2024
Stroud JT, Delory BM, Barnes EM, Chase JM, De Meester L, Dieskau J, Grainger TN, Halliday FW, Kardol P, Knight TM, Ladouceur E, Little CJ, Roscher C, Sarneel JM, Temperton VM, van Steijn T, Werner CM, Wood CW, and Fukami T (2024) Priority effects transcend scales and disciplines in biology. Trends in Ecology & Evolution 39: 677-688. PDF
2023
Álvarez-Pérez S, de Vega C, Vanoirbeek K, Tsuji K, Jacquemyn H, Fukami T, Michiels C, and Lievens B (2023) Phylogenomic analysis of the genus Rosenbergiella and description of Rosenbergiella gaditana sp. nov., Rosenbergiella metrosideri sp. nov., Rosenbergiella epipactidis subsp. epipactidis subsp. nov., Rosenbergiella epipactidis subsp. californiensis subsp. nov., Rosenbergiella epipactidis subsp. japonicus subsp. nov., Rosenbergiella nectarea subsp. nectarea subsp. nov., and Rosenbergiella nectarea subsp. apis subsp. nov., isolated from floral nectar and insects. International Journal of Systematic and Evolutionary Microbiology 73: 005777. PDF
Decker LE, San Juan PA, Warren ML, Duckworth CE, Gao C, and Fukami T (2023) Higher variability in fungi compared to bacteria in the foraging honey bee gut. Microbial Ecology 85: 330-334. PDF
Hendershot JN, Echeverri A, Frishkoff LO, Zook JR, Fukami T, Daily GC (2023) Diversified farms bolster forest-bird populations despite ongoing declines in tropical forests. Proceedings of the National Academy of Sciences of the United States of America 120: e2303937120. PDF
Schaeffer RN, Crowder DW, Illán JG, Beck JJ, Fukami T, Williams NM, and Vannette RL (2023) Disease management during bloom affects the floral microbiome but not pollination in a mass-flowering crop. Journal of Applied Ecology 60: 64-76. PDF
2022
Chappell CR, Dhami MK, Bitter MC, Czech L, Herrera Paredes S, Barrie FB, Calderón Y, Eritano K, Golden L-A, Hekmat-Scafe D, Hsu V, Kieschnick C, Malladi S, Rush N, and Fukami T (2022) Wide-ranging consequences of priority effects governed by an overarching driver. eLife 11: e79647. Open access
- Papercast (audio version of the paper) narrated by Callie Chappell
Martin VN, Schaeffer RN, and Fukami T (2022) Potential effects of nectar microbes on pollinator health. Philosophical Transactions of the Royal Society B: Biological Sciences 377: 20210155. PDF
Sandin SA, Becker P, Becker C, Brown K, Erazo N, Figuerola C, Fisher RN, Friedlander AM, Fukami T, Graham NAJ, Gruner DS, Holmes ND, Holthuijzen WA, Jones HP, Rios Alcubilla M, Samaniego A, Sechrest W, Semmens BX, Thornton H, Vega Thurber R, Wails CN, Wolf C, and Zgliczynski B (2022) Harnessing island–ocean connections to maximize marine benefits of island conservation. Proceedings of the National Academy of Sciences of the United States of America 119: e2122354119. PDF
2021
Álvarez-Pérez S, Baker LJ, Morris MM, Tsuji K, Sanchez VA, Fukami T, Vannette RL, Lievens B, and Hendry TA (2021) Acinetobacter pollinis sp. nov., Acinetobacter baretiae sp. nov., and Acinetobacter rathckeae sp. nov., isolated from floral nectar and honeybees. International Journal of Systematic and Evolutionary Microbiology 71: 004783. PDF
Álvarez-Pérez S, Tsuji K, Donald ML, Van Assche A, Vannette RL, Herrera CM, Jacquemyn H, Fukami T, and Lievens B (2021) Nitrogen assimilation varies among clades of nectar- and insect-associated acinetobacters. Microbial Ecology 81: 990-1003. PDF
- Correction: The provisional species names Acinetobacter bareti, A. pollinis, and A. rathckei mentioned in this paper have been validated as A. baretiae, A. pollinis, and A. rathckeae, respectively. PDF
DeMalach N, Shnerb NM, and Fukami T (2021) Alternative states in plant communities driven by a life-history tradeoff and demographic stochasticity. American Naturalist 198: E27-E36. PDF
Jacquemyn H, Pozo MI, Álvarez-Pérez S, Lievens B, and Fukami T (2021) Yeast-nectar interactions: metacommunities and effects on pollinators. Current Opinion in Insect Science 44: 35-40. PDF
Ke P-J, Zee PC, and Fukami T (2021) Dynamic plant-soil microbe interactions: the neglected effect of soil conditioning time. New Phytologist 231: 1546-1558. PDF
Leopold DR and Fukami T (2021) Greater local diversity under older species pools may arise from enhanced competitive equivalence. Ecology Letters 24: 310-318. PDF
Leopold DR, Peay KG, Vitousek PM, and Fukami T (2021) Diversity of putative ericoid mycorrhizal fungi increases with soil age and progressive phosphorus limitation across a 4.1 million-year chronosequence. FEMS Microbiology Ecology 97: fiab016. PDF
Song C, Fukami T, and Saavedra S (2021) Untangling the complexity of priority effects in multispecies communities. Ecology Letters 24: 2301-2313. PDF
2020
Hendershot JN, Smith JR, Anderson CB, Letten AD, Frishkoff LO, Zook JR, Fukami T, and Daily GC (2020) Intensive farming drives long-term shifts in avian community composition. Nature 579: 393-396. PDF
- Cover of Nature
- Cafasso S (2020) Stanford researchers uncover benefits of diversified farms for protecting wildlife and buffering against climate change. Stanford News Link
- Hendershot NJ (2020) Long-term insights into tropical biodiversity. Blog post.
- Bates A (2020) Comments in Faculty Opinions Link
- Bryce E (2020) More diverse croplands harbor more birds. Blog post
Tsuji K and Fukami T (2020) Sexual dimorphism and species diversity: from clades to sites. Trends in Ecology & Evolution 35: 105-114. PDF
2019
Álvarez-Pérez S, Lievens B, and Fukami T (2019) Yeast–bacterium interactions: the next frontier in nectar research. Trends in Plant Science 24: 393-401. PDF
- Cover of Trends in Plant Science
- Bumann D (2019) Comments in Faculty of 1000 Link
- Goldman B (2019) Study shows why stomach pathogen is so tough to eradicate. Stanford Medicine press release Link
2018
Chappell CR and Fukami T (2018) Nectar yeasts: a natural microcosm for ecology. Yeast 35: 417-423. PDF
Dhami MK, Hartwig T, Letten AD, Banf M, and Fukami T (2018) Genomic diversity of a nectar yeast clusters into metabolically, but not geographically, distinct lineages. Molecular Ecology 27: 2067-2076. PDF
Fukami T (2018) Messy communities: the arising researcher. Bulletin of the Ecological Society of America 99: 58-59. Open access
- Accompanied by Srivastava DS (2018) Messy communities: the established researcher. Bulletin of the Ecological Society of America 99: 59-60. Open access
- Kubota T (2018) Stanford nectar research sheds light on ecological theory. Stanford News Link
- Cover of PNAS
- Shipman M (2018) Could insects help us find new yeasts for big business? NC State News Link
Toju H, Vannette RL, Gauthier MPL, Dhami MK, and Fukami T (2018) Priority effects can persist across floral generations in nectar microbial metacommunities. Oikos 127: 345-352. PDF
- Editor's Choice
- Highlighted in Project Biodiversify
- Photo gallery: Tsuji K and Fukami T (2019) Bulletin of the Ecological Society of America 100: e01461. PDF
- Kyoto University press release (2019) Plant sex matters to microorganisms. English version, Japanese version
- Singer F (2019) Girl and boy flowers support different microbe communities. Blog post
- Tsuji K (2018) Column for a popular audience in Japanese, academist Journal Link
Wilson Rankin EE, Knowlton JL, Gruner DS, Flaspohler DJ, Giardina CP, Leopold DR, Buckardt A, Pitt WC, and Fukami T (2018) Vertical foraging shifts in Hawaiian forest birds in response to invasive rat removal. PLOS ONE 13: e0202869. Open access
- Shortlisted for the 2019 Wildlife Publication Awards by The Wildlife Society Link
- McDonough MacKenzie C (2019) An ornithologist and an entomologist go into the kīpuka... Blog post
- Selected for ASN Presidential Award
- Award ceremony video, where ASN President Michael Whitlock introduces the paper
2017
Brandt AJ, Lee WG, Tanentzap AJ, Hayman E, Fukami T, and Anderson BJ (2017) Evolutionary priority effects persist in anthropogenically created habitats, but not through non-native plant invasion. New Phytologist 215: 865-876. PDF
Fukami T, Nakajima M, Fortunel C, Fine PVA, Baraloto C, Russo SE, and Peay KG (2017) Geographical variation in community divergence: insights from tropical forest monodominance by ectomycorrhizal trees. American Naturalist 190: S105-S122. PDF
Knowlton JL, Flaspohler DJ, Paxton EH, Fukami T, Giardina CP, Gruner DS, and Wilson Rankin EE (2017) Movements of four native Hawaiian birds across a naturally fragmented landscape. Journal of Avian Biology 48: 921-931. PDF
Leopold DR, Wilkie JP, Dickie IA, Allen RB, Buchanan PK, and Fukami T (2017) Priority effects are interactively regulated by top-down and bottom-up forces: evidence from wood decomposer communities. Ecology Letters 20: 1054-1063. PDF
Letten AD, Ke P-J, and Fukami T (2017) Linking modern coexistence theory and contemporary niche theory. Ecological Monographs 87: 161-177. PDF
- Selected for ESA Theoretical Ecology Section's award for the best paper in theoretical ecology
- Zhang D (2017) Comments in Faculty of 1000 Link
- Tucker CM (2016) Can coexistence theories coexist? Blog post
- Included in BES/ESA joint virtual issue, Biodiversity and Ecosystem Services
Vannette RL and Fukami T (2017) Dispersal enhances beta diversity in nectar microbes. Ecology Letters 20: 901-910. PDF
- Garvey KK (2017) Surprise result: increasing dispersal increases ecological diversity. Blog post
2016
Brandt AJ, Tanentzap AJ, Leopold DR, Heenan PB, Fukami T, and Lee WG (2016) Precipitation alters the strength of evolutionary priority effects in forest community assembly of pteridophytes and angiosperms. Journal of Ecology 104: 1673-1681. PDF
- Editor's Choice Link
Fukami T, Mordecai EA, and Ostling A (2016) A framework for priority effects. Journal of Vegetation Science 27: 655-657. PDF
Li SP, Cadotte MW, Meiners SJ, Pu Z, Fukami T, and Jiang L (2016) Convergence and divergence in a long-term old-field succession: the importance of spatial scale and species abundance. Ecology Letters 19: 1101-1109. PDF
Moeller HV, Dickie IA, Peltzer DA, and Fukami T (2016) Hierarchical neighbor effects on mycorrhizal community structure and function. Ecology and Evolution 6: 5416-5430. Open access
Sikes BA, Hawkes CV, and Fukami T (2016) Plant and root-endophyte assembly history: interactive effects on native and exotic plants. Ecology 97: 484-493. PDF
Tsuji K, Dhami MK, Cross DJR, Rice CP, Romano NH, and Fukami T (2016) Florivory and pollinator visitation: a cautionary tale. AoB PLANTS 8: plw036. Open access
Vannette RL and Fukami T (2016) Nectar microbes can reduce secondary metabolites in nectar and alter effects on nectar consumption by pollinators. Ecology 97: 1410-1419. PDF
- Garvey KK (2016) Not so sweet: why pollinators forage on toxic or bitter nectar. Blog post
Zhu K, Chiariello NR, Tobeck T, Fukami T, and Field CB (2016) Nonlinear, interacting responses to climate limit grassland production under global change. Proceedings of the National Academy of Sciences of the United States of America 113: 10589-10594. PDF
2015
Fukami T (2015) Historical contingency in community assembly: integrating niches, species pools, and priority effects. Annual Review of Ecology, Evolution, and Systematics 46: 1-23. Open access to full text
- HilleRisLambers J (2016) Comments in Faculty of 1000 Link
Moeller HV, Dickie IA, Peltzer DA, and Fukami T (2015) Mycorrhizal co-invasion and novel interactions depend on neighborhood context. Ecology 96: 2336-2347. PDF
Tanentzap AJ, Brandt AJ, Smissen RD, Heenan PB, Fukami T, and Lee WG (2015) When do plant radiations influence community assembly? The importance of historical contingency in the race for niche space. New Phytologist 207: 468-479. PDF
Zee PC and Fukami T (2015) Complex organism-environment feedbacks buffer species diversity against habitat fragmentation. Ecography 38: 370-379. PDF
2014
Belisle M, Mendenhall CD, Oviedo Brenes F, and Fukami T (2014) Temporal variation in fungal communities associated with tropical hummingbirds and nectarivorous bats. Fungal Ecology 12: 44-51. PDF
Callahan BJ, Fukami T, and Fisher DS (2014) Rapid evolution of adaptive niche construction in experimental microbial populations. Evolution 68: 3307-3316. PDF
Good AP, Gauthier M-PL, Vannette RL, and Fukami T (2014) Honey bees avoid nectar colonized by three bacterial species, but not by a yeast species, isolated from the bee gut. PLOS ONE 9: e86494. Open access
- McKelvey C (2014) Stanford researchers discover honeybees are picky pollinators. Stanford News Link
- Goggles Optional podcast interview Link
Vannette RL and Fukami T (2014) Historical contingency in species interactions: towards niche-based predictions. Ecology Letters 17: 115-124. Open access
- Hsieh CH (2014) Comments in Faculty of 1000 PDF
2013
Brownell SE, Kloser MJ, Fukami T, and Shavelson RJ (2013) Context matters: volunteer bias, small sample size, and the value of comparison groups in the assessment of research-based undergraduate introductory biology lab courses. Journal of Microbiology and Biology Education 14: 176-182. PDF
Fukami T (2013) Integrating inquiry-based teaching with faculty research. Science 339: 1536-1537. PDF
- AAAS (2013) Science prize goes to undergrad course that incorporates faculty research. Link
- Passarelli J (2013) Lab course: out of the cookbook and into the field. Stanford Teaching Commons Blog post
- Published in the special issue, Festschrift Jan Leps. For fun and inspiring reading, see the introduction to this special issue.
Kloser MJ, Brownell SE, Shavelson RJ, and Fukami T (2013) Effects of a research-based ecology lab course: a study of non-volunteer achievement, self-confidence and perception of lab course purpose. Journal of College Science Teaching 42: 90-99. PDF
McFall-Ngai M, Hadfield M, Bosch T, Carey H, Domazet-Loso T, Douglas A, Dubilier N, Eberl G, Fukami T, Gilbert S, Hentschel T, King N, Kjelleberg S, Knoll AH, Kremer N, Mazmanian S, Metcalf J, Nealson K, Pierce N, Rawls J, Reid A, Ruby E, Rumpho M, Sanders J, Tautz D, and Wernegreen J (2013) Animals in a bacterial world, an imperative for the life sciences. Proceedings of the National Academy of Sciences of the United States of America 110: 3229-3236. PDF
Nemergut DR, Schmidt SK, Fukami T, O'Neill SP, Bilinski TM, Stanish LF, Knelman JE, Darcy JL, Lynch RC, Wickey P, and Ferrenberg S (2013) Patterns and processes of microbial community assembly. Microbiology and Molecular Biology Reviews 77: 342-356. PDF
- Leeds JA (2013) Comments in Faculty of 1000 PDF
Suding KN, Harpole WS, Fukami T, Kulmatiski A, MacDougall AS, Stein C, and Van der Putten WH (2013) Consequences of plant-soil feedbacks in invasion. Journal of Ecology 101: 298-308. PDF
Van der Putten WH, Bardgett RD, Bever JD, Bezemer TM, Casper BB, Fukami T, Kardol P, Klironomos JN, Kulmatiski A, Schweitzer JA, Suding KN, Van der Voorde TFJ, and Wardle DA (2013) Plant-soil feedback: the past, the present and future challenges. Journal of Ecology 101: 265-276. PDF
Vannette RL, Gauthier M-PL, and Fukami T (2013) Nectar bacteria, but not yeast, weaken a plant-pollinator mutualism. Proceedings of the Royal Society B: Biological Sciences 280: 20122601. PDF
- Czichos J (2012) Saurer Nektar: Garung in der Blute. Wissenschaft aktuell Link
- Tucker CM (2013) The birds and the bees and the microbes. Blog post
2012
Belisle M, Peay KG, and Fukami T (2012) Flowers as islands: spatial distribution of nectar-inhabiting microfungi among plants of Mimulus aurantiacus, a hummingbird-pollinated shrub. Microbial Ecology 63: 711-718. PDF
Brownell SE, Kloser MJ, Fukami T, and Shavelson RJ (2012) Undergraduate biology lab courses: comparing the impact of traditionally-based "cookbook" and authentic research-based courses on student lab experiences. Journal of College Science Teaching 41: 36-45. PDF
- McClure M (2011) Ditch the cookbook: Stanford's biology pilot project shows benefits from nontraditional lab class. Stanford Report Link
Knope ML, Forde SE, and Fukami T (2012) Evolutionary history, immigration history, and the extent of diversification in community assembly. Frontiers in Microbiology 2: 273. Link
Knope ML, Morden CW, Funk VA, and Fukami T (2012) Area and the rapid radiation of Hawaiian Bidens (Asteraceae). Journal of Biogeography 39: 1206-1216. PDF
Lynch HB, Epps KY, Fukami T, and Vitousek PM (2012) Introduced canopy tree species effect on the soil microbial community in a montane tropical forest. Pacific Science 66: 141-150. PDF
Peay KG, Belisle M, and Fukami T (2012) Phylogenetic relatedness predicts priority effects in nectar yeast communities. Proceedings of the Royal Society B: Biological Sciences 279: 749-758. PDF
- Stachowicz JJ (2012) Comments in Faculty of 1000 PDF
2011
Fukami T and Nakajima M (2011) Community assembly: alternative stable states or alternative transient states? Ecology Letters 14: 973-984. PDF
Kloser MJ, Brownell SE, Chiariello NR, and Fukami T (2011) Integrating teaching and research in undergraduate biology laboratory education. PLOS Biology 9: e1001174. Link
Massol F, Gravel D, Mouquet N, Cadotte MW, Fukami T, and Leibold MA (2011) Linking community and ecosystem dynamics through spatial ecology. Ecology Letters 14: 313-323. PDF
2010
Fukami T, Dickie IA, Wilkie JP, Paulus BC, Park D, Roberts A, Buchanan PK, and Allen RB (2010) Assembly history dictates ecosystem functioning: evidence from wood decomposer communities. Ecology Letters 13: 675-684. PDF
- McCormack L and Smithwick E (2011) Comments in Faculty of 1000 PDF, Link
- Included in a 2014 Ecology Letters Virtual Issue
- Marsden Fund Update, March 2008 issue PDF (see p. 9-10)
- Melian CJ (2010) Community ecology: stasis, evolution or revolution? Trends in Ecology & Evolution 25: 684-685. PDF
Fukami T (2010) Correcting Darwin's other mistake. Evolution 64: 3336-3338. [Book review of Garland T Jr and Rose MR (editors) (2009) Experimental evolution: concepts, methods, and applications of selection experiments. University of California Press.] PDF
2009
Olito C and Fukami T (2009) Long-term effects of predator arrival timing on prey community succession. American Naturalist 173: 354-362. PDF
Mulder CPH, Grant-Hoffman MN, Towns DR, Bellingham PJ, Wardle DA, Durrett MS, Fukami T, and Bonner KI (2009) Direct and indirect effects of rats: does rat eradication restore ecosystem functioning of New Zealand seabird islands? Biological Invasions 11: 1671-1688. PDF
2007
Fukami T, Beaumont HJE, Zhang X-X, and Rainey PB (2007) Immigration history controls diversification in experimental adaptive radiation. Nature 446: 436-439. PDF
- Gillespie RG and Emerson BC (2007) Adaptation under a microscope. Nature 446: 386-387. PDF
- Seehausen O (2007) Chance, historical contingency and ecological determinism jointly determine the rate of adaptive radiation. Heredity 99: 361-363. PDF
- Nature podcast interview MP3 (starts at 22:48)
2006
Fukami T, Wardle DA, Bellingham PJ, Mulder CPH, Towns DR, Yeates GW, Bonner KI, Durrett MS, Grant-Hoffman MN, and Williamson WM (2006) Above- and below-ground impacts of introduced predators in seabird-dominated island ecosystems. Ecology Letters 9: 1299-1307. PDF
- Schmitz OJ (2007) Comments in Faculty of 1000 PDF
- Powell H (2007) Rats vs. rotifers in New Zealand islands. Blog post
Cadotte MW, McMahon SM, and Fukami T (editors) (2006) Conceptual ecology and invasion biology: reciprocal approaches to nature. Springer. Link
- Ehrenfeld JG (2007) The marriage of invasion ecology and ecological theory. Ecology 88: 1067-1068. PDF
2005
Fukami T, Bezemer TM, Mortimer SR, and Van der Putten WH (2005) Species divergence and trait convergence in experimental plant community assembly. Ecology Letters 8: 1283-1290. PDF
- Stokstad E (2009) On the origin of ecological structure. Science 326: 33-35. PDF (see p. 35)
- Leibold MA (2007) Comments in Faculty of 1000 PDF
Cadotte MW and Fukami T (2005) Dispersal, spatial scale, and species diversity in a hierarchically structured experimental landscape. Ecology Letters 8: 548-557. PDF
Fukami T (2005) Integrating internal and external dispersal in metacommunity assembly: preliminary theoretical analyses. Ecological Research 20: 623-631. PDF
2004
Fukami T (2004) Assembly history interacts with ecosystem size to influence species diversity. Ecology 85: 3234-3242. PDF
Fukami T (2004) Community assembly along a species pool gradient: implications for multiple-scale patterns of species diversity. Population Ecology 46: 137-147. PDF
2003
Fukami T and Morin PJ (2003) Productivity-biodiversity relationships depend on the history of community assembly. Nature 424: 423-426. PDF
2001
Fukami T, Naeem S, and Wardle DA (2001) On similarity among local communities in biodiversity experiments. Oikos 95: 340-348. PDF
Fukami T (2001) Sequence effects of disturbance on community structure. Oikos 92: 215-224. PDF