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Whitaker BK, Bauer JT, Bever JD, Clay K. Negative plant-phyllosphere feedbacks in native Asteraceae hosts - a novel extension of the plant-soil feedback framework. Ecol Lett 2017; 20:1064-1073. [PMID: 28677329 DOI: 10.1111/ele.12805] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2017] [Revised: 03/20/2017] [Accepted: 06/01/2017] [Indexed: 01/20/2023]
Abstract
Over the past 25 years, the plant-soil feedback (PSF) framework has catalyzed our understanding of how belowground microbiota impact plant fitness and species coexistence. Here, we apply a novel extension of this framework to microbiota associated with aboveground tissues, termed 'plant-phyllosphere feedback (PPFs)'. In parallel greenhouse experiments, rhizosphere and phyllosphere microbiota of con- and heterospecific hosts from four species were independently manipulated. In a third experiment, we tested the combined effects of soil and phyllosphere feedback under field conditions. We found that three of four species experienced weak negative PSF whereas, in contrast, all four species experienced strong negative PPFs. Field-based feedback estimates were highly negative for all four species, though variable in magnitude. Our results suggest that phyllosphere microbiota, like rhizosphere microbiota, can potentially mediate plant species coexistence via negative feedbacks. Extension of the PSF framework to the phyllosphere is needed to more fully elucidate plant-microbiota interactions.
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Affiliation(s)
- Briana K Whitaker
- Department of Biology, Indiana University, Jordan Hall, 1001 E. 3rd St, Bloomington, IN, 47405-3700, USA
| | - Jonathan T Bauer
- Department of Biology, Indiana University, Jordan Hall, 1001 E. 3rd St, Bloomington, IN, 47405-3700, USA
| | - James D Bever
- Department of Ecology and Evolutionary Biology, University of Kansas, Higuchi Hall, 2101 Constant Ave, Lawrence, KS, 66047-7503, USA
| | - Keith Clay
- Department of Biology, Indiana University, Jordan Hall, 1001 E. 3rd St, Bloomington, IN, 47405-3700, USA
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Oono R, Rasmussen A, Lefèvre E. Distance decay relationships in foliar fungal endophytes are driven by rare taxa. Environ Microbiol 2017. [PMID: 28640496 DOI: 10.1111/1462-2920.13799] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Foliar fungal endophytes represent a diverse and species-rich plant microbiome. Their biogeography provides essential clues to their cryptic relationship with hosts and the environment in which they disperse. We present species composition, diversity, and dispersal patterns of endophytic fungi associated with needles of Pinus taeda trees across regional scales in the absence of strong environmental gradients as well as within individual trees. An empirical designation of rare and abundant taxa enlightens us on the structure of endophyte communities. We report multiple distance-decay patterns consistent with effects of dispersal limitation, largely driven by community changes in rare taxa, those taxonomic units that made up less than 0.31% of reads per sample on average. Distance-decay rates and community structure also depended on specific classes of fungi and were predominantly influenced by rare members of Dothideomycetes. Communities separated by urban areas also revealed stronger effects of distance on community similarity, confirming that host density and diversity plays an important role in symbiont biogeography, which may ultimately lead to a mosaic of functional diversity as well as rare species diversity across landscapes.
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Affiliation(s)
- Ryoko Oono
- Department of Ecology, Evolution, and Marine Biology, University of California, Santa Barbara, CA, 93106, USA
| | - Anna Rasmussen
- Department of Ecology, Evolution, and Marine Biology, University of California, Santa Barbara, CA, 93106, USA
| | - Emilie Lefèvre
- Department of Civil and Environmental Engineering, Duke University, Durham, NC, 27708, USA
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Karlsson I, Friberg H, Kolseth AK, Steinberg C, Persson P. Organic farming increases richness of fungal taxa in the wheat phyllosphere. Mol Ecol 2017; 26:3424-3436. [DOI: 10.1111/mec.14132] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2015] [Revised: 03/06/2017] [Accepted: 03/21/2017] [Indexed: 02/06/2023]
Affiliation(s)
- Ida Karlsson
- Department of Crop Production Ecology; Swedish University of Agricultural Sciences; Uppsala Sweden
- Department of Forest Mycology and Plant Pathology; Swedish University of Agricultural Sciences; Uppsala Sweden
| | - Hanna Friberg
- Department of Forest Mycology and Plant Pathology; Swedish University of Agricultural Sciences; Uppsala Sweden
| | - Anna-Karin Kolseth
- Department of Crop Production Ecology; Swedish University of Agricultural Sciences; Uppsala Sweden
| | - Christian Steinberg
- Agroécologie; AgroSup Dijon; CNRS; INRA; Université Bourgogne Franche-Comté; Dijon France
| | - Paula Persson
- Department of Crop Production Ecology; Swedish University of Agricultural Sciences; Uppsala Sweden
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David AS, Quiram GL, Sirota JI, Seabloom EW. Quantifying the associations between fungal endophytes and biocontrol-induced herbivory of invasive purple loosestrife (Lythrum salicariaL.). Mycologia 2017; 108:625-37. [DOI: 10.3852/15-207] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2015] [Accepted: 04/04/2016] [Indexed: 12/27/2022]
Affiliation(s)
- Aaron S. David
- University of Minnesota, Department of Ecology, Evolution and Behavior, 1479 Gortner Avenue, Saint Paul, Minnesota 55108
| | - Gina L. Quiram
- University of Minnesota, College of Continuing Education, 1994 Buford Ave, Saint Paul, Minnesota 55108
| | - Jennie I. Sirota
- University of Minnesota, Natural Resources, Science and Management Program, 1530 Cleveland Avenue, Saint Paul, Minnesota 55108
| | - Eric W. Seabloom
- University of Minnesota, Department of Ecology, Evolution and Behavior, 1479 Gortner Avenue, Saint Paul, Minnesota 55108
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David AS, May G, Schmidt D, Seabloom EW. Beachgrass invasion in coastal dunes is mediated by soil microbes and lack of disturbance dependence. Ecosphere 2016. [DOI: 10.1002/ecs2.1527] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023] Open
Affiliation(s)
- Aaron S. David
- Department of Ecology, Evolution, and BehaviorUniversity of Minnesota Saint Paul Minnesota 55108 USA
| | - Georgiana May
- Department of Ecology, Evolution, and BehaviorUniversity of Minnesota Saint Paul Minnesota 55108 USA
- Department of Plant BiologyUniversity of Minnesota Saint Paul Minnesota 55108 USA
| | - Derek Schmidt
- Department of Ecology, Evolution, and BehaviorUniversity of Minnesota Saint Paul Minnesota 55108 USA
| | - Eric W. Seabloom
- Department of Ecology, Evolution, and BehaviorUniversity of Minnesota Saint Paul Minnesota 55108 USA
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56
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Christian N, Sullivan C, Visser ND, Clay K. Plant Host and Geographic Location Drive Endophyte Community Composition in the Face of Perturbation. MICROBIAL ECOLOGY 2016; 72:621-632. [PMID: 27341838 DOI: 10.1007/s00248-016-0804-y] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2016] [Accepted: 06/14/2016] [Indexed: 06/06/2023]
Abstract
All plants form symbioses with endophytic fungi, which affect host plant health and function. Most endophytic fungi are horizontally transmitted, and consequently, local environment and geographic location greatly influence endophyte community composition. Growing evidence also suggests that identity of the plant host (e.g., species, genotype) can be important in shaping endophyte communities. However, little is known about how disturbances to plants affect their fungal symbiont communities. The goal of this study was to test if disturbances, from both natural and anthropogenic sources, can alter endophyte communities independent of geographic location or plant host identity. Using the plant species white snakeroot (Ageratina altissima; Asteraceae), we conducted two experiments that tested the effect of perturbation on endophyte communities. First, we examined endophyte response to leaf mining insect activity, a natural perturbation, in three replicate populations. Second, for one population, we applied fungicide to plant leaves to test endophyte community response to an anthropogenic perturbation. Using culture-based methods and Sanger sequencing of fungal isolates, we then examined abundance, diversity, and community structure of endophytic fungi in leaves subjected to perturbations by leaf mining and fungicide application. Our results show that plant host individual and geographic location are the major determinants of endophyte community composition even in the face of perturbations. Unexpectedly, we found that leaf mining did not impact endophyte communities in white snakeroot, but fungicide treatment resulted in small but significant changes in endophyte community structure. Together, our results suggest that endophyte communities are highly resistant to biotic and anthropogenic disturbances.
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Affiliation(s)
- Natalie Christian
- Evolution, Ecology and Behavior Program, Department of Biology, Indiana University, 1001 E. 3rd St., Bloomington, IN, 47405, USA.
| | - Courtney Sullivan
- Medical Sciences Program, Indiana University School of Medicine, 1001 E. 3rd St., Bloomington, IN, 47405, USA
| | - Noelle D Visser
- Evolution, Ecology and Behavior Program, Department of Biology, Indiana University, 1001 E. 3rd St., Bloomington, IN, 47405, USA
| | - Keith Clay
- Evolution, Ecology and Behavior Program, Department of Biology, Indiana University, 1001 E. 3rd St., Bloomington, IN, 47405, USA
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Johansen RB, Johnston P, Mieczkowski P, Perry GL, Robeson MS, Burns BR, Vilgalys R. A native and an invasive dune grass share similar, patchily distributed, root-associated fungal communities. FUNGAL ECOL 2016. [DOI: 10.1016/j.funeco.2016.08.003] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
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58
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David AS, Haridas S, LaButti K, Lim J, Lipzen A, Wang M, Barry K, Grigoriev IV, Spatafora JW, May G. Draft Genome Sequence of Microdochium bolleyi, a Dark Septate Fungal Endophyte of Beach Grass. GENOME ANNOUNCEMENTS 2016; 4:e00270-16. [PMID: 27125481 PMCID: PMC4850852 DOI: 10.1128/genomea.00270-16] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 03/08/2016] [Accepted: 03/08/2016] [Indexed: 01/30/2023]
Abstract
Here, we present the genome sequence of the dark septate fungal endophyte Microdochium bolleyi (Ascomycota, Sordariomycetes, Xylariales). The assembled genome size was 38.84 Mbp and consisted of 173 scaffolds and 13,177 predicted genes.
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Affiliation(s)
- Aaron S David
- Department of Ecology, Evolution and Behavior, University of Minnesota, Saint Paul, Minnesota, USA
| | - Sajeet Haridas
- U.S. Department of Energy Joint Genome Institute, Walnut Creek, California, USA
| | - Kurt LaButti
- U.S. Department of Energy Joint Genome Institute, Walnut Creek, California, USA
| | - Joanne Lim
- U.S. Department of Energy Joint Genome Institute, Walnut Creek, California, USA
| | - Anna Lipzen
- U.S. Department of Energy Joint Genome Institute, Walnut Creek, California, USA
| | - Mei Wang
- U.S. Department of Energy Joint Genome Institute, Walnut Creek, California, USA
| | - Kerrie Barry
- U.S. Department of Energy Joint Genome Institute, Walnut Creek, California, USA
| | - Igor V Grigoriev
- U.S. Department of Energy Joint Genome Institute, Walnut Creek, California, USA
| | - Joseph W Spatafora
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, Oregon, USA
| | - Georgiana May
- Department of Ecology, Evolution and Behavior, University of Minnesota, Saint Paul, Minnesota, USA Department of Plant Biology, University of Minnesota, Saint Paul, Minnesota, USA
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