A. Wiebenga

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The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes

Albee Y. Ling, J. Heitman, P. Górecki, 2012, Science.

The Plant Cell Wall–Decomposing Machinery Underlies the Functional Diversity of Forest Fungi

A. Salamov, D. Hibbett, J. Schmutz, 2011, Science.

Carbohydrate-active enzymes from the zygomycete fungus Rhizopus oryzae: a highly specialized approach to carbohydrate degradation depicted at genome level

Bernard Henrissat, Isabelle Benoit, J. van den Brink, 2011, BMC Genomics.

Expansion of Signal Transduction Pathways in Fungi by Extensive Genome Duplication

Wendy S. Schackwitz, J. Heitman, A. Salamov, 2016, Current Biology.

Genomic and exoproteomic diversity in plant biomass degradation approaches among Aspergilli

R. D. de Vries, I. Grigoriev, A. Tsang, 2018, Studies in mycology.

J. van den Brink, B. Henrissat, R. D. de Vries, 2015, Biotechnology for Biofuels.

The genome of the white-rot fungus Pycnoporus cinnabarinus: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown

B. Henrissat, Elodie Drula, E. Record, 2014, BMC Genomics.

Aspergillus niger RhaR, a regulator involved in l-rhamnose release and catabolism

R. D. de Vries, J. Ballering, P. Punt, 2014, Applied Microbiology and Biotechnology.

Duplications and losses of genes encoding known elements of the stress defence system of the Aspergilli contribute to the evolution of these filamentous fungi but do not directly influence their environmental stress tolerance

R. D. de Vries, R. Riley, S. Baker, 2018, Studies in mycology.

Protease and lipase activities of fungal and bacterial strains derived from an artisanal raw ewe's milk cheese.

R. D. de Vries, A. Wiebenga, P. Bron, 2016, International journal of food microbiology.

An enzyme cocktail for efficient protoplast formation in Aspergillus niger.

C. de Bekker, H. Wösten, A. Wiebenga, 2009, Journal of microbiological methods.

PLANT POLYSACCHARIDE DEGRADATION BY FUNGI

B. Henrissat, P. Coutinho, R. P. Vries, 2011 .

Insight into trade-off between wood decay and parasitism from the genome of a fungal forest pathogen.

A. Salamov, P. Rouzé, J. Grimwood, 2012, The New phytologist.

Secretion of small proteins is species‐specific within Aspergillus sp

R. D. de Vries, E. Gelhaye, A. Wiebenga, 2016, Microbial biotechnology.

A comparative genomics study of 23 Aspergillus species from section Flavi

A. Salamov, B. Simmons, J. Frisvad, 2020, Nature Communications.

Erratum: Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis (Proceedings of the National Academy of Sciences (2012) 109 (5458-5463) DOI: 10.1073/pnas. 1119912109)

A. Salamov, D. Hibbett, S. Lucas, 2012 .

Penicillium subrubescens is a promising alternative for Aspergillus niger in enzymatic plant biomass saccharification.

R. D. de Vries, A. Wiebenga, K. Hildén, 2016, New biotechnology.

Genetic transformation of the white-rot fungus Dichomitus squalens using a new commercial protoplasting cocktail.

R. D. de Vries, A. Wiebenga, K. Hildén, 2017, Journal of microbiological methods.

Macroalgae Derived Fungi Have High Abilities to Degrade Algal Polymers

R. D. de Vries, A. Patyshakuliyeva, A. Wiebenga, 2019, Microorganisms.

Enhancing saccharification of wheat straw by mixing enzymes from genetically-modified Trichoderma reesei and Aspergillus niger

J. van den Brink, Chengshu Wang, R. D. de Vries, 2015, Biotechnology Letters.

Physiological background of the remarkably high Cd2+ tolerance of the Aspergillus fumigatus Af293 strain

R. D. de Vries, G. Nagy, T. Emri, 2018, Journal of basic microbiology.

Genomic and Genetic Insights Into a Cosmopolitan Fungus, Paecilomyces variotii (Eurotiales)

James K. Hane, K. Barry, R. D. de Vries, 2018, Front. Microbiol..

A genomic survey of proteases in Aspergilli

R. D. de Vries, A. Tsang, M. Di Falco, 2014, BMC Genomics.

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus

G. Sherlock, J. Visser, F. Squina, 2017, Genome Biology.

Colonies of the fungus Aspergillus niger are highly differentiated to adapt to local carbon source variation

M. Lipton, R. D. de Vries, Young-Mo Kim, 2019, Environmental microbiology.

Investigation of inter- and intraspecies variation through genome sequencing of Aspergillus section Nigri

A. Salamov, B. Simmons, J. Frisvad, 2018, Nature Genetics.

Genomic and transcriptomic analysis of Laccaria bicolor CAZome reveals insights into polysaccharides remodelling during symbiosis establishment.

E. Danchin, B. Henrissat, R. D. de Vries, 2014, Fungal genetics and biology : FG & B.

Carbohydrate utilization and metabolism is highly differentiated in Agaricus bisporus

J. van den Brink, B. Henrissat, K. Burton, 2013, BMC Genomics.

Genetic Interaction of Aspergillus nidulans galR, xlnR and araR in Regulating D-Galactose and L-Arabinose Release and Catabolism Gene Expression

R. D. de Vries, A. Wiebenga, B. S. Gruben, 2015, PloS one.

Lawrence Berkeley National Laboratory Recent Work Title Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus Permalink

G. Sherlock, J. Visser, F. Squina, 2017 .

Aspergillus niger RhaR, a regulator involved in l-rhamnose release and catabolism

J. Ballering, P. Punt, K. Overkamp, 2014, Applied Microbiology and Biotechnology.

Comparative genomics of the white-rot fungi, Phanerochaete carnosa and P. chrysosporium, to elucidate the genetic basis of the distinct wood types they colonize

A. Salamov, R. Mahadevan, S. Lucas, 2012, BMC Genomics.

Finished Genome of the Fungal Wheat Pathogen Mycosphaerella graminicola Reveals Dispensome Structure, Chromosome Plasticity, and Stealth Pathogenesis

Paramvir S. Dehal, James K. Hane, Yiannis Kourmpetis, 2011, PLoS genetics.

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

A. Salamov, D. Hibbett, S. Lucas, 2012, Proceedings of the National Academy of Sciences.

Transcriptome analysis of Aspergillus niger xlnR and xkiA mutants grown on corn Stover and soybean hulls reveals a highly complex regulatory network

Diane Bauer, R. D. de Vries, I. Grigoriev, 2019, BMC Genomics.

High resolution visualization and exo‐proteomics reveal the physiological role of XlnR and AraR in plant biomass colonization and degradation by Aspergillus niger

R. D. de Vries, S. Purvine, S. Baker, 2017, Environmental microbiology.

Enhancing saccharification of wheat straw by mixing enzymes from genetically-modified Trichoderma reesei and Aspergillus niger

J. van den Brink, Chengshu Wang, R. D. de Vries, 2015, Biotechnology Letters.

Evolutionary Adaptation to Generate Mutants.

R. D. de Vries, A. Patyshakuliyeva, A. Wiebenga, 2018, Methods in molecular biology.

Additional file 8: of Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus

G. Sherlock, J. Visser, F. Squina, 2017 .

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus

G. Sherlock, F. Squina, A. Salamov, 2017, Genome Biology.

Comparative Genomics and Transcriptomics Analyses Reveal Divergent Plant Biomass-Degrading Strategies in Fungi.

R. D. de Vries, I. Grigoriev, A. Wiebenga, 2023, Journal of fungi.

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus

G. Sherlock, F. Squina, A. Salamov, 2017, Genome Biology.

Insight into trade-off between wood decay and parasitism from the genome of a fungal forest pathogen.

A. Salamov, P. Rouzé, J. Grimwood, 2012, The New phytologist.