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Full length article for submission to New Biotechnology A monodispersed metal-complexing peptide-based polymer for mass cytometry enabling spectral applications New Biotechnol. (IF 5.4) Pub Date : 2024-03-16 J. Verhoeff, S. van Asten, L. Kuijper, M. van den Braber, Erika Amstalden, Rob Haselberg, H. Kalay, J.J. Garcia Vallejo
We report the synthesis of a novel class of metal-complexing peptide-based polymers, which we name HyperMAPs (-loaded etl-complexed olymers). The controlled solid-phase synthesis of HyperMAPs’ scaffold peptide provides our polymer with a well-defined molecular structure that allows for an accurate on-design assembly of a wide variety of metals. The peptide-scaffold features a handle for direct conjugation
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Learning vs. understanding: When does artificial intelligence outperform process-based modeling in soil organic carbon prediction? New Biotechnol. (IF 5.4) Pub Date : 2024-03-08 Luca G. Bernardini, Christoph Rosinger, Gernot Bodner, Katharina M. Keiblinger, Emma Izquierdo-Verdiguier, Heide Spiegel, Carl O. Retzlaff, Andreas Holzinger
In recent years, machine learning (ML) algorithms have gained substantial recognition for ecological modeling across various temporal and spatial scales. However, little evaluation has been conducted for the prediction of soil organic carbon (SOC) on small data sets commonly inherent to long-term soil ecological research. In this context, the performance of ML algorithms for SOC prediction has never
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The origins and success of the EFB Journal New Biotechnology under the leadership of Mike Taussig New Biotechnol. (IF 5.4) Pub Date : 2024-02-28 Jeffrey A. Cole
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XPORT ENTRAP: A droplet microfluidic platform for enhanced DNA transfer between microbial species New Biotechnol. (IF 5.4) Pub Date : 2024-02-24 Jose A. Wippold, Monica Chu, Rebecca Renberg, Yuwen Li, Bryn Adams, Arum Han
A significant hurdle for the widespread implementation and use of synthetic biology is the challenge of highly efficient introduction of DNA into microorganisms. This is especially a barrier for the utilization of non-model organisms and/or novel chassis species for a variety of applications, ranging from molecular biology to biotechnology and biomanufacturing applications. Common approaches to episomal
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Continuous H-B-E fermentation by Clostridium carboxidivorans: CO vs syngas New Biotechnol. (IF 5.4) Pub Date : 2024-02-22 F. Lanzillo, S. Pisacane, M. Capilla, F. Raganati, M.E. Russo, P. Salatino, A. Marzocchella
Leveraging renewable carbon-based resources for energy and chemical production is a promising approach to decrease reliance on fossil fuels. This entails a thermo/biotechnological procedure wherein bacteria, notably , ferment syngas, converting CO or CO + H into Hexanol, Butanol and Ethanol (H-B-E fermentation).
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Earth: Extinguishing anthropogenic risks through harmonization New Biotechnol. (IF 5.4) Pub Date : 2024-02-15 T, a, e, , S, e, o, k, , M, o, o, n
Human diseases can kill one person at a time, but the COVID-19 pandemic showed massacres could be possible. The climate crisis could be even worse, potentially leading to a bigger number of deaths of the human species and all living systems on Earth. I urge us to change our human-focused mindset to solve many problems, including the climate crisis, which humans caused to the entire ecosystems due to
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Deep mining of antibody phage-display selections using Oxford Nanopore Technologies and Dual Unique Molecular Identifiers New Biotechnol. (IF 5.4) Pub Date : 2024-02-12 Oscar Mejias-Gomez, Marta Braghetto, Morten Kielsgaard Dziegiel Sørensen, Andreas Visbech Madsen, Laura Salse Guiu, Peter Kristensen, Lasse Ebdrup Pedersen, Steffen Goletz
Antibody phage-display technology identifies antibody-antigen interactions through multiple panning rounds, but traditional screening gives no information on enrichment or diversity throughout the process. This results in the loss of valuable binders. Next Generation Sequencing can overcome this problem. We introduce a high accuracy long-read sequencing method based on the recent Oxford Nanopore Technologies
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Robust and resource-efficient production process suitable for large-scale production of baculovirus through high cell density seed train and optimized infection strategy New Biotechnol. (IF 5.4) Pub Date : 2024-02-01 Lena Achleitner, Martina Winter, Patricia Pereira Aguilar, Nico Lingg, Alois Jungbauer, Miriam Klausberger, Peter Satzer
The aim of this study was the development of a scalable production process for high titer (10 pfu/mL and above) recombinant baculovirus stocks with low cell line-derived impurities for the production of virus-like particles (VLP). To achieve this, we developed a high cell density (HCD) culture for low footprint cell proliferation, compared different infection strategies at multiplicity of infection
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From food waste to eco-friendly functionalized polymer composites: Investigation of orange peels as active filler New Biotechnol. (IF 5.4) Pub Date : 2024-01-20 Elia Pagliarini, Carmen Minichiello, Laura Sisti, Grazia Totaro, Loredana Baffoni, Diana Di Gioia, Andrea Saccani
The development of eco-friendly polymer composites with multifunctional properties aligns with the goals of the circular economy agenda, which aims to minimize waste and promote the sustainable use of resources by closing the loop of product life cycles. Eco-friendly polymer composites play a crucial role in achieving these objectives. The present work focuses on the preparation of fully biobased blends
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Protein coding regions prediction by fusing DNA shape features New Biotechnol. (IF 5.4) Pub Date : 2024-01-03 Miao Chen, Yangyang Li, Kun Zhang, Hao Liu
Exons crucial for coding are often hidden within introns, and the two tend to vary greatly in length, which results in deep learning-based protein coding region prediction methods often performing poorly when applied to more structurally complex biological genomes. DNA shape information also plays a role in revealing the underlying logic of gene expression, yet current methods ignore the influence
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Live cell pool and rare cell isolation using Enrich TROVO system New Biotechnol. (IF 5.4) Pub Date : 2024-01-02 Stephen Rotatori, Yichong Zhang, Kirby Madden-Hennessey, Christina Mohammed, Chi-han Yang, Jordan Urbani, Prem Shrestha, Joseph Pettinelli, Dong Wang, Xueqi Liu, Qi Zhao
Although several technologies have been developed to isolate cells of interest from a heterogenous sample, clogging and impaired cell viability limit such isolation. We have developed the Enrich TROVO system as a novel, nonfluidic technology to sort live cells. The TROVO system combines imaging-based cell selection and photo-crosslinking of (gelatin methacrylate) gelMA-hydrogel to capture cells. After
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Co-culture platform for tuning of cancer receptor density allows for evaluation of bispecific immune cell engagers New Biotechnol. (IF 5.4) Pub Date : 2023-12-28 Aman Mebrahtu, Gustav Aniander, Alessandro Mega, Mona Moradi Barzadd, Niklas Berndt Thalén, Lindvi Gudmundsdotter, Eva Backström Rydin, Anna Sandegren, Fredrik Y Frejd, Johan Rockberg
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Biorefinery of brewery spent grain to obtain bioproducts with high value-added in the market New Biotechnol. (IF 5.4) Pub Date : 2023-12-28 David Outeiriño, Iván Costa-Trigo, Aida Ochogavias, Ricardo Pinheiro de Souza Oliveira, Nelson Pérez Guerra, José Manuel Salgado, José Manuel Domínguez
The brewery industry is under economic and environmental pressure to minimize residual management costs, particularly brewery spent grain (BSG), which accounts for 80-85% (w/w) of the total by-products generated. BSG is a lignocellulosic material primarily composed of carbohydrates, proteins and lipids. Developing a biorefinery model for conversion of BSG into value-added products is a plausible idea
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In pursuit of a minimal CHO genome: Establishment of large-scale genome deletions New Biotechnol. (IF 5.4) Pub Date : 2023-12-27 Tobias Jerabek, Linus Weiß, Hannah Fahrion, Nikolas Zeh, Nadja Raab, Benjamin Lindner, Simon Fischer, Kerstin Otte
Chinese hamster ovary (CHO) cells are the most commonly used mammalian cell line for the production of complex therapeutic glycoproteins. As CHO cells have evolved as part of a multicellular organism, they harbor many cellular functions irrelevant for their application as production hosts in industrial bioprocesses. Consequently, CHO cells have been the target for numerous genetic engineering efforts
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Post-translational secretion stress regulation in Bacillus subtilis is controlled by intra- and extracellular proteases New Biotechnol. (IF 5.4) Pub Date : 2023-12-27 Ayşegül Öktem, Dicky A. Pranoto, Jan Maarten van Dijl
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Novel β-galactosidase activity and first crystal structure of Glycoside Hydrolase family 154 New Biotechnol. (IF 5.4) Pub Date : 2023-12-30 Lisanne Hameleers, Tjaard Pijning, Brandon B. Gray, Régis Fauré, Edita Jurak
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Inefficient transcription is a production bottleneck for artificial therapeutic BiTE® proteins New Biotechnol. (IF 5.4) Pub Date : 2023-12-26 Tobias Jerabek, Madina Burkhart, Selina Goetz, Benedikt Greck, Anika Menthe, Ruediger Neef, Kerstin Otte
Antibodies are potent biopharmaceuticals used to treat severe diseases, including cancers. During the past decade, more complex modalities have been developed including bispecific T-cell engager (BiTE®) molecules, e.g. by Amgen. However, non-natural and complex molecule formats often prove to be difficult-to-express (DTE), which is the case for BiTE® molecules. Due to the growing importance of multispecific
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Pre-analytical properties of different respiratory viruses for PCR-based detection: Comparative analysis of sampling devices and sample stabilization solutions New Biotechnol. (IF 5.4) Pub Date : 2023-12-23 Melina Hardt, Franziska Kaiser, Thorsten Voss, Uwe Oelmüller, Kurt Zatloukal
After the decline of the COVID-19 pandemic, health systems were challenged by the simultaneous prevalence of different respiratory viruses causing a wide overlap in symptoms. This increased the demand for multi-virus diagnostic tests which require suitable pre-analytical workflow solutions in order to receive valid diagnostic results. In this context, the effects of specimen storage duration and temperature
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Site-directed neutralizing antibodies targeting structural sites on SARS-CoV-2 spike protein New Biotechnol. (IF 5.4) Pub Date : 2023-12-20 Xiaofeng Li, Liudmila Kulakova, Kezzia Jones, Eric A. Toth, Marina Kirkland Mitchell, Qiana Mendez, Michael P. Weiner, Thomas R. Fuerst
‘Epivolve’ (tope eution) is an innovative paratope-evolving technology using a haptenated peptide or protein immunogen as a means of directing the immune response to specifically targeted sites at a one amino acid residue resolution. Guided by protein structural analysis, Epivolve technology was tested to develop site-directed neutralizing antibodies (nAbs) in a systematic fashion against the SARS-CoV-2
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Phytostabilization of metal(loid)s by ten emergent macrophytes following a 90-day exposure to industrially contaminated groundwater New Biotechnol. (IF 5.4) Pub Date : 2023-12-19 Blanca Velasco-Arroyo, Sandra Curiel-Alegre, Aqib Hassan Ali Khan, Carlos Rumbo, Daniel Pérez-Alonso, Carlos Rad, Herwig De Wilde, Alfredo Pérez-de-Mora, Rocío Barros
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Inter-patient heterogeneity in the hepatic ischemia-reperfusion injury transcriptome: Implications for research and diagnostics New Biotechnol. (IF 5.4) Pub Date : 2023-12-10 Silvia Groiss, Christian Viertler, Marcel Kap, Gerwin Bernhardt, Hans-Jörg Mischinger, Anieta Sieuwerts, Cees Verhoef, Peter Riegman, Mogens Kruhøffer, David Svec, Sjoback Robert Sjöback, Karl-Friedrich Becker, Kurt Zatloukal
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Bioinformatics and functional selection of GH77 4-α-glucanotransferases for potato starch modification New Biotechnol. (IF 5.4) Pub Date : 2023-12-12 Stefan Jarl Christensen, Michael Schmidt Madsen, Signe Schram Zinck, Christinne Hedberg, Ole Bandsholm Sørensen, Birte Svensson, Anne S. Meyer
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Insights into the effects of anthropogenic activities on oil reservoir microbiome and metabolic potential New Biotechnol. (IF 5.4) Pub Date : 2023-11-30 Fatou T. Mbow, Ali Akbari, Nicole Dopffel, Konstantin Schneider, Soujatya Mukherjee, Rainer U. Meckenstock
Microbial communities have long been observed in oil reservoirs, where the subsurface conditions are major drivers shaping their structure and functions. Furthermore, anthropogenic activities such as water flooding during oil production can affect microbial activities and community compositions in oil reservoirs through the injection of recycled produced water, often associated with biocides. However
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Manipulating gene expression levels in mammalian cell factories: An outline of synthetic molecular toolboxes to achieve multiplexed control New Biotechnol. (IF 5.4) Pub Date : 2023-11-30 Peter Eisenhut, Nicolas Marx, Giulia Borsi, Maja Papež, Caterina Ruggeri, Martina Baumann, Nicole Borth
Mammalian cells have developed dedicated molecular mechanisms to tightly control expression levels of their genes where the specific transcriptomic signature across all genes eventually determines the cell’s phenotype. Modulating cellular phenotypes is of major interest to study their role in disease or to reprogram cells for the manufacturing of recombinant products, such as biopharmaceuticals. Cells
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Artificial intelligence / machine-learning tool for post-market surveillance of in vitro diagnostic assays New Biotechnol. (IF 5.4) Pub Date : 2023-11-29 Joanna Reniewicz, Vinay Suryaprakash, Justyna Kowalczyk, Anna Blacha, Greg Kostello, Haiming Tan, Yan Wang, Patrick Reineke, Davide Manissero
The study compares an artificial intelligence technology with traditional manual search of literature databases to assess the accuracy and efficiency of retrieving relevant articles for post-market surveillance of in vitro diagnostic and medical devices under the Medical Device Regulation and In Vitro Diagnostic Medical Device Regulation. Over a 3-year period, literature searches and technical assessment
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Effect of seawater on the biomass composition of Spirulina produced at a pilot-scale New Biotechnol. (IF 5.4) Pub Date : 2023-11-14 Silvia Villaró, Marco García-Vaquero, Lara Morán, Carlos Álvarez, Eduarda Melo Cabral, Tomas Lafarga
The microalga Arthrospira platensis BEA 005B was produced in 11.4 m3 raceway photobioreactors and a culture medium based on commercial fertilisers and either freshwater or seawater. The biomass productivity of the reactors operated at a fixed dilution rate of 0.3 day−1 decreased from 22.9 g·m−2·day−1 when operated using freshwater to 16.3 g·m−2·day−1 when the biomass was produced using seawater. The
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Significance of poly(ethylene terephthalate) (PET) substrate crystallinity on enzymatic degradation New Biotechnol. (IF 5.4) Pub Date : 2023-11-07 Thore Bach Thomsen, Kristoffer Almdal, Anne S. Meyer
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EBRC: Enhancing bioeconomy through research and communication New Biotechnol. (IF 5.4) Pub Date : 2023-10-31 Tae Seok Moon
On September 12, 2022, President Biden issued Executive Order 14081 to enable the progress of biomanufacturing and biotechnology. This timely initiative will help overcome many challenging issues, and its potential impacts will be huge. This article discusses eight recommendations to make this US national initiative successful, encourage other nations to consider similar initiatives, and create a better
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Effective application of immobilized second generation industrial Saccharomyces cerevisiae strain on consolidated bioprocessing New Biotechnol. (IF 5.4) Pub Date : 2023-10-31 Márcio D.N. Ramos, Juliana P. Sandri, Arne Claes, Bruna T. Carvalho, Johan M. Thevelein, Teresa C. Zangirolami, Thais S. Milessi
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The stressostat: A novel approach in adaptive laboratory evolution to improve end-product resistance New Biotechnol. (IF 5.4) Pub Date : 2023-10-23 Sylviani Hartono, Marlisa F.A. Meijerink, Tjakko Abee, Eddy J. Smid, Oscar van Mastrigt
End-product inhibition in pH-controlled batch cultures, is the major limiting factor for bacterial biomass formation in the starter culture industry as well as in many other biotechnological processes. Adaptive laboratory evolution (ALE) has emerged over the past decades as a powerful tool for phenotype optimization, but none of the existing ALE methods could select for improved end-product resistance
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Effects of municipal waste compost on microbial biodiversity and energy production in terrestrial microbial fuel cells New Biotechnol. (IF 5.4) Pub Date : 2023-10-22 Gian Luigi Garbini, Anna Barra Caracciolo, Ludovica Rolando, Andrea Visca, Domenico Borello, Carlotta Cosentini, Gabriele Gagliardi, Ioannis Ieropoulos, Paola Grenni
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Electrochemical H2O2 - stat mode as reaction concept to improve the process performance of an unspecific peroxygenase New Biotechnol. (IF 5.4) Pub Date : 2023-10-16 Giovanni V. Sayoga, Victoria S. Bueschler, Hubert Beisch, Tyll Utesch, Dirk Holtmann, Bodo Fiedler, Daniel Ohde, Andreas Liese
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New strategy for bioplastic and exopolysaccharides production: Enrichment of field microbiomes with cyanobacteria New Biotechnol. (IF 5.4) Pub Date : 2023-10-16 Beatriz Altamira-Algarra, Estel Rueda, Artai Lage, David San León, Juan F. Martínez-Blanch, Juan Nogales, Joan García, Eva Gonzalez-Flo
Seven photosynthethic microbiomes were collected from field environmental samples to test their potential in polyhydroxybutyrate (PHB) and exopolysaccharides (EPS) production, both alternatives to chemical-based polymers. Microscope observations together with microbial sequence analysis revealed the microbiome enrichment in cyanobacteria after culture growth under phosphorus limitation. PHB and EPS
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Personalized 3D printed scaffolds: The ethical aspects New Biotechnol. (IF 5.4) Pub Date : 2023-10-15 Manon van Daal, Anne-Floor J. de Kanter, Annelien L. Bredenoord, Nienke de Graeff
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Open (non-sterile) cultivations of Debaryomyces hansenii for recombinant protein production combining industrial side-streams with high salt content New Biotechnol. (IF 5.4) Pub Date : 2023-10-15 Mònica Estrada, Clara Navarrete, Sønke Møller, Manuel Quirós, José L. Martínez
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Pilot-scale production of mcl-PHA by Pseudomonas citronellolis using acetic acid as the sole carbon source New Biotechnol. (IF 5.4) Pub Date : 2023-10-10 Milos Kacanski, Franz Stelzer, Meg Walsh, Shane Kenny, Kevin O’Connor, Markus Neureiter
Medium-chain-length polyhydroxyalkanoates (mcl-PHA) are biobased materials with promising properties for environmentally friendly applications. Due to high production costs, which are related to the cost of the carbon sources combined with conversion insufficiencies, currently only small quantities are produced. This results in a lack of reliable data on properties and application potential for the
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Site-specific antibody masking enables conditional activation with different stimuli New Biotechnol. (IF 5.4) Pub Date : 2023-10-10 Roberta Lucchi, Maria C. Lucana, Montserrat Escobar-Rosales, Cristina Díaz-Perlas, Benjamí Oller-Salvia
Antibody therapeutics show great potential to treat a variety of diseases. Often, the dose that can be safely administered is limited by side effects that arise from the interaction with the target outside the diseased tissue. Conditionally-active antibodies provide an additional layer of selectivity to improve safety. Distinct external stimuli or internal cues enable different control strategies and
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Microalgae harvesting for wastewater treatment and resources recovery: A review New Biotechnol. (IF 5.4) Pub Date : 2023-10-09 Etiele Greque de Morais, Igor Carvalho Fontes Sampaio, Eva Gonzalez-Flo, Ivet Ferrer, Enrica Uggetti, Joan García
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Droplet digital PCR: A comprehensive tool for genetic analysis and prediction of bispecific antibody assembly during cell line development New Biotechnol. (IF 5.4) Pub Date : 2023-10-03 Daniel Heinzelmann, Benjamin Lindner, Benjamin Renner, Simon Fischer, Patrick Schulz, Moritz Schmidt
Molecular biological methods have emerged as inevitable tools to accompany the process of cell line development for the generation of stable and highly productive manufacturing cell lines in the biopharmaceutical industry. PCR-based methods are especially useful for screening and characterization of cell lines due to their low cost, scalability, precision and propensity for multidimensional read-outs
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Biostimulation effect of different amendments on Cr(VI) recovering microbial community New Biotechnol. (IF 5.4) Pub Date : 2023-10-02 Marina Tumolo, Domenico De Paola, Vito Felice Uricchio, Valeria Ancona
The present study used Cr(VI)-polluted microcosms amended with lactate or yeast extract, and nonamended microcosms as control, to investigate how a native bacterial community varied in response to the treatment and during the pollutant removal. Results suggested that providing electron donors resulted in a proliferation of a few bacterial species, with the consequent decrease in observed species richness
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Shedding light on the black box of a neural network used to detect prostate cancer in whole slide images by occlusion-based explainability New Biotechnol. (IF 5.4) Pub Date : 2023-10-02 Matej Gallo, Vojtěch Krajňanský, Rudolf Nenutil, Petr Holub, Tomáš Brázdil
Diagnostic histopathology faces increasing demands due to aging populations and expanding healthcare programs. Semi-automated diagnostic systems employing deep learning methods are one approach to alleviate this pressure. The learning models for histopathology are inherently complex and opaque from the user's perspective. Hence different methods have been developed to interpret their behavior. However
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Provenance of specimen and data – A prerequisite for AI development in computational pathology New Biotechnol. (IF 5.4) Pub Date : 2023-09-25 Markus Plass, Rudolf Wittner, Petr Holub, Francesca Frexia, Cecilia Mascia, Matej Gallo, Heimo Müller, Jörg Geiger
AI development in biotechnology relies on high-quality data to train and validate algorithms. The FAIR principles (Findable, Accessible, Interoperable, and Reusable) and regulatory frameworks such as the In Vitro Diagnostic Regulation (IVDR) and the Medical Device Regulation (MDR) specify requirements on specimen and data provenance to ensure the quality and traceability of data used in AI development
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Interlaboratory evaluation of quality control methods for circulating cell-free DNA extraction New Biotechnol. (IF 5.4) Pub Date : 2023-09-18 Alison Devonshire, Gerwyn Jones, Ana Fernandez Gonzalez, Olga Kofanova, Johanna Trouet, Pamela Pinzani, Stefania Gelmini, Serena Bonin, Carole Foy
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Approaches for high-throughput quantification of periplasmic recombinant proteins New Biotechnol. (IF 5.4) Pub Date : 2023-09-12 Alexander Osgerby, Tim W. Overton
The Gram-negative periplasm is a convenient location for the accumulation of many recombinant proteins including biopharmaceutical products. It is the site of disulphide bond formation, required by some proteins (such as antibody fragments) for correct folding and function. It also permits simpler protein release and downstream processing than cytoplasmic accumulation. As such, targeting of recombinant
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Transcription factor-based biosensors for detection of naturally occurring phenolic acids New Biotechnol. (IF 5.4) Pub Date : 2023-09-14 Ernesta Augustiniene, Ingrida Kutraite, Egle Valanciene, Paulius Matulis, Ilona Jonuskiene, Naglis Malys
Phenolic acids including hydroxybenzoic and hydroxycinnamic acids are secondary plant and fungal metabolites involved in many physiological processes offering health and dietary benefits. They are often utilised as precursors for production of value-added compounds. The limited availability of synthetic biology tools, such as whole-cell biosensors suitable for monitoring the dynamics of phenolic acids
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Affibody-based hBCMA x CD16 dual engagers for NK cell-mediated killing of multiple myeloma cells New Biotechnol. (IF 5.4) Pub Date : 2023-09-04 Kim Anh Giang, Thorstein Boxaspen, Yumei Diao, Johan Nilvebrant, Mizuha Kosugi-Kanaya, Minoru Kanaya, Silje Zandstra Krokeide, Fredrik Lehmann, Stefan Svensson Gelius, Karl-Johan Malmberg, Per-Åke Nygren
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Biomaterials text mining: A hands-on comparative study of methods on polydioxanone biocompatibility New Biotechnol. (IF 5.4) Pub Date : 2023-09-04 Carla V. Fuenteslópez, Austin McKitrick, Javier Corvi, Maria-Pau Ginebra, Osnat Hakimi
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High throughput purification of monoclonal recombinant antibodies using a Protein-A coated membrane plate system New Biotechnol. (IF 5.4) Pub Date : 2023-08-28 Camila Leal-Lopes, Sara D’Angelo, M. Frank Erasmus, Andre A.R. Teixeira, Graham Temples, Jinxiang Zhou, Andrew R.M. Bradbury, Fortunato Ferrara
The therapeutic use of monoclonal antibodies (mAbs) ranges from cancer treatment to immune-mediated conditions, covering infectious and cardiovascular disorders, among others. The development of improved methods for therapeutic antibody discovery has accelerated the identification of numerous mAbs: a discovery campaign can be deeply mined, resulting in hundreds, even thousands, of potential antibody
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Machine translation of standardised medical terminology using natural language processing: A scoping review New Biotechnol. (IF 5.4) Pub Date : 2023-08-29 Richard Noll, Lena S. Frischen, Martin Boeker, Holger Storf, Jannik Schaaf
Standardised medical terminologies are used to ensure accurate and consistent communication of information and to facilitate data exchange. Currently, many terminologies are only available in English, which hinders international research and automated processing of medical data. Natural language processing (NLP) and Machine Translation (MT) methods can be used to automatically translate these terms
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Novel GH109 enzymes for bioconversion of group A red blood cells to the universal donor group O New Biotechnol. (IF 5.4) Pub Date : 2023-08-27 Nicola Curci, Roberta Iacono, Dorotea Raventos Segura, Michele Cillo, Beatrice Cobucci-Ponzano, Andrea Strazzulli, Antonio Leonardi, Lars Giger, Marco Moracci
Glycoside hydrolases (GHs) have been employed for industrial and biotechnological purposes and often play an important role in new applications. The red blood cell (RBC) antigen system depends on the composition of oligosaccharides on the surface of erythrocytes, thus defining the ABO blood type classification. Incorrect blood transfusions may lead to fatal consequences, making the availability of
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Replication-competent influenza virus with a protein-responsive multiplication ability New Biotechnol. (IF 5.4) Pub Date : 2023-08-14 Shinzi Ogasawara
Applications of influenza A viruses (IAV) for virotherapy and biotechnology have accelerated substantially with the development of reverse genetic technology and advances in the understanding of packaging signals. While the use of a replication-competent IAV is particularly promising, owing to its efficient transmission to organ depths with high infectivity, there is also a risk that its multiplication
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Influence of culture media composition on the rheology of microalgae concentrates on a large scale New Biotechnol. (IF 5.4) Pub Date : 2023-07-31 Solaima Belachqer-El Attar, Ainoa Morillas-España, Ana Sánchez-Zurano, Luiggi Cavalcanti Pessôa, María Guadalupe Pinna-Hernández, Denilson de Jesus Assis, José Luis Casas López, Gabriel Acién
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An artificial intelligence approach for identification of microalgae cultures New Biotechnol. (IF 5.4) Pub Date : 2023-07-17
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Incorporation of a repeated polypeptide sequence in therapeutic antibodies as a universal masking procedure: A case study of T cell-engaging bispecific antibodies New Biotechnol. (IF 5.4) Pub Date : 2023-07-17 Atsushi Maejima, Saori Suzuki, Koki Makabe, Izumi Kumagai, Ryutaro Asano
Prodrug design is a promising approach for reducing the off-target effects of therapeutic antibodies, particularly bispecific antibodies (bsAbs) that recruit T cells for activation; this design uses masking sequences that inhibit antibody binding until they reach the tumor microenvironment, where they are removed. In this study, we propose PAS, a polypeptide sequence composed of repeated Pro, Ala,
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Taming CRISPRi: Dynamic range tuning through guide RNA diversion New Biotechnol. (IF 5.4) Pub Date : 2023-07-06 Bob Van Hove, Lien De Wannemaeker, Isolde Missiaen, Jo Maertens, Marjan De Mey
CRISPRi is a powerful technique to repress gene expression in a targeted and highly efficient manner. However, this potency is a double-edged sword in inducible systems, as even leaky expression of guide RNA results in a repression phenotype, complicating applications such as dynamic metabolic engineering. We evaluated three methods to enhance the controllability of CRISPRi by modulating the level
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Biosynthesis and properties of polyhydroxyalkanoates synthesized from mixed C5 and C6 sugars obtained from hardwood hydrolysis New Biotechnol. (IF 5.4) Pub Date : 2023-06-28 Warren Blunt, Purnank Shah, Vinicio Vasquez, Mengwei Ye, Christopher Doyle, Yali Liu, Sajjad Saeidlou, Fanny Monteil-Rivera
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The promise of explainable deep learning for omics data analysis: Adding new discovery tools to AI New Biotechnol. (IF 5.4) Pub Date : 2023-06-15 Mariangela Santorsola, Francesco Lescai
Deep learning has already revolutionised the way a wide range of data is processed in many areas of daily life. The ability to learn abstractions and relationships from heterogeneous data has provided impressively accurate prediction and classification tools to handle increasingly big datasets. This has a significant impact on the growing wealth of omics datasets, with the unprecedented opportunity
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Crossing bacterial boundaries: The carbon catabolite repression system Crc-Hfq of Pseudomonas putida KT2440 as a tool to control translation in E. coli New Biotechnol. (IF 5.4) Pub Date : 2023-06-20 Chunzhe Lu, Tiago P. Ramalho, Markus M.M. Bisschops, Rene H. Wijffels, Vitor A.P. Martins dos Santos, Ruud A. Weusthuis
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Introducing molasses as an alternative feedstock into itaconate production using Ustilago sp New Biotechnol. (IF 5.4) Pub Date : 2023-06-17 Tabea Helm, Paul-Joachim Niehoff, Jochem Gätgens, Thilo Stausberg, Bernadette Pichler, Thomas Häßler, Wolfgang Wiechert, Jochen Büchs, Nick Wierckx, Stephan Noack
In this work, we established an efficient process for the production of itaconate from the regionally sourced industrial side-stream molasses using Ustilago cynodontis and Ustilago maydis. While being relatively cheap and more environmentally friendly than refined sugars, there are some major challenges to overcome when working with molasses. Some of those challenges are a high nitrogen load, unknown