Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay
Hayat Hage
(1)
,
Shingo Miyauchi
(1, 2)
,
Máté Virágh
(3)
,
Elodie Drula
(1, 4)
,
Byoungnam Min
(5, 6)
,
Delphine Chaduli
(1)
,
David Navarro
(1)
,
Anne Favel
(1)
,
Manon Norest
(1)
,
Laurence Lesage‐meessen
(1)
,
Balázs Bálint
(3)
,
Zsolt Merényi
(3)
,
Laura Eugenio
(7)
,
Emmanuelle Morin
(8)
,
Angel T Martínez
(7)
,
Petr Baldrian
(9)
,
Martina Štursová
(9)
,
María Jesús Martínez
(7)
,
Cenek Novotny
(9, 10)
,
Jon K Magnuson
(11)
,
Joey W Spatafora
(12)
,
Sundy Maurice
(13)
,
Jasmyn Pangilinan
(5)
,
Willian Andreopoulos
(5)
,
Kurt Labutti
(5)
,
Hope Hundley
(5)
,
Hyunsoo Na
(5)
,
Alan Kuo
(5)
,
Kerrie Barry
(5)
,
Anna Lipzen
(5)
,
Bernard Henrissat
(14)
,
Robert Riley
(5)
,
Steven Ahrendt
(5)
,
László G Nagy
(3, 15)
,
Igor V Grigoriev
(5, 6)
,
Francis Martin
(8)
,
Marie‐noëlle Rosso
(1)
1
BBF -
Biodiversité et Biotechnologie Fongiques
2 MPIPZ - Max Planck Institute for Plant Breeding Research
3 BRC - Biological Research Centre [Szeged]
4 AFMB - Architecture et fonction des macromolécules biologiques
5 US Department of Energy Joint Genome Institute
6 LBNL - Lawrence Berkeley National Laboratory [Berkeley]
7 Centro de Investigaciones Biológicas Margarita Salas
8 IAM - Interactions Arbres-Microorganismes
9 Institute of Microbiology of the ASCR, v. v. i. [Prague, Czech Republic]
10 VSB - Technical University of Ostrava [Ostrava]
11 PNNL - Pacific Northwest National Laboratory
12 Department of Botany and Plant Pathology
13 UiO - University of Oslo
14 King Abdulaziz University
15 Institute of Biology [Budapest]
2 MPIPZ - Max Planck Institute for Plant Breeding Research
3 BRC - Biological Research Centre [Szeged]
4 AFMB - Architecture et fonction des macromolécules biologiques
5 US Department of Energy Joint Genome Institute
6 LBNL - Lawrence Berkeley National Laboratory [Berkeley]
7 Centro de Investigaciones Biológicas Margarita Salas
8 IAM - Interactions Arbres-Microorganismes
9 Institute of Microbiology of the ASCR, v. v. i. [Prague, Czech Republic]
10 VSB - Technical University of Ostrava [Ostrava]
11 PNNL - Pacific Northwest National Laboratory
12 Department of Botany and Plant Pathology
13 UiO - University of Oslo
14 King Abdulaziz University
15 Institute of Biology [Budapest]
Shingo Miyauchi
- Function : relator_co_first_author
- PersonId : 780491
- ORCID : 0000-0002-0620-5547
Elodie Drula
- Function : Author
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- ORCID : 0000-0002-9168-5214
David Navarro
- Function : Author
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- ORCID : 0000-0002-3266-8270
Emmanuelle Morin
- Function : Author
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- ORCID : 0000-0002-7268-972X
Kurt Labutti
- Function : Author
- PersonId : 758166
- ORCID : 0000-0002-5838-1972
Alan Kuo
- Function : Author
- PersonId : 770173
- ORCID : 0000-0003-3514-3530
Kerrie Barry
- Function : Author
- PersonId : 776761
- ORCID : 0000-0002-8999-6785
Anna Lipzen
- Function : Author
- PersonId : 773817
- ORCID : 0000-0003-2293-9329
Steven Ahrendt
- Function : Author
- PersonId : 794649
- ORCID : 0000-0001-8492-4830
Igor V Grigoriev
- Function : Author
- PersonId : 791663
- ORCID : 0000-0002-3136-8903
- IdRef : 229928536
Francis Martin
- Function : Author
- PersonId : 802015
- ORCID : 0000-0002-4737-3715
Marie‐noëlle Rosso
Connectez-vous pour contacter l'auteur
- Function : Correspondent author
- PersonId : 775264
- ORCID : 0000-0001-8317-7220
- IdRef : 120030535
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Abstract
Because they comprise some of the most efficient wood-decayers, Polyporales fungi impact carbon cycling in forest environment. Despite continuous discoveries on the enzymatic machinery involved in wood decomposition, the vision on their evolutionary adaptation to wood decay and genome diversity remains incomplete.
We combined the genome sequence information from 50 Polyporales species, including 26 newly sequenced genomes and sought for genomic and functional adaptations to wood decay through the analysis of genome composition and transcriptome responses to different carbon sources.
The genomes of Polyporales from different phylogenetic clades showed poor conservation in macrosynteny, indicative of genome rearrangements. We observed different gene family expansion/contraction histories for plant cell wall degrading enzymes in core polyporoids and phlebioids and captured expansions for genes involved in signaling and regulation in the lineages of white rotters. Furthermore, we identified conserved cupredoxins, thaumatin-like proteins and Lytic Polysaccharide Monooxygenases with a yet uncharacterized appended module as new candidate players in wood decomposition.
Given the current need for enzymatic toolkits dedicated to the transformation of renewable carbon sources, the observed genomic diversity among Polyporales strengthens the relevance of mining Polyporales biodiversity to understand the molecular mechanisms of wood decay.
Domains
Life Sciences [q-bio]
Origin : Publication funded by an institution