The SAGA continues: expanding the cellular role of a transcriptional co-activator complex

Baker, Stephen P.; Grant, Patrick A.

doi:10.1038/sj.onc.1210603

Cited by 193 publications

(188 citation statements)

References 101 publications

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“…The fermentation characteristics of 10 these two organisms have been examined and found to be suitable for large-scale production 5,6 .…”

Section: Genomes Summarymentioning

confidence: 99%

“…The protein coding fractions of the genomes include 18 9,110 genes in M. thermophila and 9,813 genes in T. terrestris ( Table 1); both are smaller than 19 average proteomes of other fungi in the class Sordariomycetes, and substantially smaller than the 20 closely related mesophile Chaetomium globosum 7 , which has 11,124 predicted genes in a 34. [9][10][11][12][13][14][15][16][17][18][19][20][21] Mbp genome. These three species within the family Chaetomiaceae share 6,279 three-way 22 orthologs and extensive synteny with >6,000 genes in syntenic blocks between each pair, 23 including four blocks of >400 genes between M. thermophila and T. terrestris (Supplementary Table 1).…”

mentioning

confidence: 99%

“…Like the other fungi examined, the 7 two thermophiles harbor large numbers (>210) of glycoside hydrolases and polysaccharide 8 lyases covering most of the recognized families, albeit with important differences Tables 5, 6). For instance T. terrestris is poor 10 in pectin and pectate lyases (no PL1, PL3, PL9 and PL11) and relatively rich in 11 polygalacturonases (seven GH28). In contrast, the reverse is true for M. thermophila (five PL1, 12 one PL3 and two GH28).…”

mentioning

confidence: 99%

“…The GH61 family was 23 originally classified on the basis of very weak endo-1,4-β-D-glucanase activity found in one 24 family member 9 . Recently, it was reported that certain GH61 proteins lack measurable hydrolytic 25 activity by themselves, but in the presence of various divalent metal ions, they can substantially 26 enhance lignocellulosic biomass hydrolysis by cellulases and reduce the amount of cellulase 27 required for hydrolysis of biomass polysaccharides 10 . The expansion of GH61 genes in this 28 group of fungi may have evolved as a modified strategy for deconstruction of biomass 29 polysaccharides compared to that of other species such as T. reesei.…”

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confidence: 99%

“…Transcript profiles on biomass substrates 8 To examine the strategy used by these thermophiles for decomposition of plant cell wall 9 polysaccharides, we used RNA-Seq to compare transcript profiles during growth on barley straw 10 or alfalfa straw to growth on glucose. Alfalfa was chosen to represent dicotyledonous plants, 11 whereas barley was used to represent monocotyledon plants.…”

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confidence: 99%

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Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris

et al. 2011

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Thermostable enzymes and thermophilic cell factories may afford economic advantages inFurthermore, we present evidence suggesting that aside from representing a potential 9 reservoir of thermostable enzymes, thermophilic fungi are amenable to manipulation using 10 classical and molecular genetics. 11Rapid, efficient and robust enzymatic degradation of biomass-derived polysaccharides is 12 currently a major challenge for biofuel production. A prerequisite is the availability of enzymes 13 that hydrolyze cellulose, hemicellulose and other polysaccharides into fermentable sugars at 14 conditions suitable for industrial use. The best studied and most widely used cellulases and to overcome these obstacles is to raise the reaction temperature, thereby increasing hydrolytic 20 rates and reducing contamination risks. AT-rich repetitive regions (Fig. 1) To examine the strategy used by these thermophiles for decomposition of plant cell wall 9 polysaccharides, we used RNA-Seq to compare transcript profiles during growth on barley straw 10 or alfalfa straw to growth on glucose. Alfalfa was chosen to represent dicotyledonous plants, 11 whereas barley was used to represent monocotyledon plants. The major difference between these 12 materials is that the carbohydrates from barley cell wall are mainly cellulose and hemicellulose 13 with a negligible amount of pectin 11 , whereas alfalfa cell wall contains pectin and xylan in 14 roughly similar proportions, each consisting of 15-20% of total carbohydrates 12, . 15 We observed notable differences between the transcriptional profiles of genes encoding conditions. For example, the orthologs in Clades A, B, E, G and P of GH61 are upregulated 8 under growth in complex substrates for both thermophiles (Fig. 2b). An even more striking 9 correlation between transcript levels and orthologs is evident for the GH6 and GH7 cellulases 10 ( Supplementary Fig. 7) where the transcript profiles for the orthologs of the two organisms are Table 7). Thermophilic fungi are major components of the microflora in self-heating composts. They 9 break down cellulose at a faster rate than prodigious, mesophilic cellulase producers such as T. Tables 11-14). On the basis of 24 our comparative analyses of the genomes from two thermophilic fungi, we conclude that their 25 nucleotide and protein features are different from those observed in thermophilic prokaryotes. 26 We also investigated the possibility that thermophilic fungi possess major differences in 27 processes mediating thermophily including heat shock, oxidative stress, membrane biosynthesis, 28 chromatin structure and modification, and fungal cell wall metabolism. We compared the 29 proteins predicted to be involved in these processes in C. globosum, M. thermophila and T. 30 terrestris, but were unable to find differences that can convincingly be interpreted as the Fig. 9). Within the Sordiariales, thermophily 6 is restricted to subgroups of the family Chaetomiaceae. Among fungi more broadly, thermophily 7 also exists in the Zygomycota, but it ...

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“…The fermentation characteristics of 10 these two organisms have been examined and found to be suitable for large-scale production 5,6 .…”

Section: Genomes Summarymentioning

confidence: 99%

mentioning

confidence: 99%

mentioning

confidence: 99%

mentioning

confidence: 99%

mentioning

confidence: 99%

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Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris

et al. 2011

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Regulation of Secondary Metabolism in the Gray Mold FungusBotrytis cinerea

Viaud

Schumacher²,

Porquier

et al. 2016

Host – Pathogen Interaction

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