Ronald P. de Vries
Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus
Vries, Ronald P. de; Riley, Robert; Wiebenga, Ad; Aguilar-Osorio, Guillermo; Amillis, Sotiris; Akemi Uchima, Cristiane; Anderluh, Gregor; Asaollahi, Mojtaba; Askin, Marion; Barry, Kerrie; Battaglia, Evy; Bayram, Ozgur; Benocci, Tiziano; Braus-Stromeyer, Susanna A.; Caldana, Camila; C?novas, David; Cerqueira, Gustavo C.; Chen, Fusheng; Chen, Wanping; Choi, Cindy; Clum, Alicia; Corr?a dos Santos, Renato Augusto; Lima Dam?sio, Andr? Ricardo de; Diallinas, George; Emri, Tam?s; Fekete, Erz?bet; Flipphi, Michel; Freyburg, Susanne; Gallo, Antonia; Gournas, Christos; Habgood, Rob; Hainaut, Matthieu; Harispe, Maria Laura; Henrissat, Bernard; Hild?n, Kristiina S.; Hope, Ryan; Hossain, Abeer; Karabika, Eugenia; Karaffa, Levente; Karanyi, Zsolt; Krasevec, Nada; Kuo, Alan; Kusch, Harald; LaButti, Kurt; Lagendijk, Ellen L.; Lapidus, Alla; Levasseur, Anthony; Lindquist, Erika; Lipzen, Anna; Logrieco, Antonio F.; MacCabe, Andrew; M?kela, Miia R.; Malavazi, Iran; Melin, Petter; Meyer, Vera; Mielnichuk,...
Authors
Robert Riley
Ad Wiebenga
Guillermo Aguilar-Osorio
Sotiris Amillis
Cristiane Akemi Uchima
Gregor Anderluh
Mojtaba Asaollahi
Marion Askin
Kerrie Barry
Evy Battaglia
Ozgur Bayram
Tiziano Benocci
Susanna A. Braus-Stromeyer
Camila Caldana
David C�novas
Gustavo C. Cerqueira
Fusheng Chen
Wanping Chen
Cindy Choi
Alicia Clum
Renato Augusto Corr�a dos Santos
Andr� Ricardo de Lima Dam�sio
George Diallinas
Tam�s Emri
Erz�bet Fekete
Michel Flipphi
Susanne Freyburg
Antonia Gallo
Christos Gournas
Rob Habgood
Matthieu Hainaut
Maria Laura Harispe
Bernard Henrissat
Kristiina S. Hild�n
Ryan Hope
Abeer Hossain
Eugenia Karabika
Levente Karaffa
Zsolt Karanyi
Nada Krasevec
Alan Kuo
Harald Kusch
Kurt LaButti
Ellen L. Lagendijk
Alla Lapidus
Anthony Levasseur
Erika Lindquist
Anna Lipzen
Antonio F. Logrieco
Andrew MacCabe
Miia R. M�kela
Iran Malavazi
Petter Melin
Vera Meyer
Natalia Mielnichuk
M�rton Miskei
�kos P. Moln�r
Giuseppina Mul�
Chew Yee Ngan
Margarita Orejas
Erzs�bet Orosz
Jean Paul Ouedraogo
Karin M. Overkamp
Hee-Soo Park
Giancarlo Perrone
Francois Piumi
Peter J. Punt
Arthur F.J. Ram
Ana Ramon
Stefan Rauscher
Eric Record
Diego Mauricio Ria�o-Pach�n
Vincent Robert
Julian R�hrig
Roberto Ruller
Asaf Salamov
Nadhira S. Salih
Rob A. Samson
Erzs�bet S�ndor
Manuel Sanguinetti
Tabea Sch�tze
Kristina Sep?i?
Ekaterina Shelest
Gavin Sherlock
Vicky Sophianopoulou
Fabio M. Squina
Hui Sun
Antonia Susca
Richard B. Todd
Adrian Tsang
Shiela E. Unkles
Nathalie van de Wiele
Diana van Rossen-Uffink
Juliana Velasco de Castro Oliveira
Tammi C. Vesth
Jaap Visser
Jae-Hyuk Yu
Miaomiao Zhou
Mikael R. Andersen
David B. Archer
Scott E. Baker
Isabelle Benoit
Axel A. Brakhage
Gerhard H. Braus
Reinhard Fischer
Jens C. Frisvad
Gustavo H. Goldman
Jos Houbraken
Berl Oakley
Istv�n P�csi
Claudio Scazzocchio
Bernhard Seiboth
Patricia A. vanKuyk
Jennifer Wortman
Paul S. Dyer
Igor V. Grigoriev
Abstract
Background: The fungal genus Aspergillus is of critical importance to humankind. Species include those with industrial applications, important pathogens of humans, animals and crops, a source of potent carcinogenic contaminants of food, and an important genetic model. The genome sequences of eight aspergilli have already been explored to investigate aspects of fungal biology, raising questions about evolution and specialization within this genus.
Results: We have generated genome sequences for ten novel, highly diverse Aspergillus species and compared these in detail to sister and more distant genera. Comparative studies of key aspects of fungal biology, including primary and secondary metabolism, stress response, biomass degradation, and signal transduction, revealed both conservation and diversity among the species. Observed genomic differences were validated with experimental studies. This revealed several highlights, such as the potential for sex in asexual species, organic acid production genes being a key feature of black aspergilli, alternative approaches for degrading plant biomass, and indications for the genetic basis of stress response. A genome-wide phylogenetic analysis demonstrated in detail the relationship of the newly genome sequenced species with other aspergilli.
Conclusions: Many aspects of biological differences between fungal species cannot be explained by current knowledge obtained from genome sequences. The comparative genomics and experimental study, presented here, allows for the first time a genus-wide view of the biological diversity of the aspergilli and in many, but not all, cases linked genome differences to phenotype. Insights gained could be exploited for biotechnological and medical applications of fungi.
Citation
Vries, R. P. D., Riley, R., Wiebenga, A., Aguilar-Osorio, G., Amillis, S., Akemi Uchima, C., Anderluh, G., Asaollahi, M., Askin, M., Barry, K., Battaglia, E., Bayram, O., Benocci, T., Braus-Stromeyer, S. A., Caldana, C., Cánovas, D., Cerqueira, G. C., Chen, F., Chen, W., Choi, C., …Grigoriev, I. V. (2017). Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus. Genome Biology, 18, Article 28. https://doi.org/10.1186/s13059-017-1151-0
Journal Article Type | Article |
---|---|
Acceptance Date | Jan 10, 2017 |
Publication Date | Feb 14, 2017 |
Deposit Date | Feb 14, 2017 |
Publicly Available Date | Feb 14, 2017 |
Journal | Genome Biology |
Print ISSN | 1474-760X |
Electronic ISSN | 1465-6906 |
Publisher | Springer Verlag |
Peer Reviewed | Peer Reviewed |
Volume | 18 |
Article Number | 28 |
DOI | https://doi.org/10.1186/s13059-017-1151-0 |
Keywords | Genome sequencing, Comparative genomics, Fungal biology |
Public URL | https://nottingham-repository.worktribe.com/output/841268 |
Publisher URL | https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1151-0 |
Contract Date | Feb 14, 2017 |
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Publisher Licence URL
https://creativecommons.org/licenses/by/4.0/
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