Publications
Hot Off the Press
Mesle, M.M., Mueller, R.C., Peach, J., Eilers, B., Tripet, B.P., Bothner, B., Copié, V., Peyton, B.M. (2022) Isolation and characterization of lignocellulose-degrading Geobacillus thermoleovorans from Yellowstone National Park. Appl. Environ. Microbiol., 88:e00958-21. doi: 10.1128/AEM.00958-21
2021
Alvarez, A. L., Weyers, S.L., Goemann, H.M., Peyton, B.M., Gardner, R.D. (2021) Microalgae,
soil and plants: A critical review of microalgae as renewable resources for agriculture.
Algal Res., 54:102200. doi: 10.1016/j.algal.2021.102200.
Hammarlund, S.P., Gedeon, T., Carlson, R.P., Harcombe, W. (2021) Limitation by a shared
mutualist promotes coexistence of multiple competing partners. Nat. Comm.. 12:619. doi: 10.1038/s41467-021-20922-0.
Hu, D., Cui, Y., Markillie, L.M., Chrisler, W.B., Wang, Q., Hatzenpichler, R., Orr,
G. (2021) Counting mRNA Copies in Intact Bacterial Cells by Fluctuation Localization
Imaging-Based Fluorescence In Situ Hybridization (fliFISH). Methods in Mol. Biol., 2246:237-247. doi: 10.1007/978-1-0716-1115-9_15.
Hunt, Kristopher A., Mallette, N., Peyton, B.M., Carlson, R. (2021) In Silico Analysis
of Functionalized Hydrocarbon Production Using Ehrlich Pathway and Fatty Acid Derivatives
in an Endophytic Fungus. Journal of Fungi, 7(6):435. doi: 10.3390/jof7060435
Marlow, J., Spietz, R. , Keun-Young, K., Ellisman, M., Girguis, P., Hatzenpichler,
R. (2021) Spatially resolved correlative microscopy and microbial identification reveal
dynamic depth- and mineral-dependent anabolic activity in salt marsh sediment. Environmental Microbiology, 23(8):4756-4777. doi: 10.1111/1462-2920.15667
McKay, L.J., Klingelsmith, K.B., Deutschbauer, A.M., Inskeep, W.P., Fields, M.W. (2021)
Draft Genome Sequence of Methanothermobacter thermautotrophicus WHS, a Thermophilic Hydrogenotrophic Methanogen from Washburn Hot Springs in Yellowstone
National Park, USA. Microbiol. Resour. Announc., 10(5): e01157-20. doi: 10.1128/mra.01157-20.
Mueller, R.C., Peach, J.T., Skorupa, D.J., Copié, V., Bothner, B., Peyton, B.M. (2021)
An emerging view of the diversity, ecology and function of Archaea in alkaline hydrothermal
environments. FEMS Microbiol. Ecol.,97(2):fiaa246. doi: 10.1093/femsec/fiaa246.
Peyton, Brent, Dana Skorupa, “Integrating CUREs in Ongoing Research: Undergraduates
as Active Participants in the Discovery of Biodegrading Thermophiles,” J. Microbiol. Biol. Educ., 2021, 22(2): e00102-21. 21-020. doi: 10.1128/jmbe.00102-21
Rawle, R., Saley, T.C., Kang, Y.-S., Wang, Q., Walk, S., Bothner, B., McDermott, T.R. (2021) Introducing the ArsR-Regulated Arsenic Stimulon. Front. Microbiol., 12:630562. doi: 10.3389/fmicb.2021.630562.
Reichart, N., Bowers, R.M., Woyke, T., Hatzenpichler, R. (2021) High Potential for
Biomass-Degrading Enzymes Revealed by Hot Spring Metagenomics. Front.Microbiol., 12:668238. doi: https://doi.org/10.3389/fmicb.2021.668238
Tafur Rangel, A.E., Rios, W., Mejia, D., Ojeda, C., Carlson, R., Gomez Ramirez, J.M.,
Gonzalez Barrios, A. F. (2021) In silico design for systems-based metabolic engineering
for the bioconversion of valuable compounds from industrial by-products. Front. Genet., 12:633073. doi: 10.3389/fgene.2021.633073.
Wang, Q., Alowaifeer, A., Kerner, P., McDermott, T.R. (2021) Aerobic bacterial methane
synthesis. PNAS,13(1):148. doi: 10.1073/pnas.2019229118.
Zhuang, W., Balasubramanian, N., Wang, L., Wang, Q., McDermott, T.R., Copié, V., Wang,
G., Bothner, B. (2021) Arsenate-Induced Changes in Bacterial Metabolite and Lipid
Pools during Phosphate Stress. Appl. Environ. Microbiol., 87(6):e02261-20. doi: 10.1128/AEM.02261-20.
2020
Hartman, R., Biewenga, L., Munson-McGee, J., Refai, M., Boyd, E.S., Bothner, B., Lawrence,
C.M., Young, M. (2020) Discovery and Characterization of Thermoproteus Spherical Piliferous
Virus 1: a Spherical Archaeal Virus Decorated with Unusual Filaments. Virol., 94(11):e00036-20. doi: 10.1128/JVI.00036-20.
Hatzenpichler, R., Krukenberg, V., Spietz, R.L., Jay, Z.J. (2020) Next-generation
physiology approaches to study microbiome function at the single cell level. Rev. Microbiol., 18:241-256. doi: 10.1038/s41579-020-0323-1.
Hulkova, M., Soulkupova, J., Carlson, R.P., Marsalek, B. (2020) Interspecies interactions
can enhance Pseudomonas aeruginosa tolerance to surfaces functionalized with silver
nanoparticles. in Colloids and Surfaces B: Biointerfaces. 192: 111027. doi: 10.1016/j.colsurfb.2020.111027
Jay, Z.J., Hunt, K.A., Chou, K.J., Schut, G.J., Maness, P.-C., Adams, M.W.W., Carlson,
R.P. (2020) Integrated thermodynamic analysis of electron bifurcating [FeFe]-hydrogenase
to inform anaerobic metabolism and H2. Biochim. Biophys. Acta Bioenerg., 1861(1):148087. doi: 10.1016/j.bbabio.2019.148087.
Lawrence, C. Martin. (2020) A moonlighting nuclease puts CRISPR in its place. J. Biol. Chem., 295(11):3415-3416. doi: 10.1074/jbc.H120.012897.
Mahout, M., Carlson, R.P., Peres, S. (2020) Answer Set Programming for computing constraints-based
elementary flux. Processes, 8(12):1649. doi: 10.3390/pr8121649
McGill, S.L.,Yung, Y., Hunt, K.A., Henson, M.A., Hanley, L., Carlson, R.P. (2020)
Pseudomonas aeruginosa reverse diauxie is a multidimensional, optimized, resource
utilization strategy. Scientific Reports, 11:1457. doi: 10.1038/s41598-020-80522-8
Murray, A.E., Freudenstein, J., Gribaldo, S., Hatzenpichler, R., Hugenholtz, P., Kämpfer,
P., Konstantinidis, K.T., Lane, C.E., Papke, R.T., Parks, D.H., Rossello-Mora, R.,
Stott, M.B., Sutcliffe, I.C., Thrash, J.C., Venter, S.N., Whitman, W.B., Acinas,
S.G., Amann, R.I., Anantharaman, K., Armengaud, J., Baker, B.J., Barco, R.A., Bode,
H.B., Boyd, E.S., Brady, C.L., Carini, P., Chain, P.S.G., Colman, D.R., DeAngelis,
K.M., de los Rios, M.A., Estrada-de los Santos, P., Dunlap, C.A., Eisen, J.A., Emerson,
D., Ettema, T.J.G., Eveillard, D., Girguis, P.R., Hentschel, U., Hollibaugh, J.T.,
Hug, L.A., Inskeep, W.P., Ivanova, E.P., Klenk, H-P, Li, W-J, Lloyd, K.G., Löffler,
F.E., Makhalanyane, T.P., Moser, D.P., Nunoura, T., Palmer, M., Parro, V., Pedrós-Alió,
C., Probst, A.J., Smits, T.H.M., Steen, A.D., Steenkamp, E.T., Spang, A., Stewart,
F.J., Tiedje, J.M., Vandamme, P., Wagner, M., Wang, F-P, Hedlund, B.P., Reysenbach,
A-L. (2020) Roadmap for naming uncultivated Archaea and Bacteria. Nat. Microbiol., 5:987-994. doi: 10.1038/s41564-020-0733-x.
Park, H., Patel, A., Hunt, K.A., Henson, M.A., Carlson, R.P. (2020) Artificial consortium
demonstrates emergent properties of enhanced cellulosic-sugar degradation and biofuel
synthesis. npj Biofilms and Microbiomes, 6:59. doi: 10.1038/s41522-020-00170-8
Reichart, N.J., Jay, Z.J., Krunkenberg, V., Parker, A.E., Spietz, R.L., Hatzenpichler,
R. (2020) Activity-based cell sorting reveals responses of uncultured archaea and
bacteria to substrate amendment. Isme J., 14:2851-2861. doi: 10.1038/s41396-020-00749-1.
Steward, K.F., Eilers, B., Tripet, B., Fuchs, A., Dorle, M., Rawle, R., Soriano, B.,
Balasubramanian, N., Copié, V., Bothner, B., Hatzenpichler, R. (2020) Metabolic Implications
of Using BioOrthogonal Non-Canonical Amino Acid Tagging (BONCAT) for Tracking Protein
Synthesis. Microbiol., 11:197.doi: 10.3389/fmicb.2020.001970.
Urbaniak, C., Wong, S., Tighe, S., Arumugam, A., Liu, B., Parker, C.W., Wood, J.M.,
Singh, N.K., Skorupa, D.J., Peyton, B.M., Jenson, R., Karouia, F., Dragon, J., Venkateswaran,
K. (2020) Validating an Automated Nucleic Acid Extraction Device for Omics in Space
Using Whole Cell Microbial Reference Standards. Front. Microbiol., 11:1909. doi: 10.3389/fmicb.2020.01909.
Zhang, T., Parker, A., Stewart, P.S., Klapper, I. (2020) Multiscale Flux-Based Modeling of Biofilm Communities. Multiscale Model. Simul., 18(2):1025-1052. doi: 10.1137/18M1234096.
2019
Borrel, G., Adam, P.S., McKay, L.J., Chen L.-X., Sierra-Garcia, I.N., Sieber, C.M.K., Anderson, G.L., Li, W-J, Hallam, S.J., Muyzer, G., de Oliveira, V.M., Inskeep, W.P., Banfield, J.F., Gribaldo, S. (2019) Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea. Nature Microbiology, 4:603-613. doi: 10.1038/s41564-019-0363-3.
Davis¸ K.J., Platt, G.A., Barnhart, E.P., Hiebert, R., Hyatt, R., Fields, M.W., Gerlach,
R. (2019) Biogenic coal-to-methane conversion can be enhanced with small additions
of algal amendment in field-relevant upflow column reactors. Fuel, 256:115905. doi: 10.1016/j.fuel.2019.115905.
Dong, Y., Sanford, R.A., Inskeep, W.P., Srivastava, V., Bulone, V., Fields, C.J.,
Yau, P.M., Sivaguru, M., Ahren, D., Fouke, K.W., Weber, J., Werth, C.R., Cann, I.K.,
Keating, K.M., Khetani, R.S., Hernandez, A.G., Wright, C., Band, M., Imai, B.S., Fried,
G.A., Fouke, B.W. (2019) Physiology, metabolism, and fossilization of hot-spring filamentous
microbial mats. Astrobiology, 19:1442-1458. doi: 10.1089/ast.2018.1965.
Hartman, R., Munson-McGee, J., Young, M.J., Lawrence, C.M. (2019) Survey of high-resolution
archaeal virus structures. Curr. Opin. Virol., 36:74-83. doi: 10.1016/j.coviro.2019.05.008.
Hartman, Ross, Eilers, B.J., Bollschweiler, D., Munson-McGee, J.H., Engelhardt, H.,
Young, M.J., Lawrence, C.M. (2019) The Molecular Mechanism of Cellular Attachment
for an Archaeal Virus. Structure, 27(11):1634-1646.e3. doi: 10.1016/j.str.2019.09.005.
Mohamed, A., Ha, P.T., Peyton, B.M., Mueller, R., Meagher, M., Beyenal, H. (2019) In
Situ Enrichment of Microbial Communities on Polarized Electrodes Deployed in Alkaline
Hot Springs. Power Sources, 414:547-556. doi: 10.1016/j.jpowsour.2019.01.027.
Park, H., McGill, S.L., Arnold, A.D., Carlson, R.P. (2019) Pseudomonad reverse carbon
catabolite repression, interspecies metabolite exchange, and consortial division of
labor. Cellular and Molecular Life Sciences. 77:395-413. doi: 10.1007/s00018-019-03377-x.
McKay, L.J., Dlakić, M., Fields, M.W., Delmont, T.O., Eren, A.M., Jay, Z.J., Klingelsmith,
K.B., Rusch, D.B., Inskeep, W.P. (2019) Co-occurring genomic capacity for anaerobic
methane metabolism and dissimilatory sulfite reduction discovered in the Korarchaeota. Nature Microbiology, 4:614-622. doi: 10.1038/s41564-019-0362-4.
Rawle, R.A., Kang, Y.S., Bothner, B., Wang, G., McDermott, T.R. (2019) Transcriptomics
analysis defines global cellular response of Agrobacterium tumefaciens 5A to arsenite
exposure regulated through the histidine kinases PhoR and AioS. Microbiol., 21(8):2659-2676. doi: 10.1111/1462-2920.14577.
Rollins, MaryClare F., Saikat Chowdhury, Joshua Carter, Sarah M. Golden, Heini M.
Miettinen, Andrew Santiago-Frangos, Dominick Faith, C. Martin Lawrence, Gabriel C.
Lander, Blake Wiedenheft. (2019) Structure Reveals a Mechanism of CRISPR-RNA-Guided
Nuclease Recruitment and Anti-CRISPR Viral Mimicry. Mol. Cell., 74(1):132-142.e5. doi: https://doi.org/10.1016/j.molcel.2019.02.001.
Schepens, D., Carlson, R.P., Heys, J., Beck, A.E., Gedeon, T. (2019) Role of resource
allocation and transport in emergence of cross-feeding in microbial consortia. Journal of Theoretical Biology, 467:150-163. doi: 10.1016/j.jtbi.2019.01.030.
Skorupa, D.J., Akyel, A., Fields, M.W., Gerlach, R. (2019) Facultative and anaerobic
consortia of haloalkaliphilic ureolytic micro‐organisms capable of precipitating calcium
carbonate. Journal of Applied Microbiology, 127:1479-1489. doi: 10.1111/jam.14384.
2018
Beck, A.E., Hunt, K.A., Carlson, R.P. (2018) Measuring Cellular Biomass Composition for Computational Biology Applications. Processes, 6(5):38. doi: 10.3390/pr6050038.
Carlson, R.P., Beck, A.E., Phalak, P., Fields, M.W., Gedeon, T., Hanley, L., Harcombe,
W.R., Henson, M.A., Heys, J.J. (2018) Competitive resource allocation to metabolic
pathways contributes to overflow metabolisms and emergent properties in cross feeding
microbial consortia. Soc. Trans., 46:269-284. doi: 10.1042/BST20170242.
Dharmavaram, S., Rudnick, J., Lawrence, C.M., Bruinsma, R.F. (2018) Smectic viral
capsids and the aneurysm instability. J. Phys. Condens. Matter, 20(20):204004. doi: 10.1088/1361-648X/aab99a.
Gumulya, Y., Boxall, N.J., Khaleque, H.N., Santala, V., Carlson, R.P., Kaksonen, A.H.
(2018) In a Quest for Engineering Acidophiles for Biomining Applications: Challenges
and Opportunities. Genes, 9(2):116. doi: 10.3390/genes9020116.
Hochstein, R., Bollschweiler, D., Dharmavaram, S., Lintner, N.G., Plitzko, J.M., Engelhardt, H., Young, M.J., Klug, W.S., Lawrence, C.M. (2018) Structural studies of Acidianus tailed spindle virus reveal a structural paradigm used in the assembly of spindle-shaped viruses. PNAS, 115(9):2120-2125. doi: 10.1073/pnas.1719180115.
Hunt, K.A., Jennings, R.M., Inskeep, W.P., Carlson, R.P. (2018) Multiscale analysis of autotroph-heterotroph interactions in a high-temperature microbial community. PLoS Comput. Biol., 14(9): e1006431. doi: 10.1371/journal.pcbi.1006431.
Jarett, J.K., Nayfach, S., Podar, M., Inskeep, W., Ivanova, N.N., Munson-McGee, J.,
Schulz, F., Young, M., Jay, Z.J., Beam, J.P., Kyrpides, N.C., Malmstrom, R.R., Stepanauskas,
R., Woyke, T. (2018) Single-cell genomics of co-sorted Nanoarchaeota suggests novel
putative host associations and diversification of proteins involved in symbiosis. Microbiome 6:161. doi: 10.1186/s40168-018-0539-8.
Jay, Z.J., Beam, P., Dlakić, M. , Rusch, D.B., Kozubal, M.A., Inskeep, W.P. (2018)
Marsarchaeota are an aerobic archaeal lineage abundant in geothermal iron oxide microbial
mats. Nature Microbiology, 3:732-740. doi: 10.1038/s41564-018-0163-1.
Kant, R., Llauró, A., Rayaprolu, V., Qazi, S., de Pablo PJ, Douglas T, Bothner B.
(2018) Changes in the stability and biomechanics of P22 bacteriophage capsid during
maturation. Biophys. Acta Gen. Subj., 1862(6):1492-1504. doi: 10.1016/j.bbagen.2018.03.006.
Wang, Q., Kang, Y.-S., Alowaifeer, A., Shi, K., Fan, X., Wang, L., Jetter, J., Bothner,
B., Wang, G., McDermott, T.R. (2018) Phosphate starvation response controls genes
required to synthesize the phosphate analog arsenate. Microbiol., 20(5):1782-1793. doi: 10.1111/1462-2920.14108.
2017
Beck, A.E., Bernstein, H.C., Carlson, R.P. (2017) Stoichiometric network analysis of cyanobacterial acclimation to photosynthesis-associated stresses identifies heterotrophic niches. Processes, 5 (2), 32. doi: 10.3390/pr5020032.
Bollschweiler, D., Schaffer, M., Lawrence, C.M., Engelhardt, H. (2017) Cryo-electron
microscopy of an extremely halophilic microbe: technical aspects. Extremophiles, 21(2):393-398. doi: 10.1007/s00792-016-0912-0.
Douglas, P.M.J., Stolper, D.A., Eiler, J.M., Sessions, A.L., Lawson, M., Shuai, Y.,
Bishop, A., Podlaha, O.G., Ferreira, A. A., Santos Neto, E.V., Niemann, M., Steen,
A.S., Huang, L., Chimiak, L., Valentine, D.L., Fiebig, J., Luhmann, A.J., Seyfried,
W.E. Jr., Etiope, G., Schoell, M., Inskeep, W.P., Moran, J.J., Kitchen, N. (2017)
Methane clumped isotopes: Progress and potential for a new isotopic tracer. Organic
Geochemistry 113: 262-282. doi: 1016/j.orggeochem.2017.07.016.
Jennings, R. deM., Moran, J., Jay, Z. J., Beam, J.P., Kozubal, M.A., Whitmore, L.M.,
Kreuzer, H., Inskeep, W.P. (2017) Integration of Metagenomic and Stable Carbon Isotope
Evidence Reveals the Extent and Mechanisms of Carbon Dioxide Fixation in High-Temperature
Microbial Communities. Microbiol. 8:88. doi: 10.3389/fmicb.2017.00088.
McKay, L.J., Hatzenpichler, R., Inskeep, W.P., Fields, M.W. (2017) Occurrence and
expression of novel methyl-coenzyme M reductase gene (mcrA) variants in hot spring
sediments. Scientific Reports, 7: 7252 doi: 10.1038/s41598-017-07354-x.
Meslé, M.M., Beam, J.P., Jay, Z.J., Bodle, B., Bogenschutz, E., Inskeep, W. (2017)
Hydrogen Peroxide Cycling in High-Temperature Acidic Geothermal Springs and Potential
Implications for Oxidative Stress Response. Mar. Sci., 4:130. doi: 10.3389/ fmars.2017.00130.
Moran, J.J., Whitmore, L.M., Jay, Z.J., Jennings, R. deM., Beam, J.P., Kreuzer, H.W.,
Inskeep, W.P. (2017) Dual stable isotopes of CH4 from Yellowstone hot-springs suggest
hydrothermal processes involving magmatic CO2. Journal of Volcanology and Geothermal Research, 341:187-192. doi: 10.1016/j.jvolgeores.2017.05.011.
Rawle, R.A., Hamerly, T., Tripet, B.P., Giannone, R.J., Wurch, L., Hettich, R.L.,
Podar, M., Copié, V., Bothner, B. (2017) Multi-omics analysis provides insight to
the Ignicoccus hospitalis-Nanoarchaeum equitans. Biochimica et Biophysica Acta, 1861(9):2218-2227. doi: 10.1016/j.bbagen.2017.06.001.
Schepens, D., Beck, A.E., Heys, J.J., Gedeon, T., Carlson, R.P. (2017) The Benefits
of Resource Partitioning and Division of Labor in Microbial Consortia. In P. Amar,
F. Kepes, and C.T. Trinh (Eds.), Advances in Systems and Synthetic Biology (pp. 137-148).
EDP Sciences Publishing. ISBN 978-2-7598-2116-7.
Tokmina-Lukaszewska, M., Shi, Z., Tripet, B., McDermott, T.R., Copié, V., Bothner,
B., Wang, G. (2017) Metabolic response of Agrobacterium tumefaciens 5A to arsenite.
Environ Microbiol., 19(2):710-721. doi: 10.1111/1462-2920.13615.
Venters, M., Carlson, R.P., Gedeon, T., Heys, J. (2017) Effects of Spatial Localization
on Microbial Consortia Growth. PLOS ONE, 12(1):e0168592. doi: 10.1371/journal.pone.0168592.
Wagner, C., Reddy, V., Asturias, F., Khoshouei, M., Johnson, J.E., Manrique, P., Munson-McGee,
J., Baumeister, W., Lawrence, C.M., Young, M.J. (2017) Isolation and Characterization
of Metallosphaera Turreted Icosahedral Virus, a Founding Member of a New Family of
Archaeal Viruses. J. Virol., 91(20):e00925-17. doi: 10.1128/JVI.00925-17.
2016
Beam, J.P., Bernstein, H.C., Jay, Z.J., Kozubal, M.A., Jennings, R. deM., Tringe, S.G., Inskeep, W.P. (2016) Assembly and succession of iron oxide microbial mat communities in acidic geothermal springs. Microbiol., 7:25. doi: 10.3389/fmicb.2016.00025.
Beam, J.P., Jay, Z.J., Schmid, M.C., Romine, M.F., Rusch, D.B., Jennings, R. deM.,
Kozubal, M.A., Tringe, S.G., Wagner, M., Inskeep, W.P. (2016) Ecophysiology of an
uncultivated lineage of Aigarchaeota from an oxic, hot spring filamentous ‘streamer'
community. ISME J. 10(1):210–224. doi: 10.1038/ismej.2015.83.
Beck, A.E., Hunt, K.A., Bernstein, H.C., Carlson, R.P. (2016) Interpreting and designing
microbial communities for bioprocess applications, from components to interactions
to emergent properties. In C.A. Eckert and C.T. Trinh (Ed.), Biotechnology for Biofuel Production and Optimization (1st, pp. 407-432). Elsevier. doi: 10.1016/B978-0-444-63475-7.00015-7.
Carlson, R.P., Oshota, O., Shipman, M., Caserta, J.A., Hu, P., Saunders, C.W., Xu, J., Reeder, N., Richards, A., Pettigrew, C., Peyton, B.M. (2016) Integrated molecular, physiological and in silico characterization of two Halomonas isolates from industrial brine. Extremophiles, 20(3):261-274. doi: 10.1007/s00792-015-0806-6.
Colman, D.R., Jay, Z.J., Inskeep, W.P., Jennings, deM. R., Maas, K.R., Rusch, D.B., Takacs-Vesbach, C.D. (2016) Novel, deep-branching heterotrophic bacterial populations recovered from thermal spring metagenomes. Microbiol., 7:304. doi: 10.3389/fmicb.2016.00304.
Dellas, Nikki, Snyder, J.C., Dills, M., Nicolay, S.J., Kerchner, K.M., Brumfield, S.K., Lawrence, C.M., Young, M.J., Structure-Based Mutagenesis of Sulfolobus Turreted Icosahedral Virus B204 Reveals Essential Residues in the Virion-Associated DNA-Packaging ATPase. J. Virol., 90(6):2729-2739. doi: 10.1128/JVI.02435-15.
Hamerly, T., Bothner, B. (2016) Investigations into the Use of a Protein Sensor Assay for Metabolite Analysis. Biochem. Biotechnol., 178(1):101-13. doi: 10.1007/s12010-015-1861-2.
Hochstein, R., Bollschweiler, D., Engelhardt, H., Lawrence, C.M., Young, M. (2015) Large Tailed Spindle Viruses of Archaea: a New Way of Doing Viral Business. J. Virol., 89(18):9146-9149. doi: 10.1128/JVI.00612-15.
Hunt, K., Jennings, R. deM., Inskeep, W.P., Carlson, R.P. (2016) Stoichiometric modelling of assimilatory and dissimilatory biomass utilization in a microbial community. Microbiol., 18:4946-4960. doi: 10.1111/1462-2920.13444.
Jay, Z.J., Beam, J.P., Kozubal, M.A., Jennings, R. deM., Rusch, D., Inskeep, W.P. (2016) The distribution, diversity and function of predominant Thermoproteales in high-temperature environments of Yellowstone National Park. Microbiol., 18:4755-4769. doi: 10.1111/1462-2920.13366.
Kan, J., Clingenpeel, S., Dow, C.L., McDermott, T.R., Macur, R.E., Inskeep, W.P., Nealson, K.H. (2016) Geochemistry and mixing drive the spatial distribution of free-living archaea and bacteria in Yellowstone Lake. Microbiol., 7:210. doi: 10.3389/fmicb.2016.00210.
Kang, Y.-S., Brame, K., Jetter, J., Bothner, B.B., Wang, G., Thiyagarajan, S., McDermott, T.R. (2016) Regulatory Activities of Four ArsR Proteins in Agrobacterium tumefaciens 5A. Environ. Microbiol., 82(12):3471-3480. doi: 10.1128/AEM.00262-16.
Klotz, M.G., Bryant, D.A., Fredrickson, J.K., Inskeep, W.P., Kuhl, M. (2016) Editorial: Systems Biology and Ecology of Microbial Mat Communities. Microbiol., 7:115. doi: 10.3389/fmicb.2016.00115.
Moran, J.J., Whitmore, L.M., Isern, N.G., Romine, M.F., Riha, K.M., Inskeep, W.P., Kreuzer, H.W. (2016) Formaldehyde as a carbon and electron shuttle between autotroph and heterotroph populations in acidic hydrothermal vents of Norris Geyser Basin, Yellowstone National Park. Extremophiles, 20(3):291-299. doi: 10.1007/s00792-016-0821-2.
Topuzlu, E., Lawrence, C.M. (2016) Recognition of a pseudo-symmetric RNA tetranucleotide by Csx3, a new member of the CRISPR associated Rossmann fold superfamily, 13(2):254-7. doi: 10.1080/15476286.2015.1130209.
2015
Hamerly, T., Tripet, B., Wurch, L., Hettich, R.L., Podar, M., Bothner, B., Copié, V. (2015) Characterization of Fatty Acids in Crenarchaeota by GC-MS and NMR. Archaea, 472726. doi: 10.1155/2015/472726.
Hamerly, T., Tripet, B.P., Tigges, M., Giannone, R.J., Wurch, L., Hettich, R.L., Podar, M., Copié, V., Bothner, B. (2015) Untargeted metabolomics studies employing NMR and LC-MS reveal metabolic coupling between Nanoarcheum equitans and its archaeal host Ignicoccus hospitalis. Metabolomics, 11(4):895-907. doi: 10.1007/s11306-014-0747-6.
Härtig, C., Lohmayer, R., Kolb, S., Horn, M.A., Inskeep, W.P., Planer-Friedrich, B. (2014) Chemolithotrophic growth of the aerobic hyperthermophilic bacterium Thermocrinis ruber OC 14/7/2 on monothioarsenate and arsenite. FEMS Microbiology Ecology, 90(3):747–760. doi: 10.1111/1574-6941.12431.
Inskeep, W.P., Jay, Z.J., Macur, R.E., Clingenpeel, S., Tenney, A., Lavalvo, D., Beam, J.P., Kozubal, M.A., Shanks, W.C., Morgan, L.A., Kan, J., Gorby, Y., Yooseph, S., Nealson, K. (2015) Geomicrobiology of sublacustrine thermal vents in Yellowstone Lake: Phylogenetic and functional analyses reveal geochemical controls on microbial community structure. Microbiol., 6:1044. doi: 10.3389/fmicb.2015.01044.
Jay, Z.J., Beam, J.P., Dohnalkova, A., Lohmayer, R., Bodle, B., Planer-Friedrich, B., Romine, M., Inskeep, W.P. (2015) Pyrobaculum yellowstonensis Strain WP30 Respires on Elemental Sulfur and/or Arsenate in Circumneutral Sulfidic Geothermal Sediments of Yellowstone National Park. Environ. Microbiol., 81(17):5907–5916. doi: 10.1128/AEM.01095-15.
Swanson, K.D., Ratzloff, M.W., Mulder, D.W., Artz, J.H., Ghose, S., Hoffman, A., White, S., Zadvornyy, O.A., Broderick, J.B., Bothner, B., King, P.W., Peters, J.W. (2015) [FeFe]-hydrogenase oxygen inactivation is initiated at the H cluster 2Fe subcluster. Am. Chem. Soc.,137(5):1809-1816. doi: 10.1021/ja510169s.
Wang, Q., Warelow, T.P., Kang, Y.-S., Romano, C., Osborne, T.H., Lehr, C.R., Bothner, B., McDermott, T.R., Santini, J.M., Wang, G. (2015) Arsenite oxidase also functions as an antimonite oxidase. Environ. Microbiol., 81(6):1959-1965. doi: 10.1128/AEM.02981-14.
2014
Jennings, R deM., Whitmore, L.M., Moran, J.J., Kreuzer, H.W., Inskeep, W.P. (2014) Carbon dioxide fixation by Metallosphaera yellowstonensis and acidothermophilic iron-oxidizing microbial communities from Yellowstone National Park. Environ. Microbiol., 80:2665-2671. doi: 10.1128/AEM.03416-13.