Biorefinery Training Platform: Bacterial Factories for Sustainable Chemical and Drug Production

Molin, Søren (Project Manager)
Nørholm, Morten (Project Manager)
Cavaleiro, Mafalda (PhD Student)
Machado, Henrique (PhD Student)
Wendel, Sofie (PhD Student)
van der Helm, Eric (PhD Student)
Bojanovic, Klara (PhD Student)
Vazquez Albacete, Dario (Project Participant)
D'Arrigo, Isotta (PhD Student)
Li, Songyuan (PhD Student)
Yang, Xiaochen (PhD Student)
Redl, Stephanie Maria Anna (PhD Student)
Pogrebnyakov, Ivan (PhD Student)
Lehning, Christina Eva (PhD Student)
Giubergia, Sonia (PhD Student)
Calero Valdayo, Patricia Maria (PhD Student)
Lohmann, Ricarda (Project Manager)

Novo Nordisk Foundation Center for Biosustainability

25 Journal article
5 Ph.D. thesis

25 results

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2017
An expression tag toolbox for microbial production of membrane bound plant cytochromes P450
Vazquez Albacete, D., Cavaleiro, M., Christensen, U., Seppala, S., Møller, B. L. & Nørholm, M., 2017, In: Biotechnology and Bioengineering. 114, 4, p. 751-760
Research output: Contribution to journal › Journal article › Research › peer-review

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Exploiting the potential of gas fermentation
Redl, S. M. A., Diender, M., Jensen, T. Ø., Sousa, D. Z. & Nielsen, A. T., 2017, In: Industrial Crops and Products. 106, p. 21-30
Research output: Contribution to journal › Journal article › Research › peer-review
FurIOS: a web-based tool for identification of Vibrionaceae species using the fur gene
Machado, H., Cardoso, J., Giubergia, S., Rapacki, K. & Gram, L., 2017, In: BMC Microbiology. 8, 8 p., 414.
Research output: Contribution to journal › Journal article › Research › peer-review

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Genetic toolbox for controlled expression of functional proteins in Geobacillus spp.
Pogrebnyakov, I., Jendresen, C. B. & Nielsen, A. T., 2017, In: PLOS ONE. 12, 2, 15 p., e0171313.
Research output: Contribution to journal › Journal article › Research › peer-review

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Growth on Chitin Impacts the Transcriptome and Metabolite Profiles of Antibiotic-Producing Vibrio coralliilyticus S2052 and Photobacterium galatheae S2753
Giubergia, S., Phippen, C., Nielsen, K. F. & Gram, L., 2017, In: mSystems. 2, 1, 12 p., e00141-16.
Research output: Contribution to journal › Journal article › Research › peer-review

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1057 Downloads (Orbit)
2016
A nanobody:GFP bacterial platform that enables functional enzyme display and easy quantification of display capacity
Wendel, S., Christian Fischer, E., Martinez, V., Seppala, S. & Nørholm, M., 2016, In: Microbial Cell Factories. 15, 13 p., 71.
Research output: Contribution to journal › Journal article › Research › peer-review

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Broad host range ProUSER vectors enable fast characterization of inducible promoters and optimization of p-coumaric acid production in Pseudomonas putida KT2440
Calero Valdayo, P., Ingemann Jensen, S. & Nielsen, A. T., 2016, In: A C S Synthetic Biology. 5, 7, p. 741-753 13 p.
Research output: Contribution to journal › Journal article › Research › peer-review
Enhanced protein and biochemical production using CRISPRi-based growth switches
Li, S., Jendresen, C. B., Grünberger, A., Ronda, C., Ingemann Jensen, S., Noack, S. & Nielsen, A. T., 2016, In: Metabolic Engineering. 38, p. 274-284 11 p.
Research output: Contribution to journal › Journal article › Research › peer-review
Generation of mutation hotspots in ageing bacterial colonies
Sekowska, A., Wendel, S., Christian Fischer, E., Nørholm, M. H. H. & Danchin, A., 2016, In: Scientific Reports. 6, 1, 7 p.
Research output: Contribution to journal › Journal article › Research › peer-review

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Genome-wide Escherichia coli stress response and improved tolerance towards industrially relevant chemicals
Rau, M. H., Calero Valdayo, P., Lennen, R., Long, K. & Nielsen, A. T., 2016, In: Microbial Cell Factories. 15, 18 p., 176.
Research output: Contribution to journal › Journal article › Research › peer-review

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Genome-wide mapping of transcription start sites yields novel insights into the primary transcriptome of Pseudomonas putida
D'Arrigo, I., Bojanovic, K., Yang, X., Rau, M. H. & Long, K., 2016, In: Environmental Microbiology. 18, 10, p. 3466-3481 16 p.
Research output: Contribution to journal › Journal article › Research › peer-review
Identification and validation of novel small proteins in Pseudomonas putida: Novel small proteins inP. putida
Yang, X., Ingemann Jensen, S., Wulff, T., Harrison, S. J. & Long, K., 2016, In: Environmental Microbiology Reports. 8, 6, p. 966–974
Research output: Contribution to journal › Journal article › Research › peer-review

Open Access
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Increasing production yield of tyrosine and mevalonate through inhibition of biomass formation
Li, S., Jendresen, C. B. & Nielsen, A. T., 2016, In: Process Biochemistry. 51, 12, p. 1992–2000 9 p.
Research output: Contribution to journal › Journal article › Research › peer-review
Influence of Niche-Specific Nutrients on Secondary Metabolism in Vibrionaceae
Giubergia, S., Phippen, C., Gotfredsen, C. H., Nielsen, K. F. & Gram, L., 2016, In: Applied and Environmental Microbiology. 82, 13, p. 4035-4044 10 p.
Research output: Contribution to journal › Journal article › Research › peer-review

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Reclassification of Alteromonas fuliginea (Romanenko et al. 1995) as Pseudoalteromonas fuliginea comb. nov. and emended description
Machado, H., Vynne, N. G., Christiansen, G. & Gram, L., 2016, In: International Journal of Systematic and Evolutionary Microbiology. 66, 9, p. 3737-3742
Research output: Contribution to journal › Journal article › Research › peer-review

Open Access
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349 Downloads (Orbit)
SEVA Linkers: A Versatile and Automatable DNA Backbone Exchange Standard for Synthetic Biology
Kim, S. H., Cavaleiro, M., Rennig, M. & Nørholm, M., 2016, In: A C S Synthetic Biology. 5, 10, p. 1177–1181 5 p.
Research output: Contribution to journal › Journal article › Research › peer-review
1 Downloads (Orbit)
2015
Accurate DNA assembly and genome engineering with optimized uracil excision cloning
Cavaleiro, M., Kim, S. H., Seppala, S., Nielsen, M. T. & Nørholm, M. H. H., 2015, In: A C S Synthetic Biology. 4, 9, p. 1042-1046 5 p.
Research output: Contribution to journal › Journal article › Research › peer-review
deFUME: Dynamic exploration of functional metagenomic sequencing data
van der Helm, E., Geertz-Hansen, H. M., Genee, H. J., Malla, S. & Sommer, M. O. A., 2015, In: BMC Research Notes. 8, 328, p. 328 1 p.
Research output: Contribution to journal › Journal article › Research › peer-review

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609 Downloads (Orbit)
Differential expression of small RNAs under chemical stress and fed-batch fermentation in E. coli
Rau, M. H., Nielsen, A. T. & Long, K., 2015, In: B M C Genomics. 16, 1051, 16 p.
Research output: Contribution to journal › Journal article › Research › peer-review

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537 Downloads (Orbit)
Genome mining reveals unlocked bioactive potential of marine Gram-negative bacteria
Machado, H., Sonnenschein, E., Melchiorsen, J. & Gram, L., 2015, In: B M C Genomics. 16, 158, 12 p.
Research output: Contribution to journal › Journal article › Research › peer-review

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719 Downloads (Orbit)
Photobacterium galatheae sp. nov., a bioactive bacterium isolated from a mussel in the Solomon Sea
Machado, H., Giubergia, S., Mateiu, R. V. & Gram, L., 2015, In: International Journal of Systematic and Evolutionary Microbiology. 65, 12, p. 4503-4507 5 p.
Research output: Contribution to journal › Journal article › Research › peer-review
The fur Gene as a New Phylogenetic Marker for Vibrionaceae Species Identification
Machado, H. & Gram, L., 2015, In: Applied and Environmental Microbiology. 81, 8, p. 2745-2752 8 p.
Research output: Contribution to journal › Journal article › Research › peer-review
Vibrio galatheae sp. nov., a novel member of the Vibrionaceae family isolated from the Solomon Sea.
Giubergia, S., Machado, H., Mateiu, R. V. & Gram, L., 2015, In: International Journal of Systematic and Evolutionary Microbiology. 66, p. 347-352 6 p.
Research output: Contribution to journal › Journal article › Research › peer-review

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2014
Draft Genome Sequence of Photobacterium halotolerans S2753, Producer of Bioactive Secondary Metabolites
Machado, H., Månsson, M. & Gram, L., 2014, In: Genome Announcements. 2, 3, 2 p., e00535-14.
Research output: Contribution to journal › Journal article › Research › peer-review

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496 Downloads (Orbit)
Global and Phylogenetic Distribution of Quorum Sensing Signals, Acyl Homoserine Lactones, in the Family of Vibrionaceae
Rasmussen, B. B., Nielsen, K. F., Machado, H., Melchiorsen, J., Gram, L. & Sonnenschein, E., 2014, In: Marine Drugs. 12, 11, p. 5527-5546
Research output: Contribution to journal › Journal article › Research › peer-review

Open Access
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833 Downloads (Orbit)

Biorefinery Training Platform: Bacterial Factories for Sustainable Chemical and Drug Production

An expression tag toolbox for microbial production of membrane bound plant cytochromes P450

Exploiting the potential of gas fermentation

FurIOS: a web-based tool for identification of Vibrionaceae species using the fur gene

Genetic toolbox for controlled expression of functional proteins in Geobacillus spp.

Growth on Chitin Impacts the Transcriptome and Metabolite Profiles of Antibiotic-Producing Vibrio coralliilyticus S2052 and Photobacterium galatheae S2753

A nanobody:GFP bacterial platform that enables functional enzyme display and easy quantification of display capacity

Broad host range ProUSER vectors enable fast characterization of inducible promoters and optimization of p-coumaric acid production in Pseudomonas putida KT2440

Enhanced protein and biochemical production using CRISPRi-based growth switches

Generation of mutation hotspots in ageing bacterial colonies

Genome-wide Escherichia coli stress response and improved tolerance towards industrially relevant chemicals

Genome-wide mapping of transcription start sites yields novel insights into the primary transcriptome of Pseudomonas putida

Identification and validation of novel small proteins in Pseudomonas putida: Novel small proteins inP. putida

Increasing production yield of tyrosine and mevalonate through inhibition of biomass formation

Influence of Niche-Specific Nutrients on Secondary Metabolism in Vibrionaceae

Reclassification of Alteromonas fuliginea (Romanenko et al. 1995) as Pseudoalteromonas fuliginea comb. nov. and emended description

SEVA Linkers: A Versatile and Automatable DNA Backbone Exchange Standard for Synthetic Biology

Accurate DNA assembly and genome engineering with optimized uracil excision cloning

deFUME: Dynamic exploration of functional metagenomic sequencing data

Differential expression of small RNAs under chemical stress and fed-batch fermentation in E. coli

Genome mining reveals unlocked bioactive potential of marine Gram-negative bacteria

Photobacterium galatheae sp. nov., a bioactive bacterium isolated from a mussel in the Solomon Sea

The fur Gene as a New Phylogenetic Marker for Vibrionaceae Species Identification

Vibrio galatheae sp. nov., a novel member of the Vibrionaceae family isolated from the Solomon Sea.

Draft Genome Sequence of Photobacterium halotolerans S2753, Producer of Bioactive Secondary Metabolites

Global and Phylogenetic Distribution of Quorum Sensing Signals, Acyl Homoserine Lactones, in the Family of Vibrionaceae

Biorefinery Training Platform: Bacterial Factories for Sustainable Chemical and Drug Production

Research output

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