Publications

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2021
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A BAFF/APRIL axis regulates obesogenic diet-driven weight gain

Chan, Calvin C ; Harley, Isaac T W ; Pfluger, Paul T ; Trompette, Aurelien ; Stankiewicz, Traci E ; Allen, Jessica L ; Moreno-Fernandez, Maria E ; Damen, Michelle S M A ; Oates, Jarren R ; Alarcon, Pablo C ; Doll, Jessica R ; Flick, Matthew J ; Flick, Leah M ; Sanchez-Gurmaches, Joan ; Mukherjee, Rajib ; Karns, Rebekah ; Helmrath, Michael ; Inge, Thomas H ; Weisberg, Stuart P ; Pamp, Sünje J ; Relman, David A ; Seeley, Randy J ; Tschöp, Matthias H ; Karp, Christopher L ; Divanovic, Senad
in: Nature Communications, vol: 12, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1038/s41467-021-23084-1

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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

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Adaptive evolution of engineered yeast for squalene production improvement and its genome-wide analysis

Paramasivan, Kalaivani ; Aneesha, A. ; Gupta, Nabarupa ; Mutturi, Sarma
in: Yeast

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1002/yea.3559

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antiSMASH 6.0: improving cluster detection and comparison capabilities

Blin, Kai ; Shaw, Simon ; Kloosterman, Alexander M ; Charlop-Powers, Zach ; van Wezel, Gilles P ; Medema, Marnix H ; Weber, Tilmann
in: Nucleic acids research

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1093/nar/gkab335

 

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

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A Peek into the Plasmidome of Global Sewage

Kirstahler, Philipp ; Teudt, Frederik ; Otani, Saria ; Aarestrup, Frank Møller ; Pamp, Sünje Johanna
in: mSystems, vol: 6, issue: 3

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1101/2021.03.08.434362

 

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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Bacterial fitness landscapes stratify based on proteome allocation associated with discrete aero-types

Chen, Ke ; Anand, Amitesh ; Olson, Connor ; Sandberg, Troy E. ; Gao, Ye ; Mih, Nathan ; Palsson, Bernhard O.
in: PLOS Computational Biology, vol: 17, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1371/journal.pcbi.1008596

 

Bayesian genome scale modelling identifies thermal determinants of yeast metabolism

Li, Gang ; Hu, Yating ; Jan Zrimec, Zrimec ; Luo, Hao ; Wang, Hao ; Zelezniak, Aleksej ; Ji, Boyang ; Nielsen, Jens
in: Nature Communications, vol: 12, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1038/s41467-020-20338-2

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Benchmarking accuracy and precision of intensity-based absolute quantification of protein abundances in Saccharomyces cerevisiae

Sánchez, Benjamín J. ; Lahtvee, Petri Jaan ; Campbell, Kate ; Kasvandik, Sergo ; Yu, Rosemary ; Domenzain, Iván ; Zelezniak, Aleksej ; Nielsen, Jens
in: Proteomics, vol: 21, issue: 6

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1002/pmic.202000093

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Berberine reverses multidrug resistance in Candida albicans by hijacking the drug efflux pump Mdr1p

Tong, Yaojun ; Zhang, Jingyu ; Sun, Nuo ; Wang, Xiang Ming ; Wei, Qi ; Zhang, Yu ; Huang, Ren ; Pu, Yingying ; Dai, Huanqin ; Ren, Biao ; Pei, Gang ; Song, Fuhang ; Zhu, Guoliang ; Wang, Xinye ; Xia, Xuekui ; Chen, Xiangyin ; Jiang, Lan ; Wang, Shenlin ; Ouyang, Liming ; Xie, Ning ; Zhang, Buchang ; Jiang, Yuanying ; Liu, Xueting ; Calderone, Richard ; Bai, Fan ; Zhang, Lixin ; Alterovitz, Gil
in: Science Bulletin

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.scib.2020.12.035

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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

 

Biofuels for a sustainable future

Liu, Yuzhong ; Cruz-Morales, Pablo ; Zargar, Amin ; Belcher, Michael S. ; Pang, Bo ; Englund, Elias ; Dan, Qingyun ; Yin, Kevin ; Keasling, Jay D.
in: CELL, vol: 184, issue: 6, pages: 1636-1647

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.cell.2021.01.052

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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

 

Biotechnological production of the European corn borer sex pheromone in the yeast Yarrowia lipolytica

Petkevicius, Karolis ; Koutsoumpeli, Eleni ; Betsi, Petri Christina ; Ding, Bao Jian ; Kildegaard, Kanchana Rueksomtawin ; Jensen, Hilbert ; Mezo, Nora ; Mazziotta, Andrea ; Gabrielsson, Anders ; Sinkwitz, Christina ; Lorantfy, Bettina ; Holkenbrink, Carina ; Löfstedt, Christer ; Raptopoulos, Dimitris ; Konstantopoulou, Maria ; Borodina, Irina
in: Biotechnology Journal

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2021     |    DOI: https://doi.org/10.1002/biot.202100004

 

Brazilian biorefineries from second generation biomass: critical insights from industry and future perspectives

Chandel, Anuj K. ; Forte, Marcus B.S. ; Gonçalves, Igor S. ; Milessi, Thais S. ; Arruda, Priscila V. ; Carvalho, Walter ; Mussatto, Solange I.
in: Biofuels, Bioproducts and Biorefining, vol: 15, issue: 4, pages: 1190-1208

Type: Review (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1002/bbb.2234

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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

 

Co-delivery of ciprofloxacin and colistin using microcontainers for bacterial biofilm treatment

Birk, Stine Egebro ; Mazzoni, Chiara ; Mobasharah Javed, Madeeha ; Borre Hansen, Morten ; Krogh Johansen, Helle ; Anders Juul Haagensen, Janus ; Molin, Søren ; Hagner Nielsen, Line ; Boisen, Anja
in: INTERNATIONAL JOURNAL OF PHARMACEUTICS, vol: 599

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1016/j.ijpharm.2021.120420

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Colorimetric LPMO assay with direct implication for cellulolytic activity

Brander, Søren ; Lausten, Stine ; Ipsen, Johan ; Falkenberg, Kristoffer B. ; Bertelsen, Andreas B. ; Nørholm, Morten H.H. ; Østergaard, Lars H. ; Johansen, Katja S.
in: Biotechnology for Biofuels, vol: 14, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1186/s13068-021-01902-4

 

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, vol: 15, issue: 1, pages: 257-281

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1002/bbb.2160

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Compatibility of Evolutionary Responses to Constituent Antibiotics Drive Resistance Evolution to Drug Pairs

Jahn, Leonie Johanna ; Simon, Daniel ; Jensen, Rikke Mia Helmer ; Bradshaw, Charles ; Ellabaan, Mostafa Mostafa Hashim ; Sommer, Morten Otto Alexander
in: Molecular Biology and Evolution, vol: 38, issue: 5, pages: 2057-2069

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1093/molbev/msab006

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Complete genome sequence of Streptomyces sp. strain CA-256286

Beck, Charlotte ; Gren, Tetiana ; Jørgensen, Tue S. ; González, Ignacio ; Román-Hurtado, Fernando ; Oves-Costales, Daniel ; Genilloud, Olga ; Weber, Tilmann
in: Microbiology Resource Announcements, vol: 10, issue: 22, pages: e00290-21

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2021     |    DOI: https://doi.org/10.1128/MRA.00290-21