Diversity, identity and ecological role of a novel fungal super clade

Lead Research Organisation: University of Exeter
Department Name: Biosciences

Abstract

A large proportion of the diversity of life is microbial. Microbes are important components of every ecosystem and natural environment on Earth, yet our understanding of microbial diversity and ecological roles is still in its infancy. In the last 15 years, molecular methods have been used which target the DNA of all microbes present in a particular environment. These methods enable the capture of sub-sections of each microbial genome for use as an identifying code. We can then use these fragments of DNA code to identify most of the organisms present in any environment. This approach has massively expanded our appreciation of the diversity of life on Earth. Such approaches have revealed a diverse and mysterious group of organisms present in a range of aquatic environments that appear to be entirely novel and previously uninvestigated. Analyses suggest that one such diverse group could be related to the Fungi. The Fungi include the well-known mushrooms and yeasts but also a massive range of microbes responsible for recycling biomass in many ecosystems. Given the diversity and extensive distribution of this microbial group in aquatic environments around the globe it is likely that the group represents an important part of the microbial community. In addition, this group has a very novel position in the tree of life with respect to known fungal microbes. Therefore a greater appreciation of their biology will provide important data for understanding the evolutionary diversification of the fungal kingdom and their close relatives the animals. We plan to use specific probes with fluorescence to identify, describe and investigate the ecological role of this novel group from a range of environmental samples. This approach will enable us to observe the nature of these microbial cells and their abundance and role within different habitat types.

Publications

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Kim E (2011) Newly identified and diverse plastid-bearing branch on the eukaryotic tree of life. in Proceedings of the National Academy of Sciences of the United States of America

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Logares R (2014) Patterns of rare and abundant marine microbial eukaryotes. in Current biology : CB

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Poggeler, Stefanie; Wostemeyer, Johannes (2011) Evolution of Fungi and Fungal-Like Organisms

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Richards T (2012) Marine Fungi: Their Ecology and Molecular Diversity in Annual Review of Marine Science

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Richards TA (2016) A role for fungi as parasites in the black box of marine trophic interactions. in Environmental microbiology reports

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Richards TA (2017) What Defines the "Kingdom" Fungi? in Microbiology spectrum

 
Description Our work completed all aims of the grant. Using environmental DNA methods we have identified and characterised a wide diversity of microbes that branch with or next to the fungi of the tree of life.
Exploitation Route Has inspired efforts to culture and sequence the genomes of representatives of this group and other uncultured microbial groups that are major players in the environment.
Sectors Education,Environment

URL http://www.bbc.co.uk/news/science-environment-13363932
 
Description This work led to the re-evaluation of our understanding of eukaryotic diversity and the evolutionary relationships of the fungi. This gained a lot of media attention for example I took part in Radio Interviews for BBC radio 4 Material world and National Public Radio USA.
First Year Of Impact 2011
Sector Education,Environment
Impact Types Cultural

 
Description Biodiversity of Marine EuKaryotes (BioMarKs)
Amount £218,197 (GBP)
Organisation European Commission 
Sector Public
Country European Union (EU)
Start 01/2010 
End 06/2014
 
Description Community Sequencing Project: Revealing the ecological function of uncultured fungal dark matter in freshwater ecosystems using single cell genomics
Amount $1 (USD)
Funding ID
Organisation U.S. Department of Energy 
Sector Public
Country United States
Start 10/2014 
End 10/2018
 
Description Elucidating How Specialized Proteins Help Marine Microbes Extract Nutrients From Seawater
Amount $965,284 (USD)
Funding ID GBMF5514 
Organisation Gordon and Betty Moore Foundation 
Sector Charity/Non Profit
Country United States
Start 03/2017 
End 03/2020
 
Description Life on the dark side: complex trophic interactions of marine microbial eukaryotes
Amount £251,912 (GBP)
Organisation Gordon and Betty Moore Foundation 
Sector Charity/Non Profit
Country United States
Start 01/2013 
End 12/2016
 
Description Newton International Fellowships 2017
Amount £99,000 (GBP)
Funding ID NF170346 
Organisation The Royal Society 
Sector Charity/Non Profit
Country United Kingdom
Start 02/2018 
End 02/2020
 
Description Significant or trivial: Fungi in Polar ecosystems (F-POLE) Marie Curie Fellowship
Amount € 183,455 (EUR)
Funding ID 657141 
Organisation Marie Sklodowska-Curie Actions 
Sector Charity/Non Profit
Country Global
Start 09/2016 
End 09/2018
 
Description 2017 Sir Julian Huxley Lecture 'Fungi in the ocean deep' 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact 2017 Sir Julian Huxley Lecture 'Fungi in the ocean deep' (public lecture in Burlington House central London), The Systematics Association, Linnean Society, London. The lecture was recorded for You Tube
Year(s) Of Engagement Activity 2017
URL https://www.youtube.com/watch?v=mN56C0Tb5to
 
Description Interviewed for National Public Radio, USA 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? Yes
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Following publication of Jones et al. 2011* in Nature. I was interviewed for National Public Radio, USA discussing our work on the discovery and description of a highly diverse and deep-branching group of aquatic fungi.
Year(s) Of Engagement Activity 2011
 
Description Material World Radio 4 interview 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? Yes
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Following publication of Jones et al. 2011* in Nature. I was interviewed for BBC Radio 4 science program Material World discussing our work on the discovery and description of a highly diverse and deep-branching group of aquatic fungi.



Jones, M.D.M., Forn, I., Gadelha, C., Bass, D., Massana, R., & Richards, T.A.* Discovery of novel intermediate forms redefines the fungal tree of life. Nature. 2011; 474(7350): 200-203.

Following publication of Jones et al. 2011* in Nature. I was interviewed for BBC Radio 4 science program Material World discussing our work on the discovery and description of a highly diverse and deep-branching group of aquatic fungi.



Jones, M.D.M., F
Year(s) Of Engagement Activity 2010
 
Description Nature Podcast on Novel Fungi 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? Yes
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Following publication of Jones et al. 2011* in Nature. I was interviewed for the Nature Podcast discussing our work on the discovery and description of a highly diverse and deep-branching group of aquatic fungi.



Jones, M.D.M., Forn, I., Gadelha, C., Bass, D., Massana, R., & Richards, T.A.* Discovery of novel intermediate forms redefines the fungal tree of life. Nature. 2011; 474(7350): 200-203.

Following publication of Jones et al. 2011* in Nature. I was interviewed for the Nature Podcast discussing our work on the discovery and description of a highly diverse and deep-branching group of aquatic fungi.



Jones, M.D.M., Forn, I., Gadelha, C., Ba
Year(s) Of Engagement Activity 2011