Evolutionary innovations through gain and loss of genes in the ectomycorrhizal Boletales
Gang Wu
(1)
,
Shingo Miyauchi
(2)
,
Emmanuelle Morin
(2)
,
Alan Kuo
(3)
,
Elodie Drula
(4)
,
Torda Varga
(5)
,
Annegret Kohler
(2)
,
Bang Feng
(1)
,
Yang Cao
,
Anna Lipzen
(3)
,
Christopher Daum
(3)
,
Hope Hundley
(3)
,
Jasmyn Pangilinan
(3)
,
Jenifer Johnson
(3)
,
Kerrie Barry
(3)
,
Kurt Labutti
(3)
,
Vivian Ng
(3)
,
Steven Ahrendt
(3)
,
Byoungnam Min
(3)
,
In‐geol Choi
(6)
,
Hongjae Park
(7)
,
Jonathan Plett
(8)
,
Jon Magnuson
(9)
,
Joseph Spatafora
(10)
,
László Nagy
(5)
,
Bernard Henrissat
(4)
,
Igor Grigoriev
(3)
,
Zhu‐liang Yang
(1)
,
Jianping Xu
(11)
,
Francis Martin
(2)
1
KIB -
Kunming Institute of Botany [CAS]
2 IAM - Interactions Arbres-Microorganismes
3 Joint Genome Institute (JGI)
4 AFMB - Architecture et fonction des macromolécules biologiques
5 BRC - Biological Research Centre [Szeged]
6 Korea University [Seoul]
7 BIOLOGY CENTRE CAS - Biology Centre of the Czech Academy of Sciences
8 HIE - Hawkesbury Institute for the Environment [Richmond]
9 PNNL - Pacific Northwest National Laboratory
10 OSU - Oregon State University
11 Department of Biology - MacMaster University
2 IAM - Interactions Arbres-Microorganismes
3 Joint Genome Institute (JGI)
4 AFMB - Architecture et fonction des macromolécules biologiques
5 BRC - Biological Research Centre [Szeged]
6 Korea University [Seoul]
7 BIOLOGY CENTRE CAS - Biology Centre of the Czech Academy of Sciences
8 HIE - Hawkesbury Institute for the Environment [Richmond]
9 PNNL - Pacific Northwest National Laboratory
10 OSU - Oregon State University
11 Department of Biology - MacMaster University
Gang Wu
- Fonction : Auteur
- PersonId : 760838
- ORCID : 0000-0002-0076-5957
Shingo Miyauchi
- Fonction : Auteur
- PersonId : 780491
- ORCID : 0000-0002-0620-5547
Emmanuelle Morin
- Fonction : Auteur
- PersonId : 184935
- IdHAL : eamorin
- ORCID : 0000-0002-7268-972X
Alan Kuo
- Fonction : Auteur
- PersonId : 770173
- ORCID : 0000-0003-3514-3530
Elodie Drula
- Fonction : Auteur
- PersonId : 775084
- IdHAL : elodie-drula
- ORCID : 0000-0002-9168-5214
Annegret Kohler
- Fonction : Auteur
- PersonId : 741288
- IdHAL : annegret-kohler
- ORCID : 0000-0002-9575-9567
- IdRef : 161080588
Bang Feng
- Fonction : Auteur
- PersonId : 817934
- ORCID : 0000-0001-7237-2899
Yang Cao
- Fonction : Auteur
- PersonId : 782029
- ORCID : 0000-0002-1449-7244
Anna Lipzen
- Fonction : Auteur
- PersonId : 773817
- ORCID : 0000-0003-2293-9329
Kerrie Barry
- Fonction : Auteur
- PersonId : 776761
- ORCID : 0000-0002-8999-6785
Kurt Labutti
- Fonction : Auteur
- PersonId : 758166
- ORCID : 0000-0002-5838-1972
Vivian Ng
- Fonction : Auteur
- PersonId : 795637
- ORCID : 0000-0001-8941-6931
Steven Ahrendt
- Fonction : Auteur
- PersonId : 794649
- ORCID : 0000-0001-8492-4830
Jonathan Plett
- Fonction : Auteur
- PersonId : 776778
- ORCID : 0000-0003-0514-8146
- IdRef : 234402687
Jon Magnuson
- Fonction : Auteur
- PersonId : 794533
- ORCID : 0000-0001-7712-7024
László Nagy
- Fonction : Auteur
- PersonId : 804862
- ORCID : 0000-0002-4102-8566
Bernard Henrissat
- Fonction : Auteur
- PersonId : 833340
Igor Grigoriev
- Fonction : Auteur
- PersonId : 791663
- ORCID : 0000-0002-3136-8903
- IdRef : 229928536
Jianping Xu
- Fonction : Auteur
- PersonId : 776736
- ORCID : 0000-0003-2915-2780
Francis Martin
- Fonction : Auteur
- PersonId : 802015
- ORCID : 0000-0002-4737-3715
Résumé
- We aimed to identify genomic traits of transitions to ectomycorrhizal ecology within the Boletales by comparing the genomes of 21 symbiotrophic species with their saprotrophic brown-rot relatives.
- Gene duplication rate is constant along the backbone of Boletales phylogeny with large loss events in several lineages, while gene family expansion sharply increased in the late Miocene, mostly in the Boletaceae.
- Ectomycorrhizal Boletales have a reduced set of plant cell-wall-degrading enzymes (PCWDEs) compared with their brown-rot relatives. However, the various lineages retain distinct sets of PCWDEs, suggesting that, over their evolutionary history, symbiotic Boletales have become functionally diverse. A smaller PCWDE repertoire was found in Sclerodermatineae. The gene repertoire of several lignocellulose oxidoreductases (e.g. laccases) is similar in brown-rot and ectomycorrhizal species, suggesting that symbiotic Boletales are capable of mild lignocellulose decomposition. Transposable element (TE) proliferation contributed to the higher evolutionary rate of genes encoding effector-like small secreted proteins, proteases, and lipases. On the other hand, we showed that the loss of secreted CAZymes was not related to TE activity but to DNA decay.
- This study provides novel insights on our understanding of the mechanisms influencing the evolutionary diversification of symbiotic boletes.