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Xenomic networks variability and adaptation traits in wood decaying fungi.

Morel M, Meux E, Mathieu Y, Thuillier A, Chibani K, Harvengt L, Jacquot JP, Gelhaye E - Microb Biotechnol (2013)

Bottom Line: Taking advantage of the recent release of numerous genomes of basidiomycetes, we show here that these multigenic families are extended and functionally related in wood-decaying fungi.Furthermore, we postulate that these rapidly evolving multigenic families could reflect the adaptation of these fungi to the diversity of their substrate and provide keys to understand their ecology.This is of particular importance for white biotechnology, this xenome being a putative target for improving degradation properties of these fungi in biomass valorization purposes.

View Article: PubMed Central - PubMed

Affiliation: Université de Lorraine, IAM, UMR 1136, IFR 110 EFABA, Vandoeuvre-lès-Nancy, F-54506, France. mmorel@scbiol.uhp-nancy.fr

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GSTome expansion in Agaricomycotina. A. Relative GSTome size of fungal species belonging to various phyla. The ratio between number of GST and number of gene models is reported. B. Relationship between GST and CytP450 copy numbers in the JGI available fungal genomes. Wood degraders exhibit the highest numbers of GST and CytP450 isoforms. Species names and data are given in supplemental Table S2.
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fig04: GSTome expansion in Agaricomycotina. A. Relative GSTome size of fungal species belonging to various phyla. The ratio between number of GST and number of gene models is reported. B. Relationship between GST and CytP450 copy numbers in the JGI available fungal genomes. Wood degraders exhibit the highest numbers of GST and CytP450 isoforms. Species names and data are given in supplemental Table S2.

Mentions: Considering fungi from various phyla, a significant expansion of the total number of GST has been highlighted in Agaricomycotina (Fig. 4A and supplemental Table S2). This CNV is independent of the global number of gene models. This result can be correlated with a previous study performed on the CytP450 family (Cresnar and Petric, 2011). These authors showed that predominantly yeast-form fungi such as Saccharomycotina have a small P450ome, while mycorrhizal relationships and complex nutrient degradation mainly performed by Agaricomycotina seem to enhance the P450ome size. Based on this observation and the data obtained from the Fungal Cytochrome P450 database (http://p450.riceblast.snu.ac.kr/species.php), a direct correlation between P450ome and GSTome contents can be observed suggesting a close link between phase I and phase II detoxification processes (Fig. 4B). However, this correlation with CytP450 does not exist when considering the GST classes individually. This suggests that compensatory effects between GST gene copy numbers could exist to relay the first detoxification step. Both protein families are largely expanded in wood-interacting fungi. For instance, the symbiotic Laccaria bicolor exhibits a weak ability to degrade recalcitrant organic matter in correlation with relatively restricted xenomic content. In contrast, Paxillus involutus, another symbiotic basidiomycete, possesses an extracellular oxidative system (Rineau et al., 2012) and also an expanded xenome. The most expanded xenomes are found in fungi interacting with wood as the necrotrophic Heterobasidion annosum and of course the white and brown-rot fungi.


Xenomic networks variability and adaptation traits in wood decaying fungi.

Morel M, Meux E, Mathieu Y, Thuillier A, Chibani K, Harvengt L, Jacquot JP, Gelhaye E - Microb Biotechnol (2013)

GSTome expansion in Agaricomycotina. A. Relative GSTome size of fungal species belonging to various phyla. The ratio between number of GST and number of gene models is reported. B. Relationship between GST and CytP450 copy numbers in the JGI available fungal genomes. Wood degraders exhibit the highest numbers of GST and CytP450 isoforms. Species names and data are given in supplemental Table S2.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3815920&req=5

fig04: GSTome expansion in Agaricomycotina. A. Relative GSTome size of fungal species belonging to various phyla. The ratio between number of GST and number of gene models is reported. B. Relationship between GST and CytP450 copy numbers in the JGI available fungal genomes. Wood degraders exhibit the highest numbers of GST and CytP450 isoforms. Species names and data are given in supplemental Table S2.
Mentions: Considering fungi from various phyla, a significant expansion of the total number of GST has been highlighted in Agaricomycotina (Fig. 4A and supplemental Table S2). This CNV is independent of the global number of gene models. This result can be correlated with a previous study performed on the CytP450 family (Cresnar and Petric, 2011). These authors showed that predominantly yeast-form fungi such as Saccharomycotina have a small P450ome, while mycorrhizal relationships and complex nutrient degradation mainly performed by Agaricomycotina seem to enhance the P450ome size. Based on this observation and the data obtained from the Fungal Cytochrome P450 database (http://p450.riceblast.snu.ac.kr/species.php), a direct correlation between P450ome and GSTome contents can be observed suggesting a close link between phase I and phase II detoxification processes (Fig. 4B). However, this correlation with CytP450 does not exist when considering the GST classes individually. This suggests that compensatory effects between GST gene copy numbers could exist to relay the first detoxification step. Both protein families are largely expanded in wood-interacting fungi. For instance, the symbiotic Laccaria bicolor exhibits a weak ability to degrade recalcitrant organic matter in correlation with relatively restricted xenomic content. In contrast, Paxillus involutus, another symbiotic basidiomycete, possesses an extracellular oxidative system (Rineau et al., 2012) and also an expanded xenome. The most expanded xenomes are found in fungi interacting with wood as the necrotrophic Heterobasidion annosum and of course the white and brown-rot fungi.

Bottom Line: Taking advantage of the recent release of numerous genomes of basidiomycetes, we show here that these multigenic families are extended and functionally related in wood-decaying fungi.Furthermore, we postulate that these rapidly evolving multigenic families could reflect the adaptation of these fungi to the diversity of their substrate and provide keys to understand their ecology.This is of particular importance for white biotechnology, this xenome being a putative target for improving degradation properties of these fungi in biomass valorization purposes.

View Article: PubMed Central - PubMed

Affiliation: Université de Lorraine, IAM, UMR 1136, IFR 110 EFABA, Vandoeuvre-lès-Nancy, F-54506, France. mmorel@scbiol.uhp-nancy.fr

Show MeSH
Related in: MedlinePlus