Hydrophobins Sc3 and Sc4 gene expression in mounds, fruiting bodies and vegetative hyphae of Schizophyllum commune

Banerjee, Goutami; Robertson, Deborah L.; Leonard, Tom

doi:10.1016/j.fgb.2007.10.018

Cited by 9 publications

(4 citation statements)

References 31 publications

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“…231 ampla. Of the fungal cell wall (FCW) associated genes, hydrophobins were mostly 232 developmentally regulated (8 out of 11 genes) in A. ampla ( Supplementary Figure 2), often with 233 significantly increased expression coincident with the transition from vegetative mycelium to 234 stage 1 primordia (in six genes), as observed previously 1,42,[45][46][47] . Several members of two 235 functionally similar families, cerato-platanins (4 of 5 genes dev.…”

Section: Introductionsupporting

confidence: 66%

The genome ofAuriculariopsis amplasheds light on fruiting body development and wood-decay of bark-inhabiting fungi

Almási

Sahu

Krizsán

et al. 2019

Preprint

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26The Agaricomycetes are fruiting body forming fungi that produce some of the most efficient 27 enzyme systems to degrade woody plant materials. Despite decades-long interest in the 28 ecological and functional diversity of wood-decay types and in fruiting body development, the 29 evolution of the genetic repertoires of both traits are incompletely known. Here, we sequenced 30 and analyzed the genome of Auriculariopsis ampla, a close relative of the model species 31Schizophyllum commune. Comparative analyses of wood-decay genes in these and other 29 32Agaricomycetes species revealed that the gene family composition of A. ampla and S. commune 33 are transitional between that of white rot species and less efficient wood-degraders (brown rot, 34 ectomycorrhizal). Rich repertoires of suberinase and tannase genes were found in both species, 35with tannases generally restricted to species that preferentially colonize bark-covered wood. 36Analyses of fruiting body transcriptomes in both A. ampla and S. commune highlighted a high 37 rate of divergence of developmental gene expression. Several genes with conserved 38 developmental expression were found, nevertheless, including 9 new transcription factors as well 39 as small secreted proteins, some of which may serve as fruiting body-specific effector molecules. 40Taken together, the genome sequence and developmental transcriptome of Auriculariopsis ampla 41 has highlighted novel aspects of wood-decay diversity and of fruiting body development in 42 mushroom-forming fungi. 43 44 10 . Accordingly, it lacks the ability to degrade lignin and achieves weak degradation of wood 64 9,11,12 , although this might be complemented by pathogenic potentials on living plants or the 65 activity of other, more efficient degraders that co-inhabit the same substrate 13 . Analyses of the 66 secretome and wood-decay progression of S. commune revealed both WR and BR-like behaviors 67 10,14 , although several questions on the biology of this species remain open. 68 4 Fruiting body production, is a highly integrated developmental process triggered by a 69 changing environment, such as a drop in temperature, nutrient depletion or shifts in light 70 conditions [15][16][17] . It results from the concerted expression of structural and regulatory 1,18-22 genes 71 as well as other processes, such as alternative splicing 3,23 , allele-specific gene expression 3 and 72 probably selective protein modification 3,24 . Known structural genes include hydrophobins [25][26][27] , 73 lectins 28-30 , several cell wall chitin and glucan-active CAZymes 5,31-33 , and probably cerato-74 platanins, expansin-like 3,4 and an array of other genes 34 . Regulators of fruiting body 75 development have been characterized in several species, in particular in Coprinopsis cinerea 76 18,19,35-37 and S. commune 1,2,24 . Despite much advance in this field, several aspects of fruiting 77 body development are quite poorly known, including, for example what genes have conserved 78 developmental roles across fruiting body forming fun...

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Section: Introductionsupporting

confidence: 66%

The genome ofAuriculariopsis amplasheds light on fruiting body development and wood-decay of bark-inhabiting fungi

Almási

Sahu

Krizsán

et al. 2019

Preprint

View full text Add to dashboard Cite

show abstract

“…Of the fungal cell wall (FCW) associated genes, hydrophobins were mostly developmentally regulated (eight of 11 genes) in A. ampla (Fig. S3), often with significantly increased expression coincident with the transition from vegetative mycelium to Stage 1 primordia (in six genes), as observed previously (van Wetter et al ., , ; Banerjee et al ., ; Ohm et al ., ; Song et al ., ). Several members of two functionally similar families, cerato‐platanins (4 of 5 genes dev.…”

Section: Resultsmentioning

confidence: 99%

Comparative genomics reveals unique wood‐decay strategies and fruiting body development in the Schizophyllaceae

et al. 2019

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Summary Agaricomycetes are fruiting body‐forming fungi that produce some of the most efficient enzyme systems to degrade wood. Despite decades‐long interest in their biology, the evolution and functional diversity of both wood‐decay and fruiting body formation are incompletely known. We performed comparative genomic and transcriptomic analyses of wood‐decay and fruiting body development in Auriculariopsis ampla and Schizophyllum commune (Schizophyllaceae), species with secondarily simplified morphologies, an enigmatic wood‐decay strategy and weak pathogenicity to woody plants. The plant cell wall‐degrading enzyme repertoires of Schizophyllaceae are transitional between those of white rot species and less efficient wood‐degraders such as brown rot or mycorrhizal fungi. Rich repertoires of suberinase and tannase genes were found in both species, with tannases restricted to Agaricomycetes that preferentially colonize bark‐covered wood, suggesting potential complementation of their weaker wood‐decaying abilities and adaptations to wood colonization through the bark. Fruiting body transcriptomes revealed a high rate of divergence in developmental gene expression, but also several genes with conserved expression patterns, including novel transcription factors and small‐secreted proteins, some of the latter which might represent fruiting body effectors. Taken together, our analyses highlighted novel aspects of wood‐decay and fruiting body development in an important family of mushroom‐forming fungi.

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“…They are important for the formation and development of fruiting bodies in macro-fungi. In S. commune, hydrophobins are involved in the formation of aerial hyphae, as well as the formation of other aerial structures [41]. Hydrophobin 9 in F. filiformis was involved in the formation of primordia [42,43].…”

Section: Discussionmentioning

confidence: 99%

Integration of ATAC-Seq and RNA-Seq Identifies Key Genes in Light-Induced Primordia Formation of Sparassis latifolia

Yang

Xiao

et al. 2019

IJMS

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Light is an essential environmental factor for Sparassis latifolia primordia formation, but the molecular mechanism is still unclear. In this study, differential expression profiling of light-induced primordia formation (LIPF) was established by integrating the assay for transposase accessible chromatin by sequencing (ATAC-seq) and RNA-seq technology. The integrated results from the ATAC-seq and RNA-seq showed 13 down-regulated genes and 17 up-regulated genes in both the L vs. D and P vs. D groups, for both methods. According to the gene ontology (GO) annotation of these differentially expressed genes (DEGs), the top three biological process categories were cysteine biosynthetic process via cystathionine, vitamin B6 catabolic, and glycine metabolic; the top three molecular function categories were 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity, glycine binding, and pyridoxal phosphate binding; cellular component categories were significantly enriched in the glycine cleavage complex. The KEGG (Kyoto Encyclopedia of Genes and Genomes) enrichment analysis revealed that these genes were associated with vitamin B6 metabolism; selenocompound metabolism; cysteine and methionine metabolism; glycine, serine, and threonine metabolism; and glyoxylate and dicarboxylate metabolism pathways. The expression of most of the DEGs was validated by qRT-PCR. To the best of our knowledge, this study is the first integrative analysis of ATAC-seq and RNA-seq for macro-fungi. These results provided a new perspective on the understanding of key pathways and hub genes in LIPF in S. latifolia. It will be helpful in understanding the primary environmental response, and provides new information to the existing models of primordia formation in edible and medicinal fungi.

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Hydrophobins Sc3 and Sc4 gene expression in mounds, fruiting bodies and vegetative hyphae of Schizophyllum commune

Cited by 9 publications

References 31 publications

The genome ofAuriculariopsis amplasheds light on fruiting body development and wood-decay of bark-inhabiting fungi

The genome ofAuriculariopsis amplasheds light on fruiting body development and wood-decay of bark-inhabiting fungi

Comparative genomics reveals unique wood‐decay strategies and fruiting body development in the Schizophyllaceae

Integration of ATAC-Seq and RNA-Seq Identifies Key Genes in Light-Induced Primordia Formation of Sparassis latifolia

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