Publications

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2021
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A critical assessment of the Flory-Huggins (FH) theory to predict aqueous two-phase behaviour

Bussamra, Bianca Consorti ; Sietaram, Devi ; Verheijen, Peter ; Mussatto, Solange I. ; da Costa, Aline Carvalho ; van der Wielen, Luuk ; Ottens, Marcel
in: Separation and Purification Technology, vol: 255

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.seppur.2020.117636

 

A palette of fluorophores that are differentially accumulated by wild-type and mutant strains of Escherichia coli: surrogate ligands for profiling bacterial membrane transporters

Salcedo-Sora, Jesus Enrique ; Jindal, Srijan ; O'Hagan, Steve ; Kell, Douglas B.
in: Microbiology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1099/mic.0.001016

 

A spatially explicit assessment of sugarcane vinasse as a sustainable by-product

Buller, Luz Selene ; Romero, Cristhy Willy da Silva ; Lamparelli, Rubens Augusto Camargo ; Ferreira, Samuel Fontenelle ; Bortoleto, Ana Paula ; Mussatto, Solange I. ; Forster-Carneiro, Tânia
in: Science of the Total Environment

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.scitotenv.2020.142717

 

A versatile biosensing platform coupling CRISPR–Cas12a and aptamers for detection of diverse analytes

Zhao, Xiangxiang ; Li, Shanshan ; Liu, Guang ; Wang, Zhong ; Yang, Zhiheng ; Zhang, Quanwei ; Liang, Mindong ; Liu, Jiakun ; Li, Zilong ; Tong, Yaojun ; Zhu, Guoliang ; Wang, Xinye ; Jiang, Lan ; Wang, Weishan ; Tan, Gao-Yi ; Zhang, Lixin
in: Science Bulletin, vol: 66, issue: 1, pages: 69-77

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.scib.2020.09.004

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BiG-FAM: the biosynthetic gene cluster families database

Kautsar, Satria A ; Blin, Kai ; Shaw, Simon ; Weber, Tilmann ; Medema, Marnix H.
in: Nucleic acids research, vol: 49, issue: D1, pages: D490–D497

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1093/nar/gkaa812

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Bioprocess intensification: Cases that (don't) work

van der Wielen, Luuk A.M. ; Mussatto, Solange I. ; van Breugel, Jan
in: New Biotechnology, vol: 61, pages: 108-115

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.nbt.2020.11.007

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Characterization of local gut microbiome and intestinal transcriptome responses to rosiglitazone treatment in diabetic db/db mice

Madsen, Mette Simone Aae ; Grønlund, Rikke Veggerby ; Eid, John ; Christensen-Dalsgaard, Mikkel ; Sommer, Morten Otto Alexander ; Rigbolt, Kristoffer ; Madsen, Martin Rønn ; Jelsing, Jacob ; Vrang, Niels ; Hansen, Henrik H. ; Mikkelsen, Martin Tue
in: Biomedicine and Pharmacotherapy, vol: 133

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.biopha.2020.110966

 

Commodity chemical production from third-generation biomass: a techno-economic assessment of lactic acid production

Grasa, Elena T. ; Ögmundarson, Ólafur ; Gavala, Hariklia N. ; Sukumara, Sumesh
in: Biofuels, Bioproducts and Biorefining

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1002/bbb.2160

 

Directed Evolution of CRISPR/Cas Systems for Precise Gene Editing

Liu, Rongming ; Liang, Liya ; Freed, Emily F. ; Gill, Ryan T.
in: Trends in Biotechnology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.tibtech.2020.07.005

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Distribution of Epsilon-Polylysine Synthetases in Coryneform Bacteria Isolated from Cheese and Human Skin

Jiang, Xinglin ; Radko, Yulia ; Gren, Tetiana ; Palazzotto, Emilia ; Jørgensen, Tue Sparholt ; Cheng, Tao ; Xian, Mo ; Weber, Tilmann ; Lee, Sang Yup
in: bioRxiv

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021

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Embryo-like features in developing Bacillus subtilis biofilms

Futo, Momir ; Opašić, Luka ; Koska, Sara ; Čorak, Nina ; Široki, Tin ; Ravikumar, Vaishnavi ; Thorsell, Annika ; Lenuzzi, Maša ; Kifer, Domagoj ; Domazet-Lošo, Mirjana ; Vlahoviček, Kristian ; Mijakovic, Ivan ; Domazet-Lošo, Tomislav
in: Molecular Biology and Evolution, vol: 38, issue: 1, pages: 31-47

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1093/molbev/msaa217

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Engineering Native and Synthetic Pathways in Pseudomonas Putida for the Production of Tailored Polyhydroxyalkanoates

Mezzina, Mariela P ; Manoli, María Tsampika ; Prieto, M. Auxiliadora ; Nikel, Pablo Ivan
in: Biotechnology Journal

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1002/biot.202000165

 

Flapjack: Data Management and Analysis for Genetic Circuit Characterization

Yáñez Feliú, Guillermo ; Earle Gómez, Benjamín ; Codoceo Berrocal, Verner ; Muñoz Silva, Macarena ; Nuñez, Isaac N ; Matute, Tamara F ; Arce Medina, Anibal ; Vidal, Gonzalo ; Vidal Céspedes, Carlos ; Dahlin, Jonathan ; Federici, Fernán ; Rudge, Timothy J
in: ACS Synthetic Biology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1021/acssynbio.0c00554

 

Graphene-Based Antimicrobial Biomedical Surfaces

Pandit, Santosh ; Gaska, Karolina ; Kádár, Roland ; Mijakovic, Ivan
in: ChemPhysChem

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1002/cphc.202000769

 

In situ detection of protein interactions for recombinant therapeutic enzymes

Samoudi, Mojtaba ; Chung Kuo, Chih ; Robinson, Caressa M. ; Shams-Ud-Doha, Km ; Schinn, Song-Min ; Kol, Stefan ; Weiss, Linus ; Petersen Bjørn, Sara ; Voldborg, Bjørn G. ; Rosa Campos, Alexandre ; Lewis, Nathan E.
in: Biotechnology and Bioengineering

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1002/bit.27621

 

Metabolic engineering of Saccharomyces cerevisiae for production of β-carotene from hydrophobic substrates

Fathi, Zahra ; Ribeiro Ramos Tramontin, Larissa ; Ebrahimipour, Gholamhossein ; Borodina, Irina ; Darvishi, Farshad
in: FEMS Yeast Research

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1093/femsyr/foaa068

 

Metabolic Modeling and Omics Data Integration: A Systems Biology Approach to Food Science

Marín de Mas, Igor Batolomé ; de Leeuw, Marina ; Ghaffari Nouran, Pouyan ; Nielsen, Lars Keld
part of: Comprehensive Foodomics, pages: 396-413, 2021

Type: Book chapter (Peer reviewed)

Status: Published     |    Year: 2021

 

Metabolic modeling predicts specific gut bacteria as key determinants for Candida albicans colonization levels

Mirhakkak, Mohammad H ; Schäuble, Sascha ; Klassert, Tilman E ; Brunke, Sascha ; Brandt, Philipp ; Loos, Daniel ; Uribe, Ruben V ; Senne de Oliveira Lino, Felipe ; Ni, Yueqiong ; Vylkova, Slavena ; Slevogt, Hortense ; Hube, Bernhard ; Weiss, Glen J ; Sommer, Morten Otto Alexander ; Panagiotou, Gianni
in: ISME Journal

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1038/s41396-020-00848-z

 

Natural product C-glycosyltransferases - a scarcely characterised enzymatic activity with biotechnological potential

Putkaradze, Natalia ; Tezé, David ; Fredslund, Folmer ; Welner, Ditte Hededam
in: Natural Product Reports

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1039/d0np00040j

 

‘Omics driven discoveries of gene targets for apoptosis attenuation in CHO cells

Orellana, Camila A. ; Martínez, Verónica S. ; MacDonald, Michael A. ; Henry, Matthew N. ; Gillard, Marianne ; Gray, Peter P. ; Nielsen, Lars K. ; Mahler, Stephen ; Marcellin, Esteban
in: Biotechnology and Bioengineering, vol: 118, issue: 1, pages: 481-490

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1002/bit.27548

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Optimising the biosynthesis of oxygenated and acetylated Taxol precursors in Saccharomyces cerevisiae using advanced bioprocessing strategies

Walls, Laura E. ; Malci, Koray ; Nowrouzi, Behnaz ; Li, Rachel ; d'Espaux, Leo ; Wong, Jeff ; Dennis, Jonathan A. ; Semiao, Andrea J C ; Wallace, Stephen ; Martinez, José L. ; Keasling, Jay D. ; Rios-Solis, Leonardo
in: Biotechnology and Bioengineering, vol: 118, issue: 1, pages: 279-293

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1002/bit.27569

 

Pseudomonas aeruginosa adaptation and evolution in patients with cystic fibrosis

Rossi, Elio ; La Rosa, Ruggero ; Bartell, Jennifer A ; Marvig, Rasmus Lykke ; Haagensen, Janus Anders Juul ; Sommer, Lea M. ; Molin, Søren ; Johansen, Helle Krogh
in: Nature Reviews. Microbiology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1038/s41579-020-00477-5

 

Scalable computation of intracellular metabolite concentrations

Akbari, Amir ; Palsson, Bernhard O.
in: Computers and Chemical Engineering, vol: 145

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.compchemeng.2020.107164

 

Short and long-read ultra-deep sequencing profiles emerging heterogeneity across five platform Escherichia coli strains

Rugbjerg, Peter ; Dyerberg, Anne Sofie Brask ; Quainoo, Scott ; Munck, Christian ; Sommer, Morten Otto Alexander
in: Metabolic Engineering

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.ymben.2020.11.006