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Rush TA, Puech-Pagès V, Bascaules A, Jargeat P, Maillet F, Haouy A, Maës AQ, Carriel CC, Khokhani D, Keller-Pearson M, Tannous J, Cope KR, Garcia K, Maeda J, Johnson C, Kleven B, Choudhury QJ, Labbé J, Swift C, O'Malley MA, Bok JW, Cottaz S, Fort S, Poinsot V, Sussman MR, Lefort C, Nett J, Keller NP, Bécard G, Ané JM. Lipo-chitooligosaccharides as regulatory signals of fungal growth and development. Nat Commun 2020; 11:3897. [PMID: 32753587 PMCID: PMC7403392 DOI: 10.1038/s41467-020-17615-5] [Citation(s) in RCA: 44] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2019] [Accepted: 07/09/2020] [Indexed: 12/18/2022] Open
Abstract
Lipo-chitooligosaccharides (LCOs) are signaling molecules produced by rhizobial bacteria that trigger the nodulation process in legumes, and by some fungi that also establish symbiotic relationships with plants, notably the arbuscular and ecto mycorrhizal fungi. Here, we show that many other fungi also produce LCOs. We tested 59 species representing most fungal phyla, and found that 53 species produce LCOs that can be detected by functional assays and/or by mass spectroscopy. LCO treatment affects spore germination, branching of hyphae, pseudohyphal growth, and transcription in non-symbiotic fungi from the Ascomycete and Basidiomycete phyla. Our findings suggest that LCO production is common among fungi, and LCOs may function as signals regulating fungal growth and development.
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Affiliation(s)
- Tomás Allen Rush
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Bioscience Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA
| | - Virginie Puech-Pagès
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, Castanet-Tolosan, France
| | - Adeline Bascaules
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, Castanet-Tolosan, France
| | - Patricia Jargeat
- Laboratoire Évolution et Diversité Biologique, Université de Toulouse, CNRS, UPS, IRD, Toulouse, France
| | - Fabienne Maillet
- Laboratoire des Interactions Plantes-Microorganismes, Université de Toulouse, INRAE, CNRS, Castanet-Tolosan, France
| | - Alexandra Haouy
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, Castanet-Tolosan, France
| | - Arthur QuyManh Maës
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, Castanet-Tolosan, France
| | - Cristobal Carrera Carriel
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Devanshi Khokhani
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Michelle Keller-Pearson
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Joanna Tannous
- Department of Medical Microbiology and Immunology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Bioscience Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA
| | - Kevin R Cope
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA
- South Dakota State University, Brookings, SD, 57007, USA
| | - Kevin Garcia
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA
- North Carolina State University, Raleigh, NC, 27695, USA
| | - Junko Maeda
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Chad Johnson
- Department of Medicine, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Bailey Kleven
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Quanita J Choudhury
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA
- Department of Microbiology, University of Tennessee, Knoxville, TN, 37996, USA
- University of Georgia, Athens, GA, 30602, USA
| | - Jessy Labbé
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA
| | - Candice Swift
- Department of Chemical Engineering, University of California, Santa Barbara, CA, 93106, USA
| | - Michelle A O'Malley
- Department of Chemical Engineering, University of California, Santa Barbara, CA, 93106, USA
| | - Jin Woo Bok
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Medical Microbiology and Immunology, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Sylvain Cottaz
- Univ. Grenoble Alpes, CNRS, CERMAV, 38000, Grenoble, France
| | - Sébastien Fort
- Univ. Grenoble Alpes, CNRS, CERMAV, 38000, Grenoble, France
| | - Verena Poinsot
- Laboratoire des Interactions Moléculaires et Réactivités Chimiques et Photochimiques, Université de Toulouse, CNRS, UPS, Toulouse, France
| | - Michael R Sussman
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Corinne Lefort
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, Castanet-Tolosan, France
| | - Jeniel Nett
- Department of Medical Microbiology and Immunology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Medicine, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Nancy P Keller
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA
- Department of Medical Microbiology and Immunology, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Guillaume Bécard
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, Castanet-Tolosan, France.
| | - Jean-Michel Ané
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA.
- Department of Agronomy, University of Wisconsin-Madison, Madison, WI, 53706, USA.
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Formey D, Molès M, Haouy A, Savelli B, Bouchez O, Bécard G, Roux C. Comparative analysis of mitochondrial genomes of Rhizophagus irregularis - syn. Glomus irregulare - reveals a polymorphism induced by variability generating elements. New Phytol 2012; 196:1217-1227. [PMID: 22967288 DOI: 10.1111/j.1469-8137.2012.04283.x] [Citation(s) in RCA: 41] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2012] [Accepted: 07/16/2012] [Indexed: 06/01/2023]
Abstract
Arbuscular mycorrhizal (AM) fungi are involved in one of the most widespread plant-fungus interactions. A number of studies on the population dynamics of AM fungi have used mitochondrial (mt) DNA sequences, and yet mt AM fungus genomes are poorly known. To date, four mt genomes of three species of AM fungi are available, among which are two from Rhizophagus irregularis. In order to study intra- and interstrain mt genome variability of R. irregularis, we sequenced and de novo assembled four additional mt genomes of this species. We used 454 pyrosequencing and Illumina technologies to directly sequence mt genomes from total genomic DNA. The mt genomes are unique within each strain. Interstrain divergences in genome size, as a result of highly polymorphic intergenic and intronic sequences, were observed. The polymorphism is brought about by three types of variability generating element (VGE): homing endonucleases, DNA polymerase domain-containing open reading frames and small inverted repeats. Based on VGE positioning, mt sequences and nuclear markers, two subclades of R. irregularis were characterized. The discovery of VGEs highlights the great intraspecific plasticity of the R. irregularis mt genome. VGEs allow the design of powerful mt markers for the typing and monitoring of R. irregularis strains in genetic and population studies.
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Affiliation(s)
- Damien Formey
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, UPS, UMR5546, BP42617, F-31326, Castanet-Tolosan Cedex, France
- CNRS, UMR5546, BP 42617, F-31326, Castanet-Tolosan Cedex, France
- Agro-Nutrition, Parc Activestre, 3 avenue de l'orchidée, F-31390, Carbonne, France
| | - Marion Molès
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, UPS, UMR5546, BP42617, F-31326, Castanet-Tolosan Cedex, France
- CNRS, UMR5546, BP 42617, F-31326, Castanet-Tolosan Cedex, France
| | - Alexandra Haouy
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, UPS, UMR5546, BP42617, F-31326, Castanet-Tolosan Cedex, France
- CNRS, UMR5546, BP 42617, F-31326, Castanet-Tolosan Cedex, France
| | - Bruno Savelli
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, UPS, UMR5546, BP42617, F-31326, Castanet-Tolosan Cedex, France
- CNRS, UMR5546, BP 42617, F-31326, Castanet-Tolosan Cedex, France
| | - Olivier Bouchez
- Plateforme Génomique, Campus INRA Chemin de Borde-Rouge, F-31326, Castanet-Tolosan Cedex, France
| | - Guillaume Bécard
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, UPS, UMR5546, BP42617, F-31326, Castanet-Tolosan Cedex, France
- CNRS, UMR5546, BP 42617, F-31326, Castanet-Tolosan Cedex, France
| | - Christophe Roux
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, UPS, UMR5546, BP42617, F-31326, Castanet-Tolosan Cedex, France
- CNRS, UMR5546, BP 42617, F-31326, Castanet-Tolosan Cedex, France
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