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1. Draft genome sequence of a monokaryotic model brown-rot fungus Postia (Rhodonia) placenta SB12.

Author

Gaskell, Jill, Gaskell, Jill, Kersten, Phil, Larrondo, Luis F, Canessa, Paulo, Martinez, Diego, Hibbett, David, Schmoll, Monika, Kubicek, Christian P, Martinez, Angel T, Yadav, Jagjit, Master, Emma, Magnuson, Jon Karl, Yaver, Debbie, Berka, Randy, Lail, Kathleen, Chen, Cindy, LaButti, Kurt, Nolan, Matt, Lipzen, Anna, Aerts, Andrea, Riley, Robert, Barry, Kerrie, Henrissat, Bernard, Blanchette, Robert, Grigoriev, Igor V, Cullen, Dan, Gaskell, Jill, Gaskell, Jill, Kersten, Phil, Larrondo, Luis F, Canessa, Paulo, Martinez, Diego, Hibbett, David, Schmoll, Monika, Kubicek, Christian P, Martinez, Angel T, Yadav, Jagjit, Master, Emma, Magnuson, Jon Karl, Yaver, Debbie, Berka, Randy, Lail, Kathleen, Chen, Cindy, LaButti, Kurt, Nolan, Matt, Lipzen, Anna, Aerts, Andrea, Riley, Robert, Barry, Kerrie, Henrissat, Bernard, Blanchette, Robert, Grigoriev, Igor V, and Cullen, Dan

Published
2017

2. Draft genome sequence of a monokaryotic model brown-rot fungus Postia (Rhodonia) placenta SB12.

Author

Gaskell, Jill, Gaskell, Jill, Kersten, Phil, Larrondo, Luis F, Canessa, Paulo, Martinez, Diego, Hibbett, David, Schmoll, Monika, Kubicek, Christian P, Martinez, Angel T, Yadav, Jagjit, Master, Emma, Magnuson, Jon Karl, Yaver, Debbie, Berka, Randy, Lail, Kathleen, Chen, Cindy, LaButti, Kurt, Nolan, Matt, Lipzen, Anna, Aerts, Andrea, Riley, Robert, Barry, Kerrie, Henrissat, Bernard, Blanchette, Robert, Grigoriev, Igor V, Cullen, Dan, Gaskell, Jill, Gaskell, Jill, Kersten, Phil, Larrondo, Luis F, Canessa, Paulo, Martinez, Diego, Hibbett, David, Schmoll, Monika, Kubicek, Christian P, Martinez, Angel T, Yadav, Jagjit, Master, Emma, Magnuson, Jon Karl, Yaver, Debbie, Berka, Randy, Lail, Kathleen, Chen, Cindy, LaButti, Kurt, Nolan, Matt, Lipzen, Anna, Aerts, Andrea, Riley, Robert, Barry, Kerrie, Henrissat, Bernard, Blanchette, Robert, Grigoriev, Igor V, and Cullen, Dan

Published
2017

3. Analysis of the Phlebiopsis gigantea Genome, Transcriptome and Secretome Provides Insight into Its Pioneer Colonization Strategies of Wood

Author

Hori, Chiaki, Copenhaver, Gregory P.1, Hori, Chiaki, Ishida, Takuya, Igarashi, Kiyohiko, Samejima, Masahiro, Suzuki, Hitoshi, Master, Emma, Ferreira, Patricia, Ruiz-Dueñas, Francisco J., Held, Benjamin, Canessa, Paulo, Larrondo, Luis F., Schmoll, Monika, Druzhinina, Irina S., Kubicek, Christian P., Gaskell, Jill A., Kersten, Phil, St. John, Franz, Glasner, Jeremy, Sabat, Grzegorz, Splinter BonDurant, Sandra, Syed, Khajamohiddin, Yadav, Jagjit, Mgbeahuruike, Anthony C., Kovalchuk, Andriy, Asiegbu, Fred O., Lackner, Gerald, Hoffmeister, Dirk, Rencoret, Jorge, Gutiérrez, Ana, Sun, Hui, Lindquist, Erika, Barry, Kerrie, Riley, Robert, Grigoriev, Igor V., Henrissat, Bernard, Kües, Ursula, Berka, Randy M., Martínez, Angel T., Covert, Sarah F., Blanchette, Robert A., Cullen, Daniel, Hori, Chiaki, Copenhaver, Gregory P.1, Hori, Chiaki, Ishida, Takuya, Igarashi, Kiyohiko, Samejima, Masahiro, Suzuki, Hitoshi, Master, Emma, Ferreira, Patricia, Ruiz-Dueñas, Francisco J., Held, Benjamin, Canessa, Paulo, Larrondo, Luis F., Schmoll, Monika, Druzhinina, Irina S., Kubicek, Christian P., Gaskell, Jill A., Kersten, Phil, St. John, Franz, Glasner, Jeremy, Sabat, Grzegorz, Splinter BonDurant, Sandra, Syed, Khajamohiddin, Yadav, Jagjit, Mgbeahuruike, Anthony C., Kovalchuk, Andriy, Asiegbu, Fred O., Lackner, Gerald, Hoffmeister, Dirk, Rencoret, Jorge, Gutiérrez, Ana, Sun, Hui, Lindquist, Erika, Barry, Kerrie, Riley, Robert, Grigoriev, Igor V., Henrissat, Bernard, Kües, Ursula, Berka, Randy M., Martínez, Angel T., Covert, Sarah F., Blanchette, Robert A., and Cullen, Daniel

Published
2014

4. Analysis of the Phlebiopsis gigantea Genome, Transcriptome and Secretome Provides Insight into Its Pioneer Colonization Strategies of Wood

Author

University of Helsinki, Department of Forest Sciences, Hori, Chiaki, Ishida, Takuya, Igarashi, Kiyohiko, Samejima, Masahiro, Suzuki, Hitoshi, Master, Emma, Ferreira, Patricia, Ruiz-Duenas, Francisco J., Held, Benjamin, Canessa, Paulo, Larrondo, Luis F., Schmoll, Monika, Druzhinina, Irina S., Kubicek, Christian P., Gaskell, Jill A., Kersten, Phil, St John, Franz, Glasner, Jeremy, Sabat, Grzegorz, BonDurant, Sandra Splinter, Syed, Khajamohiddin, Yadav, Jagjit, Mgbeahuruike, Anthony C., Kovalchuk, Andriy, Asiegbu, Fred O., Lackner, Gerald, Hoffmeister, Dirk, Rencoret, Jorge, Gutierrez, Ana, Sun, Hui, Lindquist, Erika, Barry, Kerrie, Riley, Robert, Grigoriev, Igor V., Henrissat, Bernard, Kuees, Ursula, Berka, Randy M., Martinez, Angel T., Covert, Sarah F., Blanchette, Robert A., Cullen, Daniel, University of Helsinki, Department of Forest Sciences, Hori, Chiaki, Ishida, Takuya, Igarashi, Kiyohiko, Samejima, Masahiro, Suzuki, Hitoshi, Master, Emma, Ferreira, Patricia, Ruiz-Duenas, Francisco J., Held, Benjamin, Canessa, Paulo, Larrondo, Luis F., Schmoll, Monika, Druzhinina, Irina S., Kubicek, Christian P., Gaskell, Jill A., Kersten, Phil, St John, Franz, Glasner, Jeremy, Sabat, Grzegorz, BonDurant, Sandra Splinter, Syed, Khajamohiddin, Yadav, Jagjit, Mgbeahuruike, Anthony C., Kovalchuk, Andriy, Asiegbu, Fred O., Lackner, Gerald, Hoffmeister, Dirk, Rencoret, Jorge, Gutierrez, Ana, Sun, Hui, Lindquist, Erika, Barry, Kerrie, Riley, Robert, Grigoriev, Igor V., Henrissat, Bernard, Kuees, Ursula, Berka, Randy M., Martinez, Angel T., Covert, Sarah F., Blanchette, Robert A., and Cullen, Daniel

Published
2014

5. Analysis of the Phlebiopsis gigantea Genome, Transcriptome and Secretome Provides Insight into Its Pioneer Colonization Strategies of Wood

Author

Hori, Chiaki, Copenhaver, Gregory P.1, Hori, Chiaki, Ishida, Takuya, Igarashi, Kiyohiko, Samejima, Masahiro, Suzuki, Hitoshi, Master, Emma, Ferreira, Patricia, Ruiz-Dueñas, Francisco J., Held, Benjamin, Canessa, Paulo, Larrondo, Luis F., Schmoll, Monika, Druzhinina, Irina S., Kubicek, Christian P., Gaskell, Jill A., Kersten, Phil, St. John, Franz, Glasner, Jeremy, Sabat, Grzegorz, Splinter BonDurant, Sandra, Syed, Khajamohiddin, Yadav, Jagjit, Mgbeahuruike, Anthony C., Kovalchuk, Andriy, Asiegbu, Fred O., Lackner, Gerald, Hoffmeister, Dirk, Rencoret, Jorge, Gutiérrez, Ana, Sun, Hui, Lindquist, Erika, Barry, Kerrie, Riley, Robert, Grigoriev, Igor V., Henrissat, Bernard, Kües, Ursula, Berka, Randy M., Martínez, Angel T., Covert, Sarah F., Blanchette, Robert A., Cullen, Daniel, Hori, Chiaki, Copenhaver, Gregory P.1, Hori, Chiaki, Ishida, Takuya, Igarashi, Kiyohiko, Samejima, Masahiro, Suzuki, Hitoshi, Master, Emma, Ferreira, Patricia, Ruiz-Dueñas, Francisco J., Held, Benjamin, Canessa, Paulo, Larrondo, Luis F., Schmoll, Monika, Druzhinina, Irina S., Kubicek, Christian P., Gaskell, Jill A., Kersten, Phil, St. John, Franz, Glasner, Jeremy, Sabat, Grzegorz, Splinter BonDurant, Sandra, Syed, Khajamohiddin, Yadav, Jagjit, Mgbeahuruike, Anthony C., Kovalchuk, Andriy, Asiegbu, Fred O., Lackner, Gerald, Hoffmeister, Dirk, Rencoret, Jorge, Gutiérrez, Ana, Sun, Hui, Lindquist, Erika, Barry, Kerrie, Riley, Robert, Grigoriev, Igor V., Henrissat, Bernard, Kües, Ursula, Berka, Randy M., Martínez, Angel T., Covert, Sarah F., Blanchette, Robert A., and Cullen, Daniel

Published
2014

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

Author

Fernandez-Fueyo, Elena, Fernandez-Fueyo, Elena, Ruiz-Duenas, Francisco J., Ferreira, Patrica, Floudas, Dimitrios, HIbbett, David S., Canessa, Paulo, Larrondo, Luis F., James, Tim Y., Seelenfreund, Daniela, Lobos, Sergio, Polanco, Ruben, Tello, Mario, Honda, Yoichi, Watanabe, Takahito, Watanabe, Takashi, Ryu, Jae San, Kubicek, Christian P., Schmoll, Monika, Gaskell, Jill, Hammel, Kenneth E., John, Franz J. St., Wymelenberg, Amber Vanden, Sabat, Grzegorz, BonDurant, Sandra Splinter, Syed, Khajamohiddin, Yadav, Jagjit S., Doddapaneni, Harshavardhan, Subramanian, Venkataramanan, Lavin, Jose L., Oguiza, Jose A., Perez, Gumer, Pisabarro, Antonio G., Ramirez, Lucia, Santoyo, Francisco, Master, Emma, Coutinho, Pedro M., Henrissat, Bernard, Lombard, Vincent, Magnuson, Jon Karl, Kues, Ursula, Hori, Chiaki, Igarashi, Kiyohiko, Samejima, Masahiro, Held, Benjamin W., Barry, Kerrie W., LaButti, Kurt M., Lapidus, Alla, Lindquist, Erika A., Lucas, Susan M., Riley, Robert, Salamov, Asaf A., Hoffmeister, Dirk, Schwenk, Daniel, Hadar, Yitzhak, Yarden, Oded, Vries, Ronald P. de, Wiebenga, Ad, Stenlid, Jan, Eastwood, Daniel, Grigoriev, Igor V., Berka, Randy M., Blanchette, Robert A., Kersten, Phil, Martinez, Angel T., Vicuna, Rafael, Cullen, Dan, Fernandez-Fueyo, Elena, Fernandez-Fueyo, Elena, Ruiz-Duenas, Francisco J., Ferreira, Patrica, Floudas, Dimitrios, HIbbett, David S., Canessa, Paulo, Larrondo, Luis F., James, Tim Y., Seelenfreund, Daniela, Lobos, Sergio, Polanco, Ruben, Tello, Mario, Honda, Yoichi, Watanabe, Takahito, Watanabe, Takashi, Ryu, Jae San, Kubicek, Christian P., Schmoll, Monika, Gaskell, Jill, Hammel, Kenneth E., John, Franz J. St., Wymelenberg, Amber Vanden, Sabat, Grzegorz, BonDurant, Sandra Splinter, Syed, Khajamohiddin, Yadav, Jagjit S., Doddapaneni, Harshavardhan, Subramanian, Venkataramanan, Lavin, Jose L., Oguiza, Jose A., Perez, Gumer, Pisabarro, Antonio G., Ramirez, Lucia, Santoyo, Francisco, Master, Emma, Coutinho, Pedro M., Henrissat, Bernard, Lombard, Vincent, Magnuson, Jon Karl, Kues, Ursula, Hori, Chiaki, Igarashi, Kiyohiko, Samejima, Masahiro, Held, Benjamin W., Barry, Kerrie W., LaButti, Kurt M., Lapidus, Alla, Lindquist, Erika A., Lucas, Susan M., Riley, Robert, Salamov, Asaf A., Hoffmeister, Dirk, Schwenk, Daniel, Hadar, Yitzhak, Yarden, Oded, Vries, Ronald P. de, Wiebenga, Ad, Stenlid, Jan, Eastwood, Daniel, Grigoriev, Igor V., Berka, Randy M., Blanchette, Robert A., Kersten, Phil, Martinez, Angel T., Vicuna, Rafael, and Cullen, Dan

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 Mn2. 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.

Published
2012

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

Author

Fernandez-Fueyo, Elena, Fernandez-Fueyo, Elena, Ruiz-Duenas, Francisco J., Ferreira, Patrica, Floudas, Dimitrios, HIbbett, David S., Canessa, Paulo, Larrondo, Luis F., James, Tim Y., Seelenfreund, Daniela, Lobos, Sergio, Polanco, Ruben, Tello, Mario, Honda, Yoichi, Watanabe, Takahito, Watanabe, Takashi, Ryu, Jae San, Kubicek, Christian P., Schmoll, Monika, Gaskell, Jill, Hammel, Kenneth E., John, Franz J. St., Wymelenberg, Amber Vanden, Sabat, Grzegorz, BonDurant, Sandra Splinter, Syed, Khajamohiddin, Yadav, Jagjit S., Doddapaneni, Harshavardhan, Subramanian, Venkataramanan, Lavin, Jose L., Oguiza, Jose A., Perez, Gumer, Pisabarro, Antonio G., Ramirez, Lucia, Santoyo, Francisco, Master, Emma, Coutinho, Pedro M., Henrissat, Bernard, Lombard, Vincent, Magnuson, Jon Karl, Kues, Ursula, Hori, Chiaki, Igarashi, Kiyohiko, Samejima, Masahiro, Held, Benjamin W., Barry, Kerrie W., LaButti, Kurt M., Lapidus, Alla, Lindquist, Erika A., Lucas, Susan M., Riley, Robert, Salamov, Asaf A., Hoffmeister, Dirk, Schwenk, Daniel, Hadar, Yitzhak, Yarden, Oded, Vries, Ronald P. de, Wiebenga, Ad, Stenlid, Jan, Eastwood, Daniel, Grigoriev, Igor V., Berka, Randy M., Blanchette, Robert A., Kersten, Phil, Martinez, Angel T., Vicuna, Rafael, Cullen, Dan, Fernandez-Fueyo, Elena, Fernandez-Fueyo, Elena, Ruiz-Duenas, Francisco J., Ferreira, Patrica, Floudas, Dimitrios, HIbbett, David S., Canessa, Paulo, Larrondo, Luis F., James, Tim Y., Seelenfreund, Daniela, Lobos, Sergio, Polanco, Ruben, Tello, Mario, Honda, Yoichi, Watanabe, Takahito, Watanabe, Takashi, Ryu, Jae San, Kubicek, Christian P., Schmoll, Monika, Gaskell, Jill, Hammel, Kenneth E., John, Franz J. St., Wymelenberg, Amber Vanden, Sabat, Grzegorz, BonDurant, Sandra Splinter, Syed, Khajamohiddin, Yadav, Jagjit S., Doddapaneni, Harshavardhan, Subramanian, Venkataramanan, Lavin, Jose L., Oguiza, Jose A., Perez, Gumer, Pisabarro, Antonio G., Ramirez, Lucia, Santoyo, Francisco, Master, Emma, Coutinho, Pedro M., Henrissat, Bernard, Lombard, Vincent, Magnuson, Jon Karl, Kues, Ursula, Hori, Chiaki, Igarashi, Kiyohiko, Samejima, Masahiro, Held, Benjamin W., Barry, Kerrie W., LaButti, Kurt M., Lapidus, Alla, Lindquist, Erika A., Lucas, Susan M., Riley, Robert, Salamov, Asaf A., Hoffmeister, Dirk, Schwenk, Daniel, Hadar, Yitzhak, Yarden, Oded, Vries, Ronald P. de, Wiebenga, Ad, Stenlid, Jan, Eastwood, Daniel, Grigoriev, Igor V., Berka, Randy M., Blanchette, Robert A., Kersten, Phil, Martinez, Angel T., Vicuna, Rafael, and Cullen, Dan

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 Mn2. 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.

Published
2012

8. Cloning and functional characterization of the gene encoding the transcription factor Acel in the basidiomycete Phanerochaete chrysosporium

Author

POLANCO,RUBÉN, CANESSA,PAULO, RIVAS,ALEXIS, LARRONDO,LUIS F, LOBOS,SERGIO, VICUÑA,RAFAEL, POLANCO,RUBÉN, CANESSA,PAULO, RIVAS,ALEXIS, LARRONDO,LUIS F, LOBOS,SERGIO, and VICUÑA,RAFAEL

Abstract

In this report we describe the isolation and characterization of a gene encoding the transcription factor Acel (Activation protein of cup 1 Expression) in the white rot fungus Phanerochaete chrysosporium. Pc-acel encodes a predicted protein of 633 amino acids containing the copper-fist DNA binding domain typically found in fungal transcription factors such as Acel, Macl and Haal from Saccharomyces cerevisiae. The Pc-acel gene is localized in Scaffold 5, between coordinates 220841 and 222983. A S. cerevisiae acel null mutant strain unable to grow in high-copper medium was fully complemented by transformation with the cDNA of Pc-acel. Moreover, Northern blot hybridization studies indicated that Pc-acel cDNA restores copper inducibility of the yeast cup 1 gene, which encodes the metal-binding protein metallothionein implicated in copper resistance. To our knowledge, this is first report describing an Acel transcription factor in basidiomycetes

Published
2006

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