Lennon Lab
Microbial Biodiversity


In Review, In Revision, and/or Preprints:

Mueller EA, Wisnoski NI, Peralta AL, Lennon JT (In Review) Microbial rescue effects: how microbiomes can save hosts from extinction

Muscarella ME, Lennon JT (2018) Trait-based approach to bacterial growth efficiency. bioRxiv doi: https://doi.org/10.1101/427161

Muscarella ME, Boot CM, Broeckling CD, Lennon JT (2018) Resource diversity structures aquatic bacterial communities. bioRxiv doi: https://doi.org/10.1101/387803

Wisnoski, Leibold MA, Lennon JT (2018) Dormancy in metacommunities. OSF Preprint doi: 10.17605/OSF.IO/UJMZC

Larsen ML, Wilhelm SW, Lennon JT (2017) Nutrient stoichiometry shapes microbial coevolution. bioRxiv doi: https://doi.org/10.1101/183657

Webster KD, Schimmelmann A, Drobniak A, Mastalerz M, Lagarde LR, Boston PJ, Lennon JT (2018) Diversity and composition of cave methanotrophic communities. bioRxiv doi: https://doi.org/10.1101/412213

Salazar A, Lennon JT, Dukes JS (2018) Microbial activity improves predictability of soil respiration dynamics. bioRxiv doi: https://doi.org/10.1101/434654

Locey KJ, Lennon JT (2017) A modeling platform for the simultaneous emergence of ecological patterns. PeerJ Preprints. 5:e1469v3 doi: https://doi.org/10.7287/peerj.preprints.1469v3

Published or In Press: (* = non-peer-reviewed)

Locey KJ, Lennon JT (In Press) A residence-time framework for biodiversity. The American Naturalist. 5:e2727v2 doi.org/10.7287/peerj.preprints.2727v2

Shade A, Dunn RR, Blowes SA, Keil P, Bohannan BMJ, M Hermann, K Küsel, Lennon JT, Sanders NJ, D Storch, J Chase (2018) Macroecology to unite all biodiversity great and small. Trends in Ecology and Evolution 33: 731-744 (pdf, supplementary information)

Lennon JT, Muscarella ME, Placella SA, Lehmkuhl BK (2018) How, when, and where relic DNA biases estimates of microbial diversity. mBio 9:e00637-18 (pdf)

Shoemaker WR, Lennon JT (2018) Evolution with a seed bank: the population genetic consequences of microbial dormancy. Evolutionary Applications 11: 60–75 (pdf)

Hall EK, Bernhardt ES, Bier R, Bradford MA, Boot CM, Cotner JB, del Giorgio PA, Evans SE, Graham EB, Jones SE, Lennon JT, Nemergut D, Osborne B, Rocca JD, Schimel JS, Waldrop MS, Wallenstein MW (2018) Understanding how microbiomes influence the systems they inhabit. Nature Microbiology 3: 977–982 (pdf, Behind the Paper)

*Lennon JT, Locey KJ (2018) There are more microbial species on Earth than stars in the galaxy. Aeon (Link)

Peralta AL, Sun Y, McDaniel MD, Lennon JT (2018) Crop diversity increases disease suppressive capacity of soil microbiomes. Ecosphere 9: e02235 (pdf, supplementary information)

Long H, Sung W, Kucukyildirim S, Williams E, Miller S, Guo W, Patterson C, Gregory C, Strauss C, Stone C, Berne C, Kysela D, Shoemaker WR, Muscarella M, Luo H, Lennon JT, Brun YV, Lynch M (2018) Evolutionary determinants of genome-wide nucleotide composition. Nature Ecology and Evolution 2: 237-240 (pdf)

Schimmelmann A, Streil T, Fernandez-Cortes A, Cuezva S, Lennon JT (2018) Radiolysis via radioactivity is not responsible for rapid methane oxidation in subterranean air. PLOS ONE 113: 020650 (pdf)

Shoemaker WR, Locey KJ, Lennon JT (2017) A macroecological theory of microbial biodiversity. Nature Ecology and Evolution 1:0107 (pdf, supplementary information)

Kuo V, Shoemaker WR, Muscarella ME, Lennon JT (2017) Whole genome sequence of the soil bacterium Micrococcus sp. KBS0714. Genome Announcements 5:e00697-17 (pdf)

Nguyễn-Thuỳ D, Schimmelmann A, Nguyễn-Văn H, Drobniak A, Lennon JT, Tạ PH, Nguyễn NTA (2017) Subterranean microbial oxidation of atmospheric methane in cavernous tropical karst. Chemical Geology 466: 229-238 (pdf)

*Lau JA, Lennon JT, Heath KD (2017) Trees harness the power of microbes to survive climate change. Proceedings of the National Academy of Sciences of the United States of America 114: 11009-11011 (pdf; a Commentary on Gehring et al. 2017)

Lamit LJ, Romanowicz JH, Potvin LR, Rivers A, Singh K, Lennon JT, Tringe S, Kane E, Lilleskov E (2017) Patterns and drivers of fungal community depth stratification in Sphagnum peat. FEMS Microbiology Ecology 93: fix082 (pdf)

Locey KJ, Fisk MC, Lennon JT (2017) Microscale insight into microbial seed banks. Frontiers in Microbiology 7:2040 (pdf)

Webster KD, Lagarde LR, Sauer PE, Schimmelmann A, Lennon JT, Boston PJ (2017) Isotopic evidence for the migration of thermogenic methane in Cueva de Villa Luz cave, Tabasco, Mexico. Journal of Cave and Karst Studies 79: 24-34 (pdf)

Lennon JT, Locey KJ (2017) Macroecology for microbiology. Environmental Microbiology Reports 9: 38-40 (pdf)

LaSarre B, McCully AL, Lennon JT, McKinlay JB (2017) Microbial mutualism dynamics governed by dose-dependent toxicity and growth-independent production of a cross-fed nutrient. ISMEJ 11: 337–348 (pdf)

Lennon JT, Nguyễn Thùy D, Phạm Ðức N, Drobniak A, Tạ PH, Phạm NÐ, Streil T, Webster KD, Schimmelmann A (2017) Microbial contributions to subterranean methane sinks. Geobiology 15: 254-258. (pdf)

Skelton J, Geyer KM, Lennon JT, Creed RP, Brown BL (2017) Multi-scale ecological filters shape crayfish microbiome assembly. Symbiosis 72: 159-170 (pdf)

*Moger-Reischer RZ, Lennon JT (2017) Book Review. The human superorganism: how the microbiome is revolutionizing the pursuit of a healthy life by Rodney Dietert. Quarterly Review of Biology 92: 203 (pdf)

Locey KJ, Lennon JT (2016) Powerful predictions of biodiversity from ecological models and scaling laws. Proceedings of the National Academy of Sciences of the United States of America 113: E5097 (pdf; a reply to Willis)

Lennon JT, Locey KJ (2016) The underestimation of global microbial diversity. mBio 7: e01298-16 (pdf; a correspondence to and from Amann and Rosello-Mora)

Locey KJ, Lennon JT (2016) Scaling laws predict global microbial diversity. Proceedings of the National Academy of Sciences of the United States of America 113: 5970-5975 (pdf, supplementary information, PNAS Commentary, F1000 Recommendation)

Lennon JT, Lehmkuhl (2016) A trait-based approach to biofilms in soil. Environmental Microbiology 18: 2732–2742 (pdf)

Muscarella ME, Jones SE, Lennon JT (2016) Species sorting along a subsidy gradient alters community stability. Ecology 97: 2034-2043 (pdf)

Aanderud ZT, Vert JC, Magnusson TW, Lennon JT, Breakwell DP, Harker AR (2016) Bacterial dormancy is more prevalent in freshwater than hypersaline lakes. Frontiers in Microbiology 7:853. doi: 10.3389/fmicb.2016.00853 (pdf)

Lennon JT, Denef VJ (2016) Evolutionary ecology of microorganisms: from the tamed to the wild, p 4.1.2-1–4.1.2-12. In Yates MV, Nakatsu C, Miller R, Pillai S (ed), Manual of Environmental Microbiology, 4th ed. ASM Press, Washington, DC (pdf)

Wiggington CH, Sonderegger DL, Brussard CPD, Buchan A, Finke JF, Fuhrman JA, Lennon JT, Middelboe M, Stock CA, Suttle CA, Wilson WH, Wommack EK, Wilhelm SW, Weitz JS (2016) Re-examining the relationship between virus and microbial cell abundances in the global oceans. Nature Microbiology 1: article 15024 (pdf, interactive dashboard)

Hall EK, Schoolmaster DR, Amado, AM, Stets, EG, Lennon JT, Domine L, Cotner JB (2016) Scaling relationships among drivers of aquatic respiration: from the smallest to the largest freshwater ecosystems. Inland Waters 6: 1-10 (pdf)

Kinsman-Costello LE, Hamilton SK, O'Brien J, Lennon JT (2016) Phosphorus release from the drying and reflooding of diverse wetland sediments. DOI 10.1007/s10533-016-0250-4. Biogeochemistry (pdf)

*Wisnoski NI, Lennon JT (2016) Book Review. Principles of Microbial Diversity by James W. Brown. Quarterly Review of Biology 91: 98-99 (pdf)

Martiny JBH, Jones SE, Lennon JT, Martiny AC (2015) Microbiomes in light of traits: a phylogenetic perspective. Science 350: aac9323 (pdf)

Bier RL, Bernhardt ES, Boot CM, Graham EB, Hall EK, Lennon JT, Nemergut D, Osborne BB, Ruiz-Gonzalez C, Schimel JP, Waldrop MP, Wallenstein MD (2015) Linking microbial community structure and microbial processes: an empirical and conceptual overview. FEMS Microbiology Ecology (pdf)

Shoemaker WR, Muscarella ME, Lennon JT (2015) Genome sequence of the soil bacterium Janthinobacterium sp. KBS0711. Genome Announcements 3: e00689-15 (pdf)

Treseder KK, Lennon JT (2015) Fungal traits that drive ecosystem dynamics. Microbiology and Molecular Biology Reviews 79: 243-262 (pdf)

Solomon CT, Jones SE, Weidel BC, Buffam I, Fork ML, Karlsson J, Larsen S, Lennon JT, Read JS, Sadro S, Saros JE (2015) Ecosystem consequences of changing inputs of terrestrial dissolved organic matter to lakes: current knowledge and future challenges. Ecosystems 18: 376-389 (pdf)

Weitz JS, Stock CA, Wilhelm SW, Bourouiba L, Buchan A, Coleman ML, Follows MJ, Fuhrman JA, Jover LF, Lennon JT, Middelboe M, Sonderegger DL, Suttle CA, Taylor BP, Thingstad TF, Wilson WH, Wommack EK (2015) A multitrophic model to quantify the effects of marine viruses on microbial food webs and ecosystem processes. The ISME Journal 9: 1352-1364 (pdf)

Aanderud ZT, Jones SE, Fierer N, Lennon JT (2015) Resuscitation of the rare biosphere contributes to pulses of ecosystem activity. Frontiers in Microbiology 6:24 (pdf)

Jones SE, Lennon JT (2015) A test of the subsidy-stability hypothesis: effects of terrestrial carbon in aquatic ecosystems. Ecology 96: 1550-1560 (pdf, supplementary material, ESA Bulletin Photo Gallery)

Rocca JD, Hall EK, Lennon JT, Evans SE, Waldrop MP, Cotner JB, Nemergut DR, Graham EB, Wallenstein MD (2015) Relationships between protein-encoding gene abundance and corresponding process are commonly assumed yet rarely observed. The ISME Journal 9: 1693-1699 (pdf)

Muscarella ME, Bird KC, Larsen ML, Placella SA, Lennon JT (2014) Phosphorus resource heterogeneity in microbial food webs. Aquatic Microbial Ecology 73: 259-272 (pdf)

Peralta AL, Stuart D, Kent AD, Lennon JT (2014) A social-ecological framework for "micromanaging" microbial services. Frontiers in Ecology and the Environment 12: 524-531 (pdf, supplementary material, cover)

Krause S, Le Roux X, Niklaus PA, Van Bodegom P, Lennon JT, Bertilsson S, Grossart HP, Philippot L, Bodelier P (2014) Trait-based approaches for understanding microbial biodiversity and ecosystem functioning. Frontiers in Microbiology 5: 251 (pdf)

terHorst CP, Lennon JT, Lau JA (2014) The relative importance of rapid evolution for plant-soil feedbacks depend on ecological context. Proceeding of the Royal Society B 281: 20140028 (pdf, correction)

Dzialowski AR, Rzepecki M, Kostrzewska-Szlakowska I, Lennon JT, Kalinowska K, Palash A (2014) Are the abioitc and biotic characteristics of aquatic mesocosms representative of in situ conditions? Journal of Limnology 73: 603-612 (pdf)

Bertilsson S, Burgin A, Carey CC, Fey SB, Grossart HP, Grubisic L, Jones I, Kirillin G, Lennon JT, Shade A, Smyth RL (2013) The under-ice microbiome of seasonally frozen lakes. Limnology and Oceanography 58: 1998-2012 (pdf)

Lennon JT, Hamilton SK, Muscarella ME, AS Grandy, K Wickings, SE Jones (2013) A source of terrestrial organic carbon to investigate the browning of aquatic ecosystems. PLOS ONE 8: e75771 (pdf)

Ponsero AJ, Chen F, Lennon JT, Wilhelm SW (2013) Complete genome sequence of a non-lysogenizing cyanobacterial siphoviridae. Genome Announcements 1(4): e00472-13. doi:10.1128/ genomeA.00472-13 (pdf)

Lauber CL, Ramirez KS, Aanderud ZT, Lennon JT, Fierer N. (2013) Temporal variability in soil microbial communities across land-use types. The ISME Journal 7: 1641-1650 (pdf)

Aanderud ZT, Jones SE, Schoolmaster DR, Fierer N, Lennon JT (2013) Sensitivity of soil respiration and microbial communities to altered snowfall. Soil Biology & Biochemistry 57: 217-227 (pdf)

Shade A, Peter H, Allison S, Baho D, Berga M, Burgmann H, Huber D, Langenheder S, Lennon JT, Martiny JBH, Matulich K, Schmidt TM, Handelsman J (2012) Fundamentals of microbial community resistance and resilience. Frontiers in Microbiology 3: 417 (pdf)

Lau JA, Lennon JT (2012) Rapid responses of soil microorganisms improve plant fitness in novel environments. Proceedings of the National Academy of Sciences of the United States of America 109: 14058-14062 (pdf, supplementary material, press release, podcast, F1000 Recommendation)

Lennon JT, Aanderud ZA, Lehmkuhl BK, Schoolmaster DR (2012) Mapping the niche space of soil microorganisms using taxonomy and traits. Ecology 93: 1867-1879 (pdf, supplementary material, ESA Bulletin Photo Gallery)

Burgin AJ, Hamilton SK, Jones SE, Lennon JT (2012) Denitrification by sulfur-oxidizing bacteria in a eutrophic lake. Aquatic Microbial Ecology 66: 283-293 (pdf)

O'Brien JM, Hamilton SK, Kinsman-Costello LE, Lennon JT, Ostrom NE (2012) Nitrogen transformations in a through-flow wetland revealed using whole-ecosystem pulsed 15N additions. Limnology and Oceanography 57: 221-234 (pdf)

Treseder KK, Balser TC, Bradford MA, Brodie EL, Eviner VT, Hofmockel KS, Lennon JT, Levine UY, MacGregor BJ, Pett-Ridge J, Waldrop MP (2012) Integrating microbial ecology into ecosystem models. Biogeochemistry 109: 7-18 (pdf)

Lau JA, Lennon JT (2011) Evolutionary ecology of plant-microbe interactions: soil microbial structure alters natural selection on plant traits. New Phytologist 192:215-224 (pdf)

Aanderud ZT, Lennon JT (2011) Validation of heavy-water stable isotope probing for the characterization of rapidly responding soil bacteria. Applied and Environmental Microbiology 77: 4589-4596 (pdf)

Fierer N, Lennon JT (2011) The generation and maintenance of diversity in microbial communities. American Journal of Botany 98: 439-448 (pdf)

Lennon JT, Jones SE (2011) Microbial seed banks: ecological and evolutionary implications of dormancy. Nature Reviews Microbiology 9:119-130 (pdf, supplementary material)

Lennon JT (2011) Replication, lies, and lesser-known truths regarding experimental design in environmental microbiology. Environmental Microbiology 6:1383-1386(pdf)

Aanderud ZT, Schoolmaster DR, Lennon JT (2011) Plants mediate the sensitivity of soil respiration to rainfall variability. Ecosystems 14: 156-167 (pdf, supplementary material)

Jones SE, Lennon JT (2010) Dormancy contributes to the maintenance of microbial diversity. Proceedings of the National Academy of Sciences of the United States of America 107: 5881-5886 (pdf, supplementary material, press release)

Hall EK , Singer GA, Kainz MJ, Lennon JT (2010) Evidence for temperature acclimation in bacteria: an empirical test of a hypothesized membrane-mediated trade-off. Functional Ecology 24: 898-908 (pdf)

Thum RA, Lennon JT (2010) Comparative ecological niche models predictive the invasive spread of variable-leaf milfoil (Myriophyllum heterophyllum) and its potential impact on closely related native species. Biological Invasions 12: 133-143 (pdf)

Jones SE, Lennon JT (2009) Evidence for limited microbial transfer of methane in a planktonic food web. Aquatic Microbial Ecology 58: 45-53 (pdf)

Lennon JT, Martiny JBH (2008) Rapid evolution buffers ecosystem impacts of viruses in a microbial food web. Ecology Letters 11:1177-1188 (pdf, supplementary material)

Lennon JT, Cottingham KL (2008) Microbial productivity in variable resource environments. Ecology 84:1001-1014 (pdf, supplementary material, ESA Bulletin Photo Gallery)

Lennon JT, Khatana SAM, Marston MF, Martiny JBH (2007) Is there a cost of virus resistance in marine cyanobacteria? The ISME Journal 1: 300-312 (pdf, featured article)

Lennon JT (2007) Diversity and metabolism of marine bacteria cultivated on dissolved DNA. Applied and Environmental Microbiology 73: 2799-2805 (pdf)

Reyns NB, Langenheder S, Lennon J (2007) Specialization vs. diversification: a trade-off for young scientists? Eos 88: 343 (pdf)

Dzialowski AD, Lennon JT, Smith VH (2007) Food web structure provides biotic resistance against plankton invasion attempts. Biological Invasions 9: 257-256 (pdf)

Lennon JT, Faiia AM, Feng X, Cottingham KL (2006) Relative importance of CO2 recycling and CH4 pathways in lake food webs along a terrestrial carbon gradient. Limnology and Oceanography 51: 1602-1613 (pdf, supplementary material)

Thum RA, Lennon JT (2006) Is hybridization responsible for invasive growth of non-indigenous water-milfoils? Biological Invasions 84: 1061-1066 (pdf)

Cottingham KL, Lennon JT, Brown BL (2005) Regression versus ANOVA. Frontiers in Ecology and the Environment 3: 358 (pdf)

Cottingham KL, Lennon JT, Brown BL (2005) Knowing when to draw the line: designing more informative ecological experiments. Frontiers in Ecology and the Environment 3: 145-152 (pdf, supplementary material)

Lennon JT, Pfaff LE (2005) Source and supply of terrestrial carbon affects aquatic microbial metabolism. Aquatic Microbial Ecology 39: 107-119 (pdf)

Thum RA, Lennon JT, Connor J, Smagula AP (2005) A DNA fingerprinting approach for distinguishing native and non-native milfoils. Lake and Reservoir Management 21: 1-6 (pdf)

Lennon JT (2004) Experimental evidence that terrestrial carbon subsidies increase CO2 flux from lake ecosystems. Oecologia 138: 584-591 (pdf)

Lennon JT (2004) The energetic importance of terrestrial carbon in lake ecosystems. Dartmouth College (USA), 169 pp. (pdf)

Lennon JT, Smith VH, Dzialowski AR (2003) Invasibility of plankton food webs along a trophic state gradient. Oikos 102: 191-203 (pdf)

Dzialowski AR, Lennon JT, O'Brien WJ, Smith VH (2003) Predator-induced phenotypic plasticity in the exotic cladoceran Daphnia lumholtzi. Freshwater Biology 48: 1593-1602 (pdf) (cover)

Cottingham KL, Brown BL, Lennon JT (2001) Biodiversity may regulate the temporal variability of ecological systems. Ecology Letters 4: 72-85 (pdf)

Lennon JT, Smith VH, Williams K (2001) Influence of temperature on exotic Daphnia lumholtzi and implications for invasion success. Journal of Plankton Research 23: 425-434 (pdf)

deNoyelles FJ, Wang SH, Meyer JO, Huggins DG, Lennon JT, Kolln WS, Randtke SJ (1999) Water quality issues in reservoirs: some considerations from a study of a large reservoir in Kansas. Proceedings of the 49th Annual Environmental Engineering Conference, University of Kansas, Lawrence.

Lennon JT (1999) Invasion success of the exotic Daphnia lumholtzi: species traits and community resistance. University of Kansas (USA) 77 pp. (pdf)