Indoor fungal composition is geographically patterned and more diverse in temperate zones than in the tropics

Amend, Anthony S.; Seifert, Keith A.; Samson, Robert A.; Bruns, Thomas D.

doi:10.1073/pnas.1000454107

Cited by 347 publications

(378 citation statements)

References 47 publications

(32 reference statements)

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“…Traditionally, researchers have used culture-based or biomarker methods to measure 10 environmental fungal exposure 41,42 . However, these methods have limited capabilities 11 for identifying the broad range of fungal taxa and cannot provide accurate α and β 12 microbial diversity measures, which might be crucial for connecting health effects and 13 environmental factors with microbial community composition 20,43,44 .…”

Section: Times Greater Than That Of Outdoor Air (P<005 Paired T-tesmentioning

confidence: 99%

Indoor Emissions as a Primary Source of Airborne Allergenic Fungal Particles in Classrooms

Yamamoto

Hospodsky

Dannemiller

et al. 2015

Environ. Sci. Technol.

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TitleIndoor emissions as a primary source of airborne allergenic fungal particles in classrooms This study quantifies the influence of ventilation and indoor emissions on concentrations 2 and particle sizes of airborne indoor allergenic fungal taxa and further examines 3 geographical variability, each of which may affect personal exposures to allergenic fungi. 4Quantitative PCR and multiplexed DNA sequencing were employed to count and identify 5 allergenic fungal aerosol particles indoors and outdoors in seven school classrooms in 6 four different countries. Quantitative diversity analysis was combined with building 7 characterization and mass balance modeling to apportion source contributions of indoor 8 allergenic airborne fungal particles. Mass balance calculations indicate that 70% of 9 indoor fungal aerosol particles and 80% of airborne allergenic fungal taxa were 10

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Section: Times Greater Than That Of Outdoor Air (P<005 Paired T-tesmentioning

confidence: 99%

Indoor Emissions as a Primary Source of Airborne Allergenic Fungal Particles in Classrooms

Yamamoto

Hospodsky

Dannemiller

et al. 2015

Environ. Sci. Technol.

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“…21 | 5973 ECOLOGY freshwater, marine, and intertidal river sediments (34 sites; MG-RAST ID: mgp1829). Using MG-RAST allowed us to choose common parameter values for sequence similarity (i.e., 97% for species level) and taxa assignment, including a maximum e-value (probability of observing an equal or better match in a database of a given size) of 10 −5 , a minimum alignment length of 50 bp, and minimum percentage sequence similarities of 95%, 97%, and 99% to the closest reference sequence in the MG-RAST's M5 rRNA database (47)(48)(49)(50)(51)(52)(53)(54). Below, we analyze the MG-RAST datasets with respect to these cutoffs and reveal no significant effect on scaling relationships.…”

Section: Locey and Lennonmentioning

confidence: 99%

Scaling laws predict global microbial diversity

Locey

Lennon

2016

Proc. Natl. Acad. Sci. U.S.A.

870

380

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Scaling laws underpin unifying theories of biodiversity and are among the most predictively powerful relationships in biology. However, scaling laws developed for plants and animals often go untested or fail to hold for microorganisms. As a result, it is unclear whether scaling laws of biodiversity will span evolutionarily distant domains of life that encompass all modes of metabolism and scales of abundance. Using a global-scale compilation of ∼35,000 sites and ∼5.6·10 6 species, including the largest ever inventory of high-throughput molecular data and one of the largest compilations of plant and animal community data, we show similar rates of scaling in commonness and rarity across microorganisms and macroscopic plants and animals. We document a universal dominance scaling law that holds across 30 orders of magnitude, an unprecedented expanse that predicts the abundance of dominant ocean bacteria. In combining this scaling law with the lognormal model of biodiversity, we predict that Earth is home to upward of 1 trillion (10 12 ) microbial species. Microbial biodiversity seems greater than ever anticipated yet predictable from the smallest to the largest microbiome.biodiversity | microbiology | macroecology | microbiome | rare biosphere T he understanding of microbial biodiversity has rapidly transformed over the past decade. High-throughput sequencing and bioinformatics have expanded the catalog of microbial taxa by orders of magnitude, whereas the unearthing of new phyla is reshaping the tree of life (1-3). At the same time, discoveries of novel forms of metabolism have provided insight into how microbes persist in virtually all aquatic, terrestrial, engineered, and host-associated ecosystems (4, 5). However, this period of discovery has uncovered few, if any, general rules for predicting microbial biodiversity at scales of abundance that characterize, for example, the ∼10 14 cells of bacteria that inhabit a single human or the ∼10 30 cells of bacteria and archaea estimated to inhabit Earth (6, 7). Such findings would aid the estimation of global species richness and reveal whether theories of biodiversity hold across all scales of abundance and whether socalled law-like patterns of biodiversity span the tree of life.A primary goal of ecology and biodiversity theory is to predict diversity, commonness, and rarity across evolutionarily distant taxa and scales of space, time, and abundance (8-10). This goal can hardly be achieved without accounting for the most abundant, widespread, and metabolically, taxonomically, and functionally diverse organisms on Earth (i.e., microorganisms). However, tests of biodiversity theory rarely include both microbial and macrobial datasets. At the same time, the study of microbial ecology has yet to uncover quantitative relationships that predict diversity, commonness, and rarity at the scale of host microbiomes and beyond. These unexplored opportunities leave the understanding of biodiversity limited to the most conspicuous species of plants and animals. This lack of synthesi...

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“…PCR and 454 sequencing of genomic DNA Approximately 10 ng DNA was used to amplify B950 bp of the gene containing the D1 and D2 variable regions of the large-subunit (28S) ribosomal DNA, using oligos containing the LRORf and LR5f primers, the 454 'A' and 'B' adaptors and a 10-bp multiplex tag as in Amend et al (2010). Negative controls were run on PCR reactions.…”

Section: Symbiodinium Genotypingmentioning

confidence: 99%

“…The resulting BLAST output was imported into MEGAN 3.9 and taxonomy was determined by 'last common ancestor' analysis (with parameters as described in Amend et al (2010)). Non-fungal sequences (mostly from corals) were removed.…”

Section: Symbiodinium Genotypingmentioning

confidence: 99%

Coral-associated marine fungi form novel lineages and heterogeneous assemblages

Amend

Barshis²,

Oliver³

2011

The ISME Journal

140

100

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Coral stress tolerance is intricately tied to the animal's association with microbial symbionts. The most well-known of these symbioses is that between corals and their dinoflagellate photobionts (Symbiodinium spp.), whose genotype indirectly affects whether a coral can survive cyclical and anthropogenic warming events. Fungi comprise a lesser-known coral symbiotic community whose taxonomy, stability and function is largely un-examined. To assess how fungal communities inside a coral host correlate with water temperature and the genotype of co-occurring Symbiodinium, we sampled Acropora hyacinthus coral colonies from adjacent natural pools with different water temperatures and Symbiodinium identities. Phylogenetic analysis of coral-associated fungal ribosomal DNA amplicons showed a high diversity of Basidiomycetes and Ascomycetes, including several clades separated from known fungal taxa by long and well-supported branches. Community similarity did not correlate with any measured variables, and total fungal community composition was highly variable among A. hyacinthus coral colonies. Colonies in the warmer pool contained more phylogenetically diverse fungal communities than the colder pool and contained statistically significant 'indicator' species. Four taxa were present in all coral colonies sampled, and may represent obligate associates. Messenger RNA sequenced from a subset of these same colonies contained an abundance of transcripts involved in metabolism of complex biological molecules. Coincidence between the taxonomic diversity found in the DNA and RNA analysis indicates a metabolically active and diverse resident marine fungal community.

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Indoor fungal composition is geographically patterned and more diverse in temperate zones than in the tropics

Cited by 347 publications

References 47 publications

Indoor Emissions as a Primary Source of Airborne Allergenic Fungal Particles in Classrooms

Indoor Emissions as a Primary Source of Airborne Allergenic Fungal Particles in Classrooms

Scaling laws predict global microbial diversity

Coral-associated marine fungi form novel lineages and heterogeneous assemblages

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