Screening for rapidly evolving genes in the ectomycorrhizal fungus Paxillus involutus using cDNA microarrays
(2006) In Molecular Ecology 15(2). p.535-550- Abstract
- We have examined the variations in gene content and sequence divergence that could be associated with symbiotic adaptations in the ectomycorrhizal fungus Paxillus involutus and the closely related species Paxillus filamentosus. Strains with various abilities to form mycorrhizae were analysed by comparative genomic hybridizations using a cDNA microarray containing 1076 putative unique genes of P. involutus. To screen for genes diverging at an enhanced and presumably non-neutral rate, we implemented a simple rate test using information from both the variations in hybridizations signal and data on sequence divergence of the arrayed genes relative to the genome of Coprinus cinereus. C. cinereus is a free-living saprophyte and is the closest... (More)
- We have examined the variations in gene content and sequence divergence that could be associated with symbiotic adaptations in the ectomycorrhizal fungus Paxillus involutus and the closely related species Paxillus filamentosus. Strains with various abilities to form mycorrhizae were analysed by comparative genomic hybridizations using a cDNA microarray containing 1076 putative unique genes of P. involutus. To screen for genes diverging at an enhanced and presumably non-neutral rate, we implemented a simple rate test using information from both the variations in hybridizations signal and data on sequence divergence of the arrayed genes relative to the genome of Coprinus cinereus. C. cinereus is a free-living saprophyte and is the closest evolutionary relative to P. involutus that has been fully sequenced. Approximately 17% of the genes investigated were detected as rapidly diverging within Paxillus. Furthermore, 6% of the genes varied in copy numbers between the analysed strains. Genome rearrangements associated with this variation including duplications and deletions may also play a role in adaptive evolution. The cohort of divergent and duplicated genes showed an over-representation of either orphans, genes whose products are located at membranes, or genes encoding for components of stress/defence reactions. Some of the identified genomic changes may be associated with the variation in host specificity of ectomycorrhizal fungi. The proposed procedure could be generally applicable to screen for rapidly evolving genes in closely related strains or species where at least one has been sequenced or characterized by expressed sequence tag analysis. (Less)
Please use this url to cite or link to this publication:
https://lup.lub.lu.se/record/155469
- author
- Le Quéré, Antoine LU ; Eriksen, Kasper LU ; Rajashekar, Balaji LU ; Schutzendubel, Andres LU ; Canbäck, Björn LU ; Johansson, Tomas LU and Tunlid, Anders LU
- organization
- publishing date
- 2006
- type
- Contribution to journal
- publication status
- published
- subject
- in
- Molecular Ecology
- volume
- 15
- issue
- 2
- pages
- 535 - 550
- publisher
- Wiley-Blackwell
- external identifiers
-
- wos:000235045500019
- pmid:16448419
- scopus:33645061798
- ISSN
- 0962-1083
- DOI
- 10.1111/j.1365-294X.2005.02796.x
- language
- English
- LU publication?
- yes
- additional info
- The information about affiliations in this record was updated in December 2015. The record was previously connected to the following departments: Computational biology and biological physics (000006113), MEMEG (432112240), Microbial Ecology (Closed 2011) (011008001)
- id
- 0040aefb-4f29-4eb4-b225-8ba289b63772 (old id 155469)
- date added to LUP
- 2016-04-01 11:45:35
- date last changed
- 2023-01-02 23:02:26
@article{0040aefb-4f29-4eb4-b225-8ba289b63772,
abstract = {{We have examined the variations in gene content and sequence divergence that could be associated with symbiotic adaptations in the ectomycorrhizal fungus Paxillus involutus and the closely related species Paxillus filamentosus. Strains with various abilities to form mycorrhizae were analysed by comparative genomic hybridizations using a cDNA microarray containing 1076 putative unique genes of P. involutus. To screen for genes diverging at an enhanced and presumably non-neutral rate, we implemented a simple rate test using information from both the variations in hybridizations signal and data on sequence divergence of the arrayed genes relative to the genome of Coprinus cinereus. C. cinereus is a free-living saprophyte and is the closest evolutionary relative to P. involutus that has been fully sequenced. Approximately 17% of the genes investigated were detected as rapidly diverging within Paxillus. Furthermore, 6% of the genes varied in copy numbers between the analysed strains. Genome rearrangements associated with this variation including duplications and deletions may also play a role in adaptive evolution. The cohort of divergent and duplicated genes showed an over-representation of either orphans, genes whose products are located at membranes, or genes encoding for components of stress/defence reactions. Some of the identified genomic changes may be associated with the variation in host specificity of ectomycorrhizal fungi. The proposed procedure could be generally applicable to screen for rapidly evolving genes in closely related strains or species where at least one has been sequenced or characterized by expressed sequence tag analysis.}},
author = {{Le Quéré, Antoine and Eriksen, Kasper and Rajashekar, Balaji and Schutzendubel, Andres and Canbäck, Björn and Johansson, Tomas and Tunlid, Anders}},
issn = {{0962-1083}},
language = {{eng}},
number = {{2}},
pages = {{535--550}},
publisher = {{Wiley-Blackwell}},
series = {{Molecular Ecology}},
title = {{Screening for rapidly evolving genes in the ectomycorrhizal fungus Paxillus involutus using cDNA microarrays}},
url = {{http://dx.doi.org/10.1111/j.1365-294X.2005.02796.x}},
doi = {{10.1111/j.1365-294X.2005.02796.x}},
volume = {{15}},
year = {{2006}},
}