Digging the New York City Skyline: Soil Fungal Communities in Green Roofs and City Parks

PLoS ONE

Volumn 8, Issue 3, 2013, Pages

  McGuire, Krista L ^a   Payne, Sara G ^a   Palmer, Matthew I ^b   Gillikin, Caitlyn M ^a   Keefe, Dominique ^a   Kim, Su Jin ^a   Gedallovich, Seren M ^a   Discenza, Julia ^a   Rangamannar, Ramya ^a   Koshner, Jennifer A ^a   Massmann, Audrey L ^a   Orazi, Giulia ^a   Essene, Adam ^c   Leff, Jonathan W ^d   Fierer, Noah ^d  

^a Barnard College of Columbia University   (United States)

^b Och Spine at New York Presbyterian Hospitals   (United States)

^c FORDHAM UNIVERSITY   (United States)

^d UNIVERSITY OF COLORADO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CALCIUM; HEAVY METAL; INTERNAL TRANSCRIBED SPACER; MAGNESIUM; PHOSPHOLIPID; POTASSIUM;

ACAULOSPORA; AMBISPORA; ARCHAEOSPORA; ARTICLE; ASCOMYCETES; BASIDIOMYCETES; CHYTRIDIOMYCETES; CLAROIDEOGLOMUS; CONTROLLED STUDY; ENTROPHOSPHORA; FATTY ACID ANALYSIS; FUNGAL COMMUNITY; FUNNELIFORMIS; GLOMEROMYCOTA; GLOMUS; MICROBIAL BIOMASS; NONHUMAN; PARAGLOMUS; PH; PLANT COMMUNITY; POLLUTION; RHIZOPHAGUS; SOIL MICROFLORA; SPECIES HABITAT; UNITED STATES; ZYGOMYCETES;

BACTERIA; CONSTRUCTION MATERIALS; DNA, INTERGENIC; ECOSYSTEM; FUNGI; HUMANS; MICROBIAL CONSORTIA; NEW YORK CITY; PLANTS; SEQUENCE ANALYSIS, DNA; SOIL; SOIL MICROBIOLOGY;

EID: 84874568157     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0058020     Document Type: Article

References (48)

1. Carter T, Jackson CR, (2007) Vegetated roofs for stormwater management at multiple spatial scales. Landscape and Urban Planning 80: 84-94.
2. Del Barrio EP, (1998) Analysis of the green roofs cooling potential in buildings. Energy and Buildings 27: 179-193.
3. Mentens J, Raes D, Hermy M, (2006) Green roofs as a tool for solving the rainwater runoff problem in the urbanized 21st century? Landscape and Urban Planning 77: 217-226.
4. Brenneisen S, (2006) Space for urban wildlife: designing green roofs as habitats in Switzerland. Urban Habitats 4: 27-33.
5. Oberndorfer E, Lundholm J, Bass B, Coffman RR, Doshi H, et al. (2007) Green roofs as urban ecosystems: Ecological structures, functions, and services. Bioscience 57: 823-833.
6. McDonald RI, Kareiva P, Formana RTT, (2008) The implications of current and future urbanization for global protected areas and biodiversity conservation. Biological Conservation 141: 1695-1703.
7. Ockinger E, Dannestam A, Smith HG, (2009) The importance of fragmentation and habitat quality of urban grasslands for butterfly diversity. Landscape and Urban Planning 93: 31-37.
8. Strohbach MW, Haase D, Kabisch N (2009) Birds and the City: Urban Biodiversity, Land Use, and Socioeconomics. Ecology and Society 14.
9. Monterusso MA, Rowe DB, Rugh CL, (2005) Establishment and persistence of Sedum spp. and native taxa for green roof applications. Hortscience 40: 391-396.
10. Villarreal EL, Bengtsson L, (2005) Response of a Sedum green-roof to individual rain events. Ecological Engineering 25: 1-7.
11. Lundholm J, MacIvor JS, MacDougall Z, Ranalli M (2010) Plant Species and Functional Group Combinations Affect Green Roof Ecosystem Functions. Plos One 5.
12. VanWoert ND, Rowe DB, Andresen JA, Rugh CL, Fernandez RT, et al. (2005) Green roof stormwater retention: Effects of roof surface, slope, and media depth. Journal of Environmental Quality 34: 1036-1044.
13. Cook-Patton SC, Bauerle TL, (2012) Potential benefits of plant diversity on vegetated roofs: a literature review. 106: 85-92.
14. Nagase A, Dunnett N, (2011) The relationship between percentage of organic matter in substrate and plant growth in extensive green roofs. Landscape and Urban Planning 103: 230-236.
15. Lennon JT, Aanderud ZT, Lehmkuhl BK, (2012) Schoolmaster DR (2012) Mapping the niche space of soil microorganisms using taxonomy and traits. 93: 1867-1879.
16. Fierer N, Lennon JT, (2011) The generation and maintenance of diversity in microbial communities. 98: 439-448.
17. Green JL, Holmes AJ, Westoby M, Oliver I, Briscoe D, et al. (2004) Spatial scaling of microbial eukaryote diversity. Nature 432: 747-750.
18. Hallenberg N, Kuffer N, (2001) Long-distance spore dispersal in wood-inhabiting Basidiomycetes. Nordic Journal of Botany 21: 431-436.
19. Bowers RM, Sullivan AP, Costello EK, Collett JL, Knight R, et al. (2011) Sources of Bacteria in Outdoor Air across Cities in the Midwestern United States. Applied and Environmental Microbiology 77: 6350-6356.
20. Dickie IA, Fukami T, Wilkie JP, Allen RB, Buchanan PK, (2012) Do assembly history effects attenuate from species to ecosystem properties? A field test with wood-inhabiting fungi. Ecology Letters 15: 133-141.
21. Fukami T, Dickie IA, Wilkie JP, Paulus BC, Park D, et al. (2010) Assembly history dictates ecosystem functioning: evidence from wood decomposer communities. Ecology Letters 13: 675-684.
22. Kennedy PG, Peay KG, Bruns TD, (2009) Root tip competition among ectomycorrhizal fungi: Are priority effects a rule or an exception? Ecology 90: 2098-2107.
23. Peay KG, Belisle M, Fukami T, (2012) Phylogenetic relatedness predicts priority effects in nectar yeast communities. Proceedings of the Royal Society B-Biological Sciences 279: 749-758.
24. Stalter R, Lamont EE, (1987) Vegetation of Hempstead Plains, Mitchell Field, Long Island, New York. Bulletin of the Torrey Botanical Club 114: 330-335.
25. Reschke C (1990) Ecological communities of New York State; Program NYNH, editor. Latham, NY: New York State Department of Environmental Conservation. 96 p.
26. Frostegard A, Tunlid A, Baath E, (1991) Microbial biomass measured as total lipid phosphate in soils of different organic content. Journal of Microbiological Methods 14: 151-163.
27. Frostegard A, Baath E, (1996) The use of phospholipid fatty acid analysis to estimate bacterial and fungal biomass in soil. Biology and Fertility of Soils 22: 59-65.
28. Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Huntley J, et al. (2012) Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. Isme Journal 6: 1621-1624.
29. Lauber CL, Hamady M, Knight R, Fierer N, (2009) Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale. Applied and Environmental Microbiology 75: 5111-5120.
30. Gardes M, Bruns TD, (1993) ITS primers with enhanced specificity for basidiomycetes- application to the identification of mycorrhizae and rusts. Molecular Ecology 2: 113-118.
31. Bellemain E, Carlsen T, Brochmann C, Coissac E, Taberlet P, et al. (2010) ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases. Bmc Microbiology 10: 9.
32. Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, et al. (2010) QIIME allows analysis of high-throughput community sequencing data. Nature Methods 7: 335-336.
33. Edgar RC, (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460-2461.
34. Altschul SF, Madden TL, Schaffer AA, Zhang JH, Zhang Z, et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research 25: 3389-3402.
35. Kaltseis J, Rainer J, De Hoog GS, (2009) Ecology of Pseudallescheria and Scedosporium species in human-dominated and natural environments and their distribution in clinical samples. Medical Mycology 47: 398-405.
36. April TM, Abbott SP, Foght JM, Currah RS, (1998) Degradation of hydrocarbons in crude oil by the ascomycete Pseudallescheria boydii (Microascaceae). Canadian Journal of Microbiology 44: 270-278.
37. Li HY, Li DW, He CM, Zhou ZP, Mei T, et al. (2012) Diversity and heavy metal tolerance of endophytic fungi from six dominant plant species in a Pb-Zn mine wasteland in China. Fungal Ecology 5: 309-315.
38. Chillrud SN, Bopp RF, Simpson HJ, Ross JM, Shuster EL, et al. (1999) Twentieth century atmospheric metal fluxes into Central Park Lake, New York City. Environmental Science & Technology 33: 657-662.
39. Gadd GM, (2010) Metals, minerals and microbes: geomicrobiology and bioremediation. Microbiology-Sgm 156: 609-643.
40. Kruger M, Kruger C, Walker C, Stockinger H, Schussler A, (2012) Phylogenetic reference data for systematics and phylotaxonomy of arbuscular mycorrhizal fungi from phylum to species level. New Phytologist 193: 970-984.
41. Baas-Becking L (1934) Geobiologie of Inleiding Tot de Milieukunde. The Hague: Van Stockkum & Zoon.
42. Fierer N (2008) Microbial biogeography: patterns in microbial diversity across space and time. ASM Press. 95-115.
43. De Deyn GB, Van der Putten WH, (2005) Linking aboveground and belowground diversity. Trends in Ecology & Evolution 20: 625-633.
44. Beijerinck M (1913) De Infusies en de Ontdekking der Backter ien, Jaarboek van de Koninklijke Akademie v. Wetenschappen. (Muller, Amsterdam).
45. Martiny JBH, Bohannan BJM, Brown JH, Colwell RK, Fuhrman JA, et al. (2006) Microbial biogeography: putting microorganisms on the map. Nature Reviews Microbiology 4: 102-112.
46. Peay KG, Garbelotto M, Bruns TD, (2010) Evidence of dispersal limitation in soil microorganisms: Isolation reduces species richness on mycorrhizal tree islands. Ecology 91: 3631-3640.
47. Lau JA, Lennon JT, (2012) Rapid responses of soil microorganisms improve plant fitness in novel environments. 109: 14058-14062.
48. Bever JD, Platt TG, Morton ER, (2012) Microbial population and community dynamics on plant roots and their feedbacks on plant communities. Annual Review of Microbiology 66: 265-283.