, 2016, 'Ecophysiological distinctions of haloarchaea from a hypersaline Antarctic lake determined using metaproteomics.', Appl Environ Microbiol, vol. 82, pp. 3165 - 3173, http://dx.doi.org/10.1128/AEM.00473-16

Richards SL; Cawley AT; Cavicchioli R; Suann CJ; Pickford R; Raftery MJ, 2016, 'Aptamer based peptide enrichment for quantitative analysis of gonadotropin-releasing hormone by LC-MS/MS', Talanta, vol. 150, pp. 671 - 680, http://dx.doi.org/10.1016/j.talanta.2016.01.006

Cavicchioli R, 2015, 'Microbial ecology of Antarctic aquatic systems', Nature Reviews Microbiology, vol. 13, pp. 691 - 706, http://dx.doi.org/10.1038/nrmicro3549

Cavicchioli R; Erdmann S, 2015, 'The discovery of Antarctic RNA viruses: A new game changer', Molecular Ecology, vol. 24, pp. 4809 - 4811, http://dx.doi.org/10.1111/mec.13387

Sun T; Socki RA; Bish DL; Harvey RP; Bao H; Niles PB; Cavicchioli R; Tonui E, 2015, 'Lost cold Antarctic deserts inferred from unusual sulfate formation and isotope signatures', Nature Communications, vol. 6, http://dx.doi.org/10.1038/ncomms8579

Tschitschko B; Williams TJ; Allen MA; Páez-Espino D; Kyrpides N; Zhong L; Raftery MJ; Cavicchioli R, 2015, 'Antarctic archaea–virus interactions: metaproteome-led analysis of invasion, evasion and adaptation', The ISME Journal, vol. 9, pp. 2094 - 2107, http://dx.doi.org/10.1038/ismej.2015.110

Ertan H; Cassel C; Verma A; Poljak A; Charlton T; Aldrich-Wright J; Omar SM; Siddiqui KS; Cavicchioli R, 2015, 'A new broad specificity alkaline metalloprotease from a Pseudomonas sp. isolated from refrigerated milk: Role of calcium in improving enzyme productivity', Journal of Molecular Catalysis B: Enzymatic, vol. 113, pp. 1 - 8, http://dx.doi.org/10.1016/j.molcatb.2014.12.010

Williams TJ; Allen MA; DeMaere MZ; Kyrpides NC; Tringe SG; Woyke T; Cavicchioli R, 2014, 'Erratum: Microbial ecology of an Antarctic hypersaline lake: genomic assessment of ecophysiology among dominant haloarchaea', The ISME Journal, vol. 8, pp. 1752 - 1752, http://dx.doi.org/10.1038/ismej.2014.65

Williams TJ; Allen MA; DeMaere MZ; Kyrpides NC; Tringe SG; Woyke T; Cavicchioli R, 2014, 'Microbial ecology of an Antarctic hypersaline lake: genomic assessment of ecophysiology among dominant haloarchaea', ISME JOURNAL, vol. 8, pp. 1645 - 1658, http://dx.doi.org/10.1038/ismej.2014.65

Luk AWS; Williams TJ; Erdmann S; Thane Papke R; Cavicchioli R, 2014, 'Viruses of haloarchaea', Life, vol. 4, pp. 681 - 715, http://dx.doi.org/10.3390/life4040681

Williams TJ; Cavicchioli R, 2014, 'Marine metaproteomics: Deciphering the microbial metabolic food web', Trends in Microbiology, vol. 22, pp. 248 - 260, http://dx.doi.org/10.1016/j.tim.2014.03.004

Siddiqui KS; Ertan H; Charlton T; Poljakc A; Khaled AK; Yang X; Marshall G; Cavicchioli R, 2014, 'Versatile peroxidase degradation of humic substances: Use of isothermal titration calorimetry to assess kinetics, and applications to industrial wastes', Journal of Biotechnology, vol. 178, pp. 1 - 11, http://dx.doi.org/10.1016/j.jbiotec.2014.03.002

Williams TJ; Allen MA; Demaere MZ; Kyrpides NC; Tringe SG; Woyke T; Cavicchioli R, 2014, 'Microbial ecology of an Antarctic hypersaline lake: Genomic assessment of ecophysiology among dominant haloarchaea', ISME Journal, vol. 8, pp. 1645 - 1658, http://dx.doi.org/10.1038/ismej.2014.18

Lagkouvardos I; Weinmaier T; Lauro FM; Cavicchioli R; Rattei T; Horn M, 2013, 'Integrating metagenomic and amplicon databases to resolve the phylogenetic and ecological diversity of the Chlamydiae', ISME Journal, vol. 8, pp. 115 - 125, http://dx.doi.org/10.1038/ismej.2013.142

Demaere MZ; Williams TJ; Allen MA; Brown MV; Gibson JAE; Rich J; Lauro FM; Dyall-Smith M; Davenport KW; Woyke T; Kyrpides NC; Tringe SG; Cavicchioli R, 2013, 'High level of intergenera gene exchange shapes the evolution of haloarchaea in an isolated Antarctic lake', Proceedings of the National Academy of Sciences of the United States of America, vol. 110, pp. 16939 - 16944, http://dx.doi.org/10.1073/pnas.1307090110

Matallana Surget S; Cavicchioli R; Fauconnier C; Wattiez R; Joux F; Leroy B; Raftery MJ; Lebaron P, 2013, 'Shotgun redox proteomics: Identification and Quantitation of Carbonylated Proteins in the UVB-Resistant Marine Bacterium, Photobacterium angustum S14', PLoS ONE, vol. 8, pp. 1 - 15, http://dx.doi.org/10.1371/journal.pone.0068112

Wilkins D; Van sebille E; Rintoul S; Lauro FM; Cavicchioli R, 2013, 'Advection shapes Southern Ocean microbial assemblages independent of distance and environment effects', Nature communications, vol. 4, pp. 2457, http://dx.doi.org/10.1038/ncomms3457

Yau S; Lauro FM; Williams TJ; Brown MV; Demaere MZ; Rich J; Gibson J; Cavicchioli R, 2013, 'Metagenomic insights into strategies of carbon conservation and unusual sulfur biogeochemistry in a hypersaline Antarctic lake', ISME Journal, vol. 7, pp. 1944 - 1961, http://dx.doi.org/10.1038/ismej.2013.69

Wilkins D; Lauro FM; Williams TJ; De Maere M; Brown MV; Hoffman JM; Andrews-Pfannkoch C; McQuaid J; Riddle M; Rintoul S; Cavicchioli R, 2013, 'Biogeographic partitioning of Southern Ocean microorganisms revealed by metagenomics', Environmental Microbiology, vol. 15, pp. 1318 - 1333, http://dx.doi.org/10.1111/1462-2920.12035

Wilkins D; Yau S; Williams TJ; Allen MA; Brown MV; Demaere MZ; Lauro FM; Cavicchioli R, 2013, 'Key microbial drivers in Antarctic aquatic environments', FEMS Microbiology Reviews, vol. 37, pp. 303 - 335, http://dx.doi.org/10.1111/1574-6976.12007

Siddiqui KS; Williams TJ; Wilkins D; Yau S; Allen MA; Brown MV; Lauro FM; Cavicchioli R, 2013, 'Psychrophiles', Annual Review of Earth and Planetary Sciences, vol. 41, pp. 87 - 115, http://dx.doi.org/10.1146/annurev-earth-040610-133514

Williams TJ; Wilkins D; Long E; Evans FF; De Maere MZ; Raftery MJ; Cavicchioli R, 2013, 'The role of planktonic Flavobacteria in processing algal organic matter in coastal East Antarctica revealed using metagenomics and metaproteomics', Environmental Microbiology, vol. 15, pp. 1302 - 1317, http://dx.doi.org/10.1111/1462-2920.12017

Swan B; Tupper B; Sczyrba A; Lauro FM; Martinez-Garcia M; González J; Luo H; Wright J; Landry Z; Hanson N; Thompson B; Poulton N; Schwientek P; Acinas S; Giovannoni S; Moran MA; Hallam S; Cavicchioli R; Woyke T; Stepanauskas R, 2013, 'Prevalent genome streamlining and latitudinal divergence of marine bacteria in the surface ocean', Proceedings of the National Academy of Sciences of the United States of America, vol. 110, pp. 11463 - 11468, http://dx.doi.org/10.1073/pnas.1304246110

Grzymski J; Riesenfeld C; Williams TJ; Dussaq A; Ducklow H; Erickson M; Cavicchioli R; Murray A, 2012, 'A metagenomic assessment of winter and summer bacterioplankton from Antarctic Peninsula coastal surface waters', ISME Journal, vol. 6, pp. 1901 - 1915, http://dx.doi.org/10.1038/ismej.2012.31

Brown MV; Lauro FM; Demaere MZ; Muir L; Wilkins D; Thomas T; Riddle M; Fuhrman J; Andrews-Pfannkoch C; Hoffman JM; McQuaid J; Allen A; Rintoul S; Cavicchioli R, 2012, 'Global biogeography of SAR11 marine bacteria', Molecular Systems Biology, vol. 8, pp. 595, http://dx.doi.org/10.1038/msb.2012.28

Williams TJ; Long E; Evans F; DeMaere M; Lauro FM; Raftery MJ; Ducklow H; Grzymski J; Murray A; Cavicchioli R, 2012, 'A metaproteomic assessment of winter and summer bacterioplankton from Antarctic Peninsula coastal surface waters', ISME Journal, vol. 6, pp. 1883 - 1900, http://dx.doi.org/10.1038/ismej.2012.28

Ertan H; Siddiqui KS; Muenchhoff J; Charlton TS; Cavicchioli R, 2012, 'Kinetic and thermodynamic characterization of the functional properties of a hybrid versatile peroxidase using isothermal titration calorimetry: insight into manganese peroxidase activation and lignin peroxidase inhibition', Biochimie, vol. 94, pp. 1221 - 1231, http://dx.doi.org/10.1016/j.biochi.2012.02.012

Cavicchioli R, 2011, 'Archaea – timeline of the third domain', Nature Reviews Microbiology, vol. 9, pp. 51 - 61, http://dx.doi.org/10.1038/nrmicro2482

Cavicchioli R; Amils R; Wagner D; McGenity T, 2011, 'Life and applications of extremophiles', Environmental Microbiology, vol. 13, pp. 1903 - 1907, http://dx.doi.org/10.1111/j.1462-2920.2011.02512.x

Campanaro S; Williams TJ; Burg DW; De Francisci D; Treu L; Lauro FM; Cavicchioli R, 2011, 'Temperature-dependent global gene expression in the Antarctic archaeon, Methanococcoides burtonii.', Environmental Microbiology, vol. 13, pp. 2018 - 2038, http://dx.doi.org/10.1111/j.1462-2920.2010.02367.x

Cavicchioli R; Charlton T; Ertan H; Mohd Omar S; Siddiqui KS; Williams TJ, 2011, 'Biotechnological uses of enzymes from psychrophiles', Microbial Biotechnology, vol. 4, pp. 449 - 460, http://dx.doi.org/10.1111/j.1751-7915.2011.00258.x


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