Recent Publications

Since our new facility opened in 2011, CLEE faculty and students have published over 100 papers and counting. Below are a selection of recent papers published by CLEE affiliates. For more information and/or a full list of publications, please see individual faculty webpages.

For a general overview of extremophiles and some of the current research in CLEE (featured on the cover):

 

 

 

 

Bartlett Lab 

Taghizadeh, F., & Bartlett, M. S. (2015). Reverse Gyrase is Not Necessary for Survival of Hyperthermophilic Archaeon Pyrococcus furiosus.

Gründberg, S., C Reich, ME Zeller, MS Bartlett, and M Thomm (2010).  Rearrangement of the RNA polymerase unit H and the lower jaw in archaeal elongation complexes.  Nuc. Acids Res. 38:1950-63.

Buckley Lab 

Wintle, N. J., Sleadd, I. M., Gundersen, D. T., Kohl, K., & Buckley, B. A. (2015). Total Mercury in Six Antarctic Notothenioid Fishes. Bulletin of environmental contamination and toxicology, 95(5), 557-560.

Logan, C.A. and Buckley, B.A. (2015).  Transcriptomic responses to environmental temperature in eurythermal and stenothermal fishes. J. Exp. Biol. 218(Pt 12):1915-24.

Sleadd, I.M., Lee, M., Hassumani, D.O., Stecyk, T.M.A., Zeitz, O.K., Buckley, B.A.  2014.  Sub-lethal heat stress causes apoptosis in an Antarctic fish that lacks an inducible heat shock response.  Journal of Thermal Biology 44:119-125. 

Buckley, B.A. 2013. Rapid change in shallow water fish species composition in a  historically stable Antarctic environment. Antarctic Sci.

Kelley, A.L, deRivera, C.E. and Buckley, B.A. (in press). Cold tolerance of the invasive Carcinus maenas in the East Pacific: Molecular mechanisms and implications for range expansion in a changing climate. Bioinvasions

Sleadd, I.M. and Buckley, B.A. (2012). The CCAAT/Enhancer-binding protein δ (C/EBP-δ) transcription factor is heat-inducible in the cold-adapted Antarctic fish Trematomus bernacchii. Polar Biol.

Detrich III, H.W., B.A. Buckley, D.F. Doolittle, C.D. Jones, and Lockhart S.J. (2012).  Sub-Antarctic and high Antarctic notothenioid fishes: Ecology and adaptational biology revealed by the ICEFISH 2004 Cruise of TVIB Nathaniel B. Palmer. Oceanography 25(3):184–187.

Buckley, B.A. (2011). Acute heat stress and thermal acclimation induce CCAAT/Enhancer-Binding Protein delta (C/EBP-δ) in the goby Gillichthys mirabilis. J. Comp. Physiol. B. 181(6), 773-780.

Kelley, A.L., deRivera, C.E. and Buckley, B.A. (2011). Intraspecific variation in thermotolerance and morphology of the invasive European green crab, Carcinus maenas, on the west coast of North America. J. Exp. Mar. Biol. Ecol. 409, 70-78.

Rodriguez del Rey, Z., Granek, E.F. and Buckley, B.A. (2011). Expression of HSP70 in Mytilus californianus following exposure to caffeine. J. Ecotoxicol. 20(4), 855-861.  

 

Eppley and Rosenstiel Labs 

Slate, M. L., Rosenstiel, T. N., & Eppley, S. M. (2017). Sex-specific morphological and physiological differences in the moss Ceratodon purpureus (Dicranales). Annals of Botany.

García, E. L., Rosenstiel, T. N., Graves, C., Shortlidge, E. E., & Eppley, S. M. (2016). Distribution drivers and physiological responses in geothermal bryophyte communities. American journal of botany, 103(4), 625-634.

Shortlidge, E. E., Eppley, S. M., Kohler, H., Rosenstiel, T. N., Zúñiga, G. E., & Casanova-Katny, A. (2016). Passive warming reduces stress and shifts reproductive effort in the Antarctic moss, Polytrichastrum alpinum. Annals of botany, mcw201.

Stark, L. R., McLetchie, D. N., Greenwood, J. L., & Eppley, S. M. (2016). Moss antheridia are desiccation tolerant: rehydration dynamics influence sperm release in Bryum argenteum. American journal of botany, 103(5), 856-864.

Rogers, S. and Eppley. S. (2012).  Testing inter-sexual competition along a phosphorus gradient in a dioecious grass. Botany, 90: 704-710.

Rosenstiel TN, Shortlidge EE, Melynchenko AN, Pankow JF, & Eppley SM.  (2012) Sex-specific volatile compounds influence microarthropod-mediated fertilization of moss.  Nature. 489: 431-433.

Shortlidge, E. Rosenstiel, TN, Eppley, E. (2012). Desiccation tolerance in bryophyte sperm. New Phytologist 194: 741-750.

Monson RK, Jones RT, Rosenstiel TN, Schnitzler JP. (2012) Why only some plants emitisoprenePlant Cell and Environment, (doi: 10.1111/pce.12015)

Porter W, Barsanti K, Baughman E, and Rosenstiel TN. (2012)  Considering the air quality impacts of bioenergy crop production: a case study involving Arundo donax.  Environmental Science and Technology, 46: 9777-9784.

Sivy TL, Fall R, Rosenstiel TN. (2012)  Evidence for isoprenoid precursor toxicity in Bacillus subtilisBiosciences, Biotechnology, Biochemistry. 75:2376-2383.

Pankow JF, Luo W, Melnychenko AN*, Barsanti KC, Isabelle LM, Chen C, Guenther AB, and Rosenstiel TN (2011). Volatilizable biogenic organic compounds (VBOCs) with two dimensional gas chromatography-time of flight mass spectrometry (GC × GC-TOFMS): sampling methods, VBOC complexity, and chromatographic retention data. Atmos. Meas. Techniques., 4, 3647-3684. 

 

Iwata-Reuyl Lab

Mohammad, A., Bon Ramos, A., Lee, B. W., Cohen, S. W., Kiani, M. K., Iwata-Reuyl, D., ... & Swairjo, M. A. (2017). Protection of the Queuosine Biosynthesis Enzyme QueF from Irreversible Oxidation by a Conserved Intramolecular Disulfide. Biomolecules, 7(1), 30.

Paranagama, N., Bonnett, S. A., Alvarez, J., Luthra, A., Stec, B., Gustafson, A., ... & Swairjo, M. A. (2017). Mechanism and catalytic strategy of the prokaryotic-specific GTP cyclohydrolase-IB. Biochemical Journal, 474(6), 1017-1039.

Mei, X., Alvarez, J., Ramos, A. B., Samanta, U., Iwata‐Reuyl, D., & Swairjo, M. A. (2016). Crystal Structure of the Archaeosine Synthase QueF‐Like–Insights into Amidino Transfer and tRNA Recognition by the Tunnel Fold. Proteins: Structure, Function, and Bioinformatics.

Yu CH, Luo J, Iwata-Reuyl D, Olsthoorn RC. (2013).  Exploiting preQ(1) Riboswitches To Regulate Ribosomal Frameshifting." ACS Chem Biol

Deutsch C, El Yacoubi B, de Crécy-Lagard V, Iwata-Reuyl D. (2012).  Biosynthesis of Threonylcarbamoyl Adenosine (t6A), a Universal tRNA Nucleoside. J. Biol. Chem. 287(17):13666-73 (PMID: 22378793, PMCID: PMC3340167)

Phillips G, Grochowski LL, Bonnett S, Xu H, Bailly M, Blabt-Haas C, El Yacoubi B, Iwata-Reuyl D, White RH, de Crécy-Lagard V. (2012).  Functional promiscuity of the COG0720 family.” ACS Chem. Biol., 7(1):197-209 (PMID: 21999246, PMCID: PMC3262898)

Chikwana VM, Stec B, Lee BW, de Crécy-Lagard V, Iwata-Reuyl D, Swairjo MA. (2012).  Structural basis of biological nitrile reduction.” J. Biol. Chem., 287(36):30560-70 (PMID: 22787148, PMCID: PMC3436371)

Phillips G, Swairjo MA, Gaston KW, Bailly M, Limbach PA, Iwata-Reuyl D, de Crécy-Lagard V. 2012.  Diversity of archaeosine synthesis in crenarchaeota.” ACS Chem. Biol., 7(2):300-5 (DOI: 10.1021/cb200361w)

El Yacoubi B, Hatin I, Deutsch C, Kahveci T, Rousset JP, Iwata-Reuyl D, Murzin AG, de Crécy-Lagard V. (2011).  A role for the universal Kae1/Qri7/YgjD (COG0533) family in tRNA modification." EMBO J., 30(5):882-93 (PMID: 21285948, PMCID: PMC3049207)

Rakovich T., Boland C, Bernstein I., Chikwana V. M., Iwata-Reuyl D, Kelly V. P. (2011).  Queuosine deficiency in eukaryotes compromises tyrosine production through increased tetrahydrobiopterin oxidation.  J. Biol. Chem., 286(22):19354-19363

Phillips G, Chikwana VM, Maxwell A, El-Yacoubi B, Swairjo MA, Iwata-Reuyl D, de Crécy-Lagard V. (2010).  Discovery and characterization of an amidinotransferase involved in the modification of archaeal tRNA. J. Biol. Chem., 285(17):12706-13. (PMID: 20129918, PMCID: PMC2857094).
 

 

Lehman Lab 

Yeates, J. A., Nghe, P., & Lehman, N. (2017). Topological and thermodynamic factors that influence the evolution of small networks of catalytic RNA species. RNA, 23(7), 1088-1096.

John, K. K., Botkin, D. S., Burton, A. S., Castro-Wallace, S. L., Chaput, J. D., Dworkin, J. P., ... & Stahl, S. (2016). The Biomolecule Sequencer Project: Nanopore sequencing as a dual-use tool for crew health and astrobiology investigations.

Yeates, J. A., Hilbe, C., Zwick, M., Nowak, M. A., & Lehman, N. (2016). Dynamics of prebiotic RNA reproduction illuminated by chemical game theory. Proceedings of the National Academy of Sciences, 113(18), 5030-5035.

Higgs, P. G., & Lehman, N. (2015). The RNA World: molecular cooperation at the origins of life. Nature reviews. Genetics, 16(1), 7.

Hordijk, W, Vaiyda, N, Lehman, N (2014).  Serial transfer can aid in the evolution of autocatalytic sets.  J. of Systems Chemistry. 5:4.  doi:10.1186/1759-2208-5-4.

Diaz Arenas C, Lehman, N (2013).  Partitioning the fitness components of RNA populations evolving in vitro.  PLoS ONE, 8(12): e84454.

Vaidya, N., Walker, SI, Lehman, N (2013).  Recycling of Informational Units Leads to Selection of Replicators in a Prebiotic Soup.  Chemistry & Biology, 20(2): 24-1252. doi:10.1016/j.chembiol.2013.01.007.

Larson BC, Jensen RP, Lehman N (2012). The chemical origin of behavior is rooted in abiogenesis. Life 2:313–322.

Vaidya, N, Manapat, ML, ChenIA, Xulvi-Brunet, R, Hayden, EJ & Lehman, N (2012) Spontaneous network formation amongcooperative RNA replicators.  Nature.  Online early at doi:10.1038/nature11549 .

Lehman N, Hayden EJ (2011). Template-directed RNA polymerization: the taming of the milieu. Chem. BioChem (“Highlights”) 12: 2727–2728.

 

Lindgren Lab

Lindgren AR and Anderson FE. 2018. Assessing the utility of transcriptome data for inferring phylogenetic relationships among coleoid cephalopods. Mol. Phylogen. Evol. 118:330-342.

Shea EK, Judkins H, Staudinger MD, Dimkovikj VH, Lindgren AR, Vecchione M. 2017.  Cephalopod biodiversity in the vicinity of Bear Seamount, western North Atlantic based on exploratory trawling from 2000 to 2014.  Marine Biodiversity (DOI: 10.1007/s12526-017-0633-3).

Lindgren AR, Buckley BA, Eppley S, Reysenbach A-L, Stedman KM, Wagner J.  2016.   Life on the Edge – the Biology of Organisms Inhabiting Extreme Environments: An Introduction to the Symposium.  Integrative and Comparative Biology. Online early (DOI: 10.1093/icb/icw094)

Allcock AL, Lindgren A, Strugnell JM.  2014.  The contribution of molecular data to our understanding of cephalopod evolution and systematics: a review.  Journal of Natural History. doi: 10.1080/00222933.2013.825342

Spieser DI, Pankey MS, Zaharoff AK, Batelle BA, Bracken-Grissom HD, Breinholt JW, Bybee SM, Cronin TW, Garm A, Lindgren, AR, Patel NH, Porter ML, Protas ME, Rivera AS, Serb JM, Zigler KS, Crandall KA, Oakley TH.  2014.  Using phylogenetically-informed annotation (PIA) to search for light-interacting genes in transcriptomes from non-model organisms.  BMC Bioinformatics 15: 350.

Reysenbach A-L, LiuY, Lindgren AR, Wagner ID, Sislak CD, Mets A, Schouten S.  2013. Mesoaciditoga lauensis gen. nov., sp. nov., a moderate thermoacidophilic Thermatogales from a deep-sea hydrothermal vent.  Int. J. Syst. Evol. Micro. 63: 4724-4729.

De Silva-Dávila, R, Hochberg, FG, Lindgren, AR, Del Carmen Franco-Gordo, M.  (2013)  Paralarval development, abundance, and distribution of Pterygioteuthis hoylei (Cephalopoda: Oegopsida: Pyroteuthidae) in the Gulf of California, Mexico.  Molluscan Res.

Oakley, TH. Wolfe, JM, Lindgren, AR, Zaharoff, AK. (2013) Phylotranscriptomics to bring the understudied into the fold: monophyletic Ostracoda, fossil placement and pancrustacean phylogeny.  Mol. Biol. Evol. Jan; 30(1): 175-188.

Lindgren AR, Pankey, MS, Hochberg, FG & Oakley TH.  (2012)  A multi-gene phylogeny of Cephalopoda supports convergent morphological evolution in association with multiple habitat shifts in the marine environment. BMC Evol. Biol. 12:129.  doi:10.1186/1471-2148-12-129. 

Albertin CB, Bonnaud L, Brown CT, Crookes-Goodson WJ, da Fonseca RR, Di Cristo C, Dilkes BP, Edsinger-Gonzales E, Freeman RM Jr, Hanlon RT, Koenig KM, Lindgren AR, Martindale MQ, Minx P, Moroz LL, Nödl MT, Nyholm SV, Ogura A, Pungor JR, Rosenthal JJ, Schwarz EM, Shigeno S, Strugnell JM, Wollesen T, Zhang G, Ragsdale CW.  (2012).  Cephalopod Genomics: A plan for strategies and organization.  Stand Genomic Sci. 2012 Oct 10;7(1):175-88. doi: 10.4056/sigs.3136559

 

Perona Lab 

Perona JJ. Beyond the plant pest trigger: Law, science and rational oversight of transgenic crops. J. Land Use & Environmental Law, forthcoming (2017).

Perona JJ. Biodiesel for the 21st century renewable energy economy. Energy Law Journal 38(1), 165-212 (2017).

Rauch BJ, Klimek J, David L & Perona JJ. Persulfide formation mediated cysteine and homocysteine biosynthesis in Methanosarcina acetivorans. Biochemistry 56, 1051-1061 (2017).

Sungwienwong I, Hostetler ZM, Blizzard RJ, Porter JJ, Driggers CM, Mbengi LZ, Villegas JA,  Speight LC, Saven JG, Perona JJ, Kohli RM, Mehl RA &Petersson EJ. Improving target amino acid selectivity by modifying a permissive aminoacyl-tRNA synthetase through counter-selection. Organic & Biomolecular Chemistry 15, 3603-3610 (2017).

Rauch BJ, Porter JJ Mehl RA & Perona JJ. Improved incorporation of noncanonical amino acids by an engineered tRNATyr suppressor. Biochemistry 55, 618-628 (2016).

Rauch BJ & Perona JJ. Efficient sulfide assimilation in Methanosarcina acetivorans is mediated by the MA1715 protein.  Journal of Bacteriology 198, 1974-1983 (2016).

Perona JJ. A dry century in California: Climate change, groundwater, and a science-based approach to preserving the unseen commons.  Environmental Law 45(3), 641-661 (2015).


Podrabsky Lab

Podrabsky, J. E., Riggs, C. L., Romney, A. L., Woll, S. C., Wagner, J. T., Culpepper, K. M., & Cleaver, T. G. (2017). Embryonic development of the annual killifish Austrofundulus limnaeus: An emerging model for ecological and evolutionary developmental biology research and instruction. Developmental Dynamics.

Romney, A. L. T., & Podrabsky, J. E. (2017). Epigenetic Regulation of Alternative Developmental Trajectories. The FASEB Journal31(1 Supplement), 595-2.

Woll, S. C., & Podrabsky, J. E. (2017). Insulin-like growth factor signaling regulates developmental trajectory associated with diapause in embryos of the annual killifish Austrofundulus limnaeus. Journal of Experimental Biology, jeb-151373.

Riggs, C. L., & Podrabsky, J. E. (2017). Mitochondria-derived Small Non-coding RNAs in Extreme Anoxia Tolerance. The FASEB Journal, 31(1 Supplement), 1080-2.

Podrabsky, J. E., & Wilson, N. E. (2016). Hypoxia and anoxia tolerance in the annual killifish Austrofundulus limnaeus. Integrative and comparative biology56(4), 500-509.

Hand, S.C., Denlinger, D.L., Podrabsky, J.E., Roy, R. (2016). Mechanisms of animal diapause: recent developments from nematodes, crustaceans, insects and fish.  Reg., Int. and Comp. Physio. 310(11):R1193-R1211.

Podrabsky, J.E. and Hand, S.C. (2015).  Physiological strategies during animal diapause: lessons from brine shrimp and annual killifish.  J. Exp. Biol. 218:1897-1906.

Wagner, J.T. and Podrabksy, J.E. (2014).  Gene expression patterns that support novel developmental stress buffering in embryos of the annual killifish Austrofundulus limnaeus. EvoDevo 6(2).

Crawshaw, L.I., Podrabsky, JE. (2011). Temperature Preference - BehavioralResponses to Temperature in Fishes. In: Encyclopedia of Fish Physiology. From Genome to Environment. (ed. A.P. Farrell). Academic Press.

 

Reysenbach Lab

Wurch L, Giannone RG, Belisle BS, Swift C, Utturkar S, Hettich RL, Reysenbach AL, Podar M (2016) Genomics-informed isolation and characterization of a symbiotic Nanoarchaeota system from a terrestrial geothermal environment. Nat. Commun. 7:12115.

Metcalf JA, Funkhouser-Jones LJ, Brileya K, Reysenbach AL, Bordenstein SR. 2014. Antibacterial gene transfer across the tree of life. Elife 3:e04266.

Ferrera, I.,  A. B. Banta, A.-L. Reysenbach. (2014) Spatial patterns of Aquificales in deep-sea vents along the Eastern Lau Spreading Center (SW Pacific).  Systematic and Applied Microbiology, 37:442-448. 

Metcalf, J.A., L.J. Funkhouser-Jones, K. Brileya, A.-L. Reysenbach, and S. R. Bordenstein. (2014). Antibacterial gene transfer across the tree of life. eLife. In press.  

Hamamura., N., I.Takaaki,  Y. Liu, A.-L. Reysenbach,  N.  Damdinsuren and W. P. Inskeep.  (2014). Identification of anaerobic arsenite-oxidizing and arsenate-reducing bacteria associated with an alkaline saline lake in Khovsgol, Mongolia. Environ Micro Reports. doi:10.1111/1758-2229.12144

Reysenbach, A.-L., I. Wagner, Y. Liu, C. Sislak and S. Schouten. (2014). Mesoaciditoga lauensis gen. nov., sp. nov., a moderate thermoacidophilic Thermotogales from a deep-sea hydrothermal vent. Int J Syst Evol Microbiol.

Takacs-Vesbach, C., W. P. Inskeep, Z. J. Jay, M. J. Herrgard, D. B. Rusch, S. G.Tringe, M. A. Kozubal, N. Hamamura, R. E. Macur, B.W. Fouke, A.-L. Reysenbach,T. R. McDermott, R. deM. Jennings, N.W. Hengartner and G. Xie. (2013). Metagenome sequence analysis of filamentous microbial communities obtained from geochemically distinct geothermal channels reveals specialization of three Aquificales lineages. Frontiers in Microbiol.

Podar, M, K. S. Makarova, D. E. Graham, Y. Wolf , E. Koonin and A.-L. Reysenbach (2013). Insights into archaeal evolution and symbiosis from the genomes of a Nanoarchaeon and its crenarchaeal host from Yellowstone National Park. Biology Direct 8:9.

Inskeep, W. P., D. B. Rusch, Z. J. Jay, M. J. Herrgard, M. A. Kozubal, T. H. Richardson, R. E. Macur, N. Hamamura, R. Jennings, B. W. Fouke, A. L. Reysenbach, F. Roberto, M. Young, A. Schwartz, E. S. Boyd, J. H. Badger, E. J. Mathur, A. C. Ortmann, M. Bateson, G. Geesey, and M. Frazier. (2013). Metagenomes from high-temperature chemotrophic systems reveal geochemical controls on microbial community structure and function. PLoS One 5:e9773.

Gibson, R.A., M. T.J. van der Meer, E. C. Hopmans, A.-L. Reysenbach, S. Schouten, J. S. Sinninghe Damsté (2013). Comparison of intact polar lipid with microbial community composition of vent deposits of the Rainbow and Lucky Strike hydrothermal fields. Geobiology. 11: 72–85.

Stedman Lab 

Iverson, E. A., Goodman, D. A., Gorchels, M. E., & Stedman, K. M. (2017). Extreme Mutation Tolerance: Nearly Half of the Archaeal Fusellovirus Sulfolobus Spindle-Shaped Virus 1 Genes Are Not Required for Virus Function, Including the Minor Capsid Protein Gene vp3. Journal of Virology, 91(10), e02406-16.

Diemer, G. S. and Stedman, K. M. (2016). Modeling Microvirus Capsid Protein Evolution Utilizing Metagenomic Sequence Data. Journal of molecular evolution, 83(1-2), 38-49.

S. Lim, S. T. Lance, K.M. Stedman and A. Abate. PCR-activated cell sorting for characterizing virus-host relationships. (2016) J. Virological Methods.  242: 14-21 doi: 10.1016/j.jviromet.2016.12.009

S. T. Lance, D. J. Sukovitch, K.M. Stedman and A. R. Abate.  Peering Below the Diffraction Limit: Robust and Specific Sorting of Viruses with Flow Cytometry. (2016) Virology J. 13:201 doi: 10.1186/s12985-016-0655-7

Stedman, K. M., DeYoung, M., Saha, M., Sherman, M. B., & Morais, M. C. (2015). Structural insights into the architecture of the hyperthermophilic Fusellovirus SSV1. Virology, 474, 105-109.

Stedman, K. M. (2015). Deep recombination: RNA and ssDNA virus genes in DNA virus and host genomes. Annual review of virology, 2, 203-217.

K.M. Stedman.  Into the Devil’s Kitchen : A Personal History of Archaeal Viruses. In Life in Our Phage World.  (2015) F. Rohwer, M. Youle, H. Maughan, N. Hisakawa. 7-28:7-39. Wholon, San Diego. ISBN: 978-0990494300 

G. Kminek, C. Conley, C. Allen, D. Bartlett, D. Beaty, L. Benning, R. Bhartia, P. Boston, C. Duchaine, J. Farmer, G. Flynn, D. Glavin, Y. Gorby, J. Hallsworth, R. Mogul, D. Moser, P.B. Price, R. Pukall, D. Fernandez-Remolar, C.L. Smith, K. Stedman, A. Steele, R. Stephanauskas, H. Sun, J. Vago, M. Voytek, P.S. Weiss, and F. Westall. (2014) Report of the Life Detection Workshop for Samples from Mars, Life Sciences in Space Research. 2, 1-5  doi: 10.1016/j.lssr.2014.05.001 

P. L. Siering, G. V. Wolfe, M. S. Wilson, A. N. Yip, C. M. Carey, C. D. Wardman, R. S. Shapiro, K. M. Stedman, J. Kyle, T. Yuan, J. D. Van Nostrand, Z. He, and J. Zhou. Microbial Biogeochemistry of Boiling Springs Lake: a Physically Dynamic, Oligotrophic, Low pH Geothermal Ecosystem. (2013) Geobiology 11/4 356-376. Doi: 10.1111/gbi.12041. PMID: 23679065  

Stedman, K. (2013). The forgotten extraterrestrials: hunting for viruses in space. New Scientist, 220(2948), 42-43.

Stedman, K (2013).  Mechanisms for RNA capture by ssDNA viruses: Grand Theft RNA!  J. Mol. Evol. 76(6): 359-364/ doi: 10.1007/s00239-01309569-9.

Laidler, J, Shugart, A, Cady, S, Bahjat, KS, Stedman, KM (2013).  Reversible Inactivation and Desiccation Tolerance of Silicified Viruses.  J. Virology, 87(24): 13927-13929.  doi: 10.1128/JVI.02825-13. 

KM Stedman, Kosmicki N, and Diemer, GS (2013.  Codon usage frequency of RNA virus genomes from high temperature acidic envirnment metagenomes. J. Virology 87/3 1919  doi: 10.1128/JVI.02610-12

Diemer, J and Stedman, KM (2012).  A novel virus genome discovered in an extreme environment suggests recombination between unrelated groups of RNA and DNA viruses. Biology Direct, 2012; 7 (1): 13 DOI: 10.1186/1745-6150-7-13.

Ceballos, RM, Marceau, CD, Marceau, JO, Morris, S, Clore, AJ, Stedman, KM (2012).  Differential Virus Host-Ranges of the Fuselloviridae of Hyperthermophilic Archaea: Implications for Evolution in Extreme Environments. Frontiers in Microbiology. 3: 295 doi:10.3389/fmicb.2012.00295

Iverson, E, and Stedman, KM (2012). A genetic study of SSV1, the prototypical fusellovirus. Frontiers in Microbiology. 3: 200. doi: 10.3389/fmicb.2012.00200.

Stedman, KM (2012).  Fusellovirus, Fuselloviridae. In The Springer Index of Viruses, Second Edition. Editors: C. Tidona and G. Darai. Springer Verlag, Heidelberg. (doi:10.1007/978-0-387-95919-1) 

DeYoung, M., Thayer, M., van der Oost, J, Stedman, KM (2011). Growth phase dependent gene regulation in vivo in Sulfolobus solfataricus. FEMS Microbiology Letters, 321/2, 92-99. Published online 6 June 2011. (doi: 10.1111/j.1574-6968.2011.02313.x)

Stedman, KM (2011).  Virus – Long Entry. In: Encyclopedia of Astrobiology (M.Gargaud, R. Amils, J. Cernicharo Quintanilla, H.J. Cleaves II, W.M. Irvine, D.L. Pinti, and M. Viso. Eds). 1745-1748, Springer, Heidelberg.

J. Laidler & Stedman, KM (2010) Virus Silicification under Simulated Hot Spring Conditions. Astrobiology10/6. 569-576. (On the Cover).  Editor’s “key” selection

Stedman, M, Porter, R, and Dyall-Smith, M (2010) The isolation of viruses infecting Archaea, pp57-64. In: S.W. Wilhelm, M.G. Weinbauer and C.A. Suttle [eds], Manual of Aquatic Viral Ecology. Waco, American Society for Limnology and Oceanography doi:10.4319/mave.2010.978-0-9845591-0-7