Markku Saloheimo

1987 …2018
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Research Output 1987 2018

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Article
2018
2 Citations (Scopus)

A new crystal form of Aspergillus oryzae catechol oxidase and evaluation of copper site structures in coupled binuclear copper enzymes

Penttinen, L., Rutanen, C., Saloheimo, M., Kruus, K., Rouvinen, J. & Hakulinen, N., 1 May 2018, In : PLoS ONE. 13, 5, e0196691.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Aspergillus oryzae
Catechol Oxidase
Aspergillus
catechol oxidase
crystals
2017
36 Citations (Scopus)

Development of a low-cost cellulase production process using Trichoderma reesei for Brazilian biorefineries

Ellilä, S., Fonseca, L., Uchima, C., Cota, J., Goldman, G. H., Saloheimo, M., Sacon, V. & Siika-Aho, M., 2017, In : Biotechnology for Biofuels. 10, 1, p. 30

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Trichoderma
Cellulase
production cost
Saccharum
Costs and Cost Analysis
6 Citations (Scopus)

Transient Silencing of DNA Repair Genes Improves Targeted Gene Integration in the Filamentous Fungus Trichoderma reesei

Chum, P. Y., Schmidt, G., Saloheimo, M. & Landowski, C. P., 2017, In : Applied and Environmental Microbiology. 83, 15, 11 p., e00535-17.

Research output: Contribution to journalArticleScientificpeer-review

Trichoderma reesei
Trichoderma
DNA repair
DNA Repair
repair
2016
10 Citations (Scopus)

Enabling low cost biopharmaceuticals: high level interferon alpha-2b production in Trichoderma reesei

Landowski, C. P., Mustalahti, E., Wahl, R., Croute, L., Sivasiddarthan, D., Westerholm-Parvinen, A., Sommer, B., Ostermeier, C., Helk, B., Saarinen, J. & Saloheimo, M., 2016, In : Microbial Cell Factories. 15, 1, 104.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
interferon alfa-2b
Interferons
Trichoderma
Peptide Hydrolases
Costs and Cost Analysis
7 Citations (Scopus)

Expression of Two Novel β-Glucosidases from Chaetomium atrobrunneum in Trichoderma reesei and Characterization of the Heterologous Protein Products

Colabardini, A. C., Valkonen, M., Huuskonen, A., Siika-aho, M., Koivula, A., Goldman, G. H. & Saloheimo, M., 1 Dec 2016, In : Molecular Biotechnology. 58, 12, p. 821-831 11 p.

Research output: Contribution to journalArticleScientificpeer-review

Chaetomium
Glucosidases
Trichoderma
Enzymes
Proteins
10 Citations (Scopus)

Quantitative site-specific phosphoproteomics of Trichoderma reesei signaling pathways upon induction of hydrolytic enzyme production

Nguyen, E. V., Imanishi, S. Y., Haapaniemi, P., Yadav, A., Saloheimo, M., Corthals, G. L. & Pakula, T. M., 2016, In : Journal of Proteome Research. 15, 2, p. 457-467

Research output: Contribution to journalArticleScientificpeer-review

Phosphorylation
Enzyme Induction
Trichoderma
Carbon
Cellulases
2015
24 Citations (Scopus)

Enabling low cost biopharmaceuticals: A systematic approach to delete proteases from a well-known protein production host trichoderma reesei

Landowski, C. P., Huuskonen, A., Wahl, R., Westerholm-Parvinen, A., Kanerva, A., Hänninen, A-L., Salovuori, N., Penttilä, M., Natunen, J., Ostermeier, C., Helk, B., Saarinen, J. & Saloheimo, M., 2015, In : PLoS ONE. 10, 8, e0134723.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
biopharmaceuticals
Trichoderma reesei
Trichoderma
Peptide Hydrolases
proteinases
39 Citations (Scopus)
Cellulose 1,4-beta-Cellobiosidase
Cellobiose
Oligosaccharides
Glucans
Cellulase
21 Citations (Scopus)

The effects of extracellular pH and of the transcriptional regulator PACI on the transcriptome of Trichoderma reesei

Häkkinen, M., Sivasiddarthan, D., Aro, N., Saloheimo, M. & Pakula, T. M., 2015, In : Microbial Cell Factories. 14, 63.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Trichoderma
Transcriptome
Gene encoding
Genes
Enzymes
2014
13 Citations (Scopus)

Cloning and characterization of a novel acidic cutinase from Sirococcus conigenus

Nyyssölä, A., Pihlajaniemi, V., Häkkinen, M., Kontkanen, H., Saloheimo, M. & Nakari-Setälä, T., 1 Jan 2014, In : Applied Microbiology and Biotechnology. 98, 8, p. 3639-3650 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Organism Cloning
Catalytic Domain
Enzymes
Plant DNA
Genes
5 Citations (Scopus)
Open Access
Trichoderma
Fungi
Galactosidases
Proteins
Unfolded Protein Response
94 Citations (Scopus)
Open Access
Trichoderma
Cellulase
Screening
Genes
gene
2013
9 Citations (Scopus)

Directing enzymatic cross-linking activity to the air-water interface by a fusion protein approach

Paananen, A., Ercili Cura, D., Saloheimo, M., Lantto, R. & Linder, M., 2013, In : Soft Matter. 9, 5, p. 1612-1619 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Fusion reactions
fusion
proteins
Water
air
10 Citations (Scopus)

Experimental and bioinformatic investigation of the proteolytic degradation of the C-terminal domain of a fungal tyrosinase

Faccio, G., Arvas, M., Thöny-Meyer, L. & Saloheimo, M., 2013, In : Journal of Inorganic Biochemistry. 121, p. 37-45 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Monophenol Monooxygenase
Bioinformatics
Computational Biology
Degradation
Catechol Oxidase
14 Citations (Scopus)

Intracellular protein production in Trichoderma reesei (Hypocrea jecorina) with hydrophobin fusion technology

Mustalahti, E., Saloheimo, M. & Joensuu, J., 2013, In : New Biotechnology. 30, 2, p. 262-268 7 p.

Research output: Contribution to journalArticleScientificpeer-review

Hypocrea
Trichoderma
Fusion reactions
Technology
Proteins
55 Citations (Scopus)

Swollenin aids in the amorphogenesis step during the enzymatic hydrolysis of pretreated biomass

Gourlay, K., Hu, J., Arantes, V., Andberg, M., Saloheimo, M., Penttilä, M. & Saddler, J., 1 Jan 2013, In : Bioresource Technology. 142, p. 498-503

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Enzymatic hydrolysis
Cellulose
cellulose
hydrolysis
Biomass
40 Citations (Scopus)

Xylanase XYN IV from Trichoderma reesei showing exo- and endo-xylanase activity

Tenkanen, M., Vršanská, M., Siika-Aho, M., Wong, D. W., Puchart, V., Penttilä, M., Saloheimo, M. & Biely, P., 1 Jan 2013, In : FEBS Journal. 280, 1, p. 285-301

Research output: Contribution to journalArticleScientificpeer-review

Trichoderma
Xylose
Enzymes
Xylans
glucuronoxylan xylanohydrolase
2012
94 Citations (Scopus)

Re-annotation of the CAZy genes of Trichoderma reesei and transcription in the presence of lignocellulosic substrates

Häkkinen, M., Arvas, M., Oja, M., Aro, N., Penttilä, M., Saloheimo, M. & Pakula, T. M., 4 Oct 2012, In : Microbial Cell Factories. 11, 134.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Molecular Sequence Annotation
Trichoderma
Transcription
Genes
Substrates
13 Citations (Scopus)

Sulfhydryl oxidase enhances the effects of ascorbic acid in wheat dough

Faccio, G., Flander, L., Buchert, J., Saloheimo, M. & Nordlund, E., 2012, In : Journal of Cereal Science. 55, 1, p. 37-43 7 p.

Research output: Contribution to journalArticleScientificpeer-review

dough
Ascorbic Acid
Triticum
ascorbic acid
wheat
2011
43 Citations (Scopus)

Correlation of gene expression and protein production rate: a system wide study

Arvas, M., Pakula, T., Smit, B., Rautio, J., Koivistoinen, H., Jouhten, P., Lindfors, E., Wiebe, M., Penttilä, M. & Saloheimo, M., 20 Dec 2011, In : BMC Genomics. 12, 616.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Gene Expression
Proteins
Growth
Hypocrea
Secondary Metabolism
30 Citations (Scopus)

Influence of growth temperature on the production of antibody Fab fragments in different microbes: A host comparative analysis

Dragosits, M., Frascotti, G., Bernard-Granger, L., Vázquez, F., Giuliani, M., Baumann, K., Rodríguez-Carmona, E., Tokkanen, J., Parrilli, E., Wiebe, M. G., Kunert, R., Maurer, M., Gasser, B., Sauer, M., Branduardi, P., Pakula, T., Saloheimo, M., Penttilä, M., Ferrer, P., Luisa Tutino, M. & 3 others, Villaverde, A., Porro, D. & Mattanovich, D., 1 Jan 2011, In : Biotechnology Progress. 27, 1, p. 38-46

Research output: Contribution to journalArticleScientificpeer-review

Immunoglobulin Fragments
Immunoglobulin Fab Fragments
Temperature
Growth
Recombinant Proteins
3 Citations (Scopus)

Production and characterisation of AoSOX2 from Aspergillus oryzae, a novel flavin-dependent sulfhydryl oxidase with good pH and temperature stability

Faccio, G., Kruus, K., Buchert, J. & Saloheimo, M., 2011, In : Applied Microbiology and Biotechnology. 90, 3, p. 941-949 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Aspergillus oryzae
Temperature
Cysteine
Fungal Genome
Genome
13 Citations (Scopus)

Sulfhydryl oxidases: Sources, properties, production and applications

Faccio, G., Nivala, O., Kruus, K., Buchert, J. & Saloheimo, M., 2011, In : Applied Microbiology and Biotechnology. 91, 4, p. 957-966 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Enzymes
Proteins
Patents
Protein Folding
Sulfhydryl Compounds
8 Citations (Scopus)

The effects of disruption of phosphoglucose isomerase gene on carbon utilisation and cellulase production in Trichoderma reesei Rut-C30

Limón, M. C., Pakula, T., Saloheimo, M. & Penttilä, M., 24 May 2011, In : Microbial Cell Factories. 10, 40.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Glucose-6-Phosphate Isomerase
Trichoderma
Cellulase
Glucose
Carbon
77 Citations (Scopus)

Transformation system for hypocrea jecorina (trichoderma reesei) that favors homologous integration and employs reusable bidirectionally selectable markers

Steiger, M. G., Vitikainen, M., Uskonen, P., Brunner, K., Adam, G., Pakula, T., Penttilä, M., Saloheimo, M., Mach, R. L. & Mach-Aigner, A. R., 1 Jan 2011, In : Applied and Environmental Microbiology. 77, 1, p. 114-121

Research output: Contribution to journalArticleScientificpeer-review

Hypocrea
Hygromycin B
Trichoderma reesei
Trichoderma
Genetic Engineering
2010
60 Citations (Scopus)

Array comparative genomic hybridization analysis of Trichoderma reesei strains with enhanced cellulase production properties

Vitikainen, M., Arvas, M., Pakula, T., Oja, M., Penttilä, M. & Saloheimo, M., 19 Jul 2010, In : BMC Genomics. 11, 441.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Trichoderma
Comparative Genomic Hybridization
Cellulase
Mutation
Genetic Translocation
8 Citations (Scopus)

Detecting novel genes with sparse arrays

Arvas, M., Haiminen, N., Smit, B., Rautio, J., Vitikainen, M., Wiebe, M., Martinez, D., Chee, C., Kunkel, J., Sanchez, C., Nelson, M. A., Pakula, T., Saloheimo, M., Penttilä, M. & Kivioja, T., 1 Nov 2010, In : Gene. 467, 1-2, p. 41-51

Research output: Contribution to journalArticleScientificpeer-review

Genes
Genome
Costs and Cost Analysis
Trichoderma
Intergenic DNA
29 Citations (Scopus)

Discovery of a new tyrosinase-like enzyme family lacking a C-terminally processed domain: Production and characterization of an Aspergillus oryzae catechol oxidase

Gasparetti, C., Faccio, G., Arvas, M., Buchert, J., Saloheimo, M. & Kruus, K., 2010, In : Applied Microbiology and Biotechnology. 86, 1, p. 213-226 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Aspergillus oryzae
Catechol Oxidase
Monophenol Monooxygenase
Enzymes
Fungal Genome
31 Citations (Scopus)

Exploring laccase-like multicopper oxidase genes from the ascomycete Trichoderma reesei: A functional, phylogenetic and evolutionary study

Levasseur, A., Saloheimo, M., Navarro, D., Andberg, M., Pontarotti, P., Kruus, K. & Record, E., 2010, In : BMC biochemistry. 11, 32

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Laccase
Ascomycota
Trichoderma
Oxidoreductases
Genes
11 Citations (Scopus)

Secreted fungal sulfhydryl oxidases: Sequence analysis and characterisation of a representative flavin-dependent enzyme from Aspergillus oryzae

Faccio, G., Kruus, K., Buchert, J. & Saloheimo, M., 2010, In : BMC biochemistry. 11, 11 p., 31.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Aspergillus oryzae
Aspergillus
Sequence Analysis
Enzymes
Fungal Genome
2009
19 Citations (Scopus)
Open Access
Trichoderma
Glucose
Pathway
Carbon
Yeast
58 Citations (Scopus)

Essential role of the C-terminus in Melanocarpus albomyces laccase for enzyme production, catalytic properties and structure

Andberg, M., Hakulinen, N., Auer, S., Saloheimo, M., Koivula, A., Rouvinen, J. & Kruus, K., 2009, In : FEBS Journal. 276, 21, p. 6285-6300 16 p.

Research output: Contribution to journalArticleScientificpeer-review

Laccase
Yeast
Saccharomyces cerevisiae
Enzymes
Amino Acids
91 Citations (Scopus)

Eukaryotic protein production in designed storage organelles

Torrent, M., Llompart, B., Lasserre-Ramassamy, S., Llop-Tous, I., Bastida, M., Marzabal, P., Westerholm-Parvinen, A., Saloheimo, M., Heifetz, P. B. & Ludevid, M. D., 2009, In : BMC Biology. 7, 5.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
protein bodies
Organelles
organelles
recombinant proteins
protein
106 Citations (Scopus)

Genetic modification of carbon catabolite repression in Trichoderma reesei for improved protein production

Nakari-Setälä, T., Paloheimo, M., Kallio, J., Vehmaanperä, J., Penttilä, M. & Saloheimo, M., 1 Jul 2009, In : Applied and Environmental Microbiology. 75, 14, p. 4853-4860 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Catabolite Repression
Trichoderma reesei
Trichoderma
genetic engineering
Cellulase
34 Citations (Scopus)

Novel Coprinopsis cinerea Polyesterase that hydrolyzes cutin and Suberin

Kontkanen, H., Westerholm-Parvinen, A., Saloheimo, M., Bailey, M., Rättö, M., Mattila, I., Mohsina, M., Kalkkinen, N., Nakari-Setälä, T. & Buchert, J., 1 Apr 2009, In : Applied and Environmental Microbiology. 75, 7, p. 2148-2157 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Coprinopsis cinerea
cutin
suberin
cutinase
enzyme
2008
717 Citations (Scopus)

Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina)

Martinez, D., Berka, R. M., Henrissat, B., Saloheimo, M., Arvas, M., Baker, S. E., Chapman, J., Chertkov, O., Coutinho, P. M., Cullen, D., Danchin, E. G. J., Grigoriev, I. V., Harris, P., Jackson, M., Kubicek, C. P., Han, C. S., Ho, I., Larrondo, L. F., de Leon, A. L., Magnuson, J. K. & 26 others, Merino, S., Misra, M., Nelson, B., Putnam, N., Robbertse, B., Salamov, A. A., Schmoll, M., Terry, A., Thayer, N., Westerholm-Parvinen, A., Schoch, C. L., Yao, J., Barabote, R., Barbote, R., Nelson, M. A., Detter, C., Bruce, D., Kuske, C. R., Xie, G., Richardson, P., Rokhsar, D. S., Lucas, S. M., Rubin, E. M., Dunn-Coleman, N., Ward, M. & Brettin, T. S., May 2008, In : Nature Biotechnology. 26, 5, p. 553-560 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Hypocrea
Trichoderma
Fungi
Biomass
Genes
2007
38 Citations (Scopus)

Comparison of protein coding gene contents of the fungal phyla Pezizomycotina and Saccharomycotina

Arvas, M., Kivioja, T., Mitchell, A., Saloheimo, M., Ussery, D., Penttilä, M. & Oliver, S., 17 Sep 2007, In : BMC Genomics. 8, 23 p., 325.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Fungal Genes
Fungi
Genome
Genes
Neurospora crassa
16 Citations (Scopus)

Expression of the Trichoderma reesei Tyrosinase 2 in Pichia pastoris: Isotopic labeling and physicochemical characterization

Westerholm-Parvinen, A., Selinheimo, E., Boer, H., Kalkkinen, N., Mattinen, M. & Saloheimo, M., 2007, In : Protein Expression and Purification. 55, 1, p. 147-158

Research output: Contribution to journalArticleScientificpeer-review

Trichoderma
Pichia
Monophenol Monooxygenase
Enzymes
Tyrosine
83 Citations (Scopus)

Monitoring of transcriptional regulation in Pichia pastoris under protein production conditions

Gasser, B., Maurer, M., Rautio, J., Sauer, M., Bhattacharyya, A., Saloheimo, M., Penttilä, M. & Mattanovich, D., 19 Jun 2007, In : BMC Genomics. 8, 18 p., 179.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Pichia
Unfolded Protein Response
Genes
Proteins
Temperature
8 Citations (Scopus)

Physiological evaluation of the filamentous fungus Trichoderma reesei in production processes by marker gene expression analysis

Rautio, J. J., Bailey, M., Kivioja, T., Söderlund, H., Penttilä, M. & Saloheimo, M., 30 May 2007, In : BMC Biotechnology. 7, 16 p., 28.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Trichoderma
Fungi
Gene Expression
Genes
Growth
39 Citations (Scopus)

Spatially segregated SNARE protein interactions in living fungal cells

Valkonen, M., Kalkman, E. R., Saloheimo, M., Penttilä, M., Read, N. D. & Duncan, R. R., 3 Aug 2007, In : Journal of Biological Chemistry. 282, 31, p. 22775-22785

Research output: Contribution to journalArticleScientificpeer-review

SNARE Proteins
Cell membranes
Fungi
Optical Imaging
Cell Membrane
11 Citations (Scopus)

Use of a growth-associated control algorithm for efficient production of a heterologous laccase in Trichoderma reesei in fed-batch and continuous cultivation

Bailey, M., Adamitsch, B., Rautio, J., von Weymarn, N. & Saloheimo, M., 2007, In : Enzyme and Microbial Technology. 41, 4, p. 484-491

Research output: Contribution to journalArticleScientificpeer-review

Laccase
Trichoderma
Carbon
Lactose
Fermenters
2006
16 Citations (Scopus)

Characterization of Melanocarpus albomyces steryl esterase produced in Trichoderma reesei and modification of fibre products with the enzyme

Kontkanen, H., Saloheimo, M., Pere, J., Miettinen-Oinonen, A. & Reinikainen, T., 2006, In : Applied Microbiology and Biotechnology. 72, 4, p. 696-704 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Trichoderma
Polyethylene Terephthalates
Esterases
Substrate Specificity
Esters
8 Citations (Scopus)

Cloning and expression of a Melanocarpus albomyces steryl esterase gene in Pichia pastoris and Trichoderma reesei

Kontkanen, H., Reinikainen, T. & Saloheimo, M., 2006, In : Biotechnology and Bioengineering. 94, 3, p. 407-415 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Trichoderma
Pichia
Cloning
Esterases
Organism Cloning
76 Citations (Scopus)

Common features and interesting differences in transcriptional responses to secretion stress in the fungi Trichoderma reesei and Saccharomyces cerevisiae

Arvas, M., Pakula, T., Lanthaler, K., Saloheimo, M., Valkonen, M., Suortti, T., Robson, G. & Penttilä, M., 20 Mar 2006, In : BMC Genomics. 7, 32.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Trichoderma
Saccharomyces cerevisiae
Fungi
Genes
Unfolded Protein Response

Genome-wide analysis of protein production physiology in the filamentous fungus Trichoderma reesei

Saloheimo, M., Pakula, T., Arvas, M., Rautio, J. & Penttilä, M., 2006, In : Microbial Cell Factories. 5, Suppl. 1

Research output: Contribution to journalArticleScientificpeer-review

Open Access

Monitoring of transcript regulation and protein production related stress responses in Pichia pastoris secreting Fab antibody fragments

Gasser, B., Maurer, M., Sauer, M., Saloheimo, M., Rautio, J., Penttilä, M. & Mattanovich, D., 2006, In : Microbial Cell Factories. 5, Suppl. 1, S26.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
85 Citations (Scopus)

Production and characterization of a secreted, C-terminally processed tyrosinase from the filamentous fungus Trichoderma reesei

Selinheimo, E., Saloheimo, M., Ahola, E., Westerholm-Parvinen, A., Kalkkinen, N., Buchert, J. & Kruus, K., 2006, In : FEBS Journal. 273, 18, p. 4322-4335 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
Trichoderma
Monophenol Monooxygenase
Fungi
Chromatography
Gel Chromatography
36 Citations (Scopus)

Production of a chimeric enzyme tool associating the Trichoderma reesei swollenin with the Aspergillus niger feruloyl esterase A for release of ferulic acid

Levasseur, A., Saloheimo, M., Navarro, D., Andberg, M., Monot, F., Nakari-Setälä, T., Asther, M. & Record, E., 2006, In : Applied Microbiology and Biotechnology. 73, 4, p. 872 - 880

Research output: Contribution to journalArticleScientificpeer-review

ferulic acid
Trichoderma
Aspergillus niger
Enzymes
Proteins
40 Citations (Scopus)

Rapid and multiplexed transcript analysis of microbial cultures using capillary electophoresis-detectable oligonucleotide probe pools

Rautio, J. J., Kataja, K., Satokari, R., Penttilä, M., Söderlund, H. & Saloheimo, M., 1 Jun 2006, In : Journal of Microbiological Methods. 65, 3, p. 404-416 13 p.

Research output: Contribution to journalArticleScientificpeer-review

Oligonucleotide Probes
Messenger RNA
RNA
Trichoderma
Streptavidin