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Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis

Overview of attention for article published in Proceedings of the National Academy of Sciences of the United States of America, March 2012
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  • In the top 25% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (94th percentile)
  • High Attention Score compared to outputs of the same age and source (80th percentile)

Mentioned by

news
1 news outlet
twitter
5 tweeters
patent
3 patents

Citations

dimensions_citation
202 Dimensions

Readers on

mendeley
269 Mendeley
citeulike
2 CiteULike
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Title
Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
Published in
Proceedings of the National Academy of Sciences of the United States of America, March 2012
DOI 10.1073/pnas.1119912109
Pubmed ID
Authors

E. Fernandez-Fueyo, F. J. Ruiz-Duenas, P. Ferreira, D. Floudas, D. S. Hibbett, P. Canessa, L. F. Larrondo, T. Y. James, D. Seelenfreund, S. Lobos, R. Polanco, M. Tello, Y. Honda, T. Watanabe, T. Watanabe, J. S. Ryu, C. P. Kubicek, M. Schmoll, J. Gaskell, K. E. Hammel, F. J. St. John, A. Vanden Wymelenberg, G. Sabat, S. Splinter BonDurant, K. Syed, J. S. Yadav, H. Doddapaneni, V. Subramanian, J. L. Lavin, J. A. Oguiza, G. Perez, A. G. Pisabarro, L. Ramirez, F. Santoyo, E. Master, P. M. Coutinho, B. Henrissat, V. Lombard, J. K. Magnuson, U. Kues, C. Hori, K. Igarashi, M. Samejima, B. W. Held, K. W. Barry, K. M. LaButti, A. Lapidus, E. A. Lindquist, S. M. Lucas, R. Riley, A. A. Salamov, D. Hoffmeister, D. Schwenk, Y. Hadar, O. Yarden, R. P. de Vries, A. Wiebenga, J. Stenlid, D. Eastwood, I. V. Grigoriev, R. M. Berka, R. A. Blanchette, P. Kersten, A. T. Martinez, R. Vicuna, D. Cullen

Abstract

Efficient lignin depolymerization is unique to the wood decay basidiomycetes, collectively referred to as white rot fungi. Phanerochaete chrysosporium simultaneously degrades lignin and cellulose, whereas the closely related species, Ceriporiopsis subvermispora, also depolymerizes lignin but may do so with relatively little cellulose degradation. To investigate the basis for selective ligninolysis, we conducted comparative genome analysis of C. subvermispora and P. chrysosporium. Genes encoding manganese peroxidase numbered 13 and five in C. subvermispora and P. chrysosporium, respectively. In addition, the C. subvermispora genome contains at least seven genes predicted to encode laccases, whereas the P. chrysosporium genome contains none. We also observed expansion of the number of C. subvermispora desaturase-encoding genes putatively involved in lipid metabolism. Microarray-based transcriptome analysis showed substantial up-regulation of several desaturase and MnP genes in wood-containing medium. MS identified MnP proteins in C. subvermispora culture filtrates, but none in P. chrysosporium cultures. These results support the importance of MnP and a lignin degradation mechanism whereby cleavage of the dominant nonphenolic structures is mediated by lipid peroxidation products. Two C. subvermispora genes were predicted to encode peroxidases structurally similar to P. chrysosporium lignin peroxidase and, following heterologous expression in Escherichia coli, the enzymes were shown to oxidize high redox potential substrates, but not Mn(2+). Apart from oxidative lignin degradation, we also examined cellulolytic and hemicellulolytic systems in both fungi. In summary, the C. subvermispora genetic inventory and expression patterns exhibit increased oxidoreductase potential and diminished cellulolytic capability relative to P. chrysosporium.

Twitter Demographics

The data shown below were collected from the profiles of 5 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 269 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 5 2%
Germany 2 <1%
Japan 2 <1%
Brazil 1 <1%
France 1 <1%
Switzerland 1 <1%
Chile 1 <1%
Finland 1 <1%
Canada 1 <1%
Other 3 1%
Unknown 251 93%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 68 25%
Researcher 65 24%
Student > Master 32 12%
Professor 15 6%
Professor > Associate Professor 15 6%
Other 53 20%
Unknown 21 8%
Readers by discipline Count As %
Agricultural and Biological Sciences 140 52%
Biochemistry, Genetics and Molecular Biology 45 17%
Engineering 10 4%
Environmental Science 8 3%
Chemistry 7 3%
Other 22 8%
Unknown 37 14%

Attention Score in Context

This research output has an Altmetric Attention Score of 21. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 15 July 2014.
All research outputs
#1,112,249
of 17,351,915 outputs
Outputs from Proceedings of the National Academy of Sciences of the United States of America
#16,862
of 89,286 outputs
Outputs of similar age
#7,213
of 131,912 outputs
Outputs of similar age from Proceedings of the National Academy of Sciences of the United States of America
#159
of 824 outputs
Altmetric has tracked 17,351,915 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 93rd percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 89,286 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 30.7. This one has done well, scoring higher than 81% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 131,912 tracked outputs that were published within six weeks on either side of this one in any source. This one has done particularly well, scoring higher than 94% of its contemporaries.
We're also able to compare this research output to 824 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 80% of its contemporaries.