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BioZone

Recent publications

Recent BioZone Publications

YearPublication
2026Khatir, B.; Soltani, M.; Au, S.; Vuong, T. V.; Master, E. R.; Golovin, K., A Wetting Framework for Vapor-Adsorbed Films: Interfacial Energies, Cloaking, Swelling, and Droplet Mobility. Langmuir. https://doi.org/10.1021/acs.langmuir.6c01060
2026Huemer, M.; Raji, O.; Orozco, S. E.; Bischof, R. H.; Ribitsch, D.; Guebitz, G. M.; Master, E. R., Carboxylation of lyocell fabrics using C-1 lytic polysaccharide monooxygenases (DcLPMO9A) for enhanced affinity to cationic dye. Cellulose 33, 5579–5590. https://doi.org/10.1007/s10570-026-07125-w
2026Jabalera, Y.; Marín-Peña, A. J.; Wagner, E.; Cosgrove, D. J.; Master, E. R.; Perez-Jimenez, R., Exploring the binding properties and activities of ancestral expansins, International Journal of Biological Macromolecules. 355: 151489. https://doi.org/10.1016/j.ijbiomac.2026.151489
2026Wang, Y.; Aro, N.; Yamamoto, M.; Iakovlev, M.; Saloheimo, M.; Marjamaa, K.; Master, E.; Turunen, O.; Kankaanpää, A., Supplementing XYR1-mutated Trichoderma reesei strain cultivation with (SO2-ethanol-water) softwood pulp improves cellulase production. Bioresource Technology Reports. 33: 102501. https://doi.org/10.1016/j.biteb.2025.102501
2026Raji, O.; Vuong, T. V.; Davoudvandi, N.; Master, E. R., Oligosaccharide oxidase for the enzymatic synthesis of glucosaminic acids. Biotechnol Lett. 48(2):50. https://doi.org/10.1007/s10529-026-03721-9
2026Dahiya, D.; Kutvonen, K.; Master, E.; Eerikäinen, T., Simulating the growth kinetics of high cell density bioreactor production of loosenin-like recombinant protein in Pichia pastoris. Bioresource Technology Reports. 34: 102719. https://doi.org/10.1016/j.biteb.2026.102719
2026Koitto, T.; Pohto, A.; Sidorova, E.; Vuong, T. V.; Penttilä, M.; Master, E. R., Functional characterization of a dockerin-containing expansin-like protein from the anaerobic fungus Neocallimastix californiae. Biotechnol Biofuels Bioprod. 19(1):28. https://doi.org/10.1186/s13068-026-02744-8
2026Feng, X.; Chau, W.; Master, E. R., Investigating operational stability and causes of cofactor release in fold type I amine transaminase. Protein Sci. 2026, 35(2):e70447. https://doi.org/10.1002/pro.70447
2026Nesbø, C. L.; Morson, N.; Molenda, O.; Lomheim, L.; Lossouarn, J.; Maxwell, K. L.; Edwards, E. A., A novel virus lineage is abundant in metaviromes from Dehalococcoides-containing mixed cultures. bioRxiv 2026. https://doi.org/10.64898/2026.09.15.751708
2026Lindner, B. G.; Nallasamy, D. K.; Roberts, L.; Gois, I. M.; Lawson, C. E., Coupling Stickland fermentation with reverse β-oxidation represents a new mode of medium-chain carboxylate production. bioRxiv 2026. https://doi.org/10.64898/2026.09.09.750506
2026Lawson, C. E.; Howard, J. P.; Lankiewicz, T. S.; Brown, J. B.; Singer, S. W.; Martín, H. G.; O'Malley, M. A., Carbohydrate-active enzyme architectures reflect distinct fungal and bacterial strategies for lignocellulose conversion to volatile fatty acids. ISME Commun. 2026. https://doi.org/10.1093/ismeco/ycag262
2026Feng, X.; Master, E. R., EMAP-SSN: An Embedding- and Multiple-Alignment- Integrated Sequence Similarity Network Platform for Interactive Exploration of Protein Sequence Space. bioRxiv 2026. https://doi.org/10.64898/2026.09.05.748609
2026Asbury, R. E.; Hoffman, T. A.; Chu, C.; Mahadevan, R.; Saville, B. A., Method for assessing inter-individual variability in the carbohydrate utilization potential of gut microbiota ex vivo. MethodsX 2026, 17, 104154. https://doi.org/10.1016/j.mex.2026.104154
2026Manda, V. V.; Kancherla, V.; Kottakki, M. N. R.; Kajana, P. M.; Bhaganagarapu, H. R.; Vatandoust, A.; Mannar, M. G. V.; Diosady, L. L.; Pattisapu, J. V., Impact of Iodized Salt Fortified with Folic Acid, Vitamin B12 and Iron on Reproductive-Aged Women in India. Neurol. India 2026, 74 (5), 885-891. https://doi.org/10.4103/neurol-india.neurol-india-d-26-00255
2026Nallasamy, D. K.; Lindner, B. G.; Lawson, C. E., Peptonella octanoica gen. nov., sp. nov., a new medium-chain carboxylate-producing bacterium, and the reclassification of Eubacterium pyruvativorans as Peptonella pyruvativorans comb. nov. bioRxiv 2026. https://doi.org/10.64898/2026.08.23.746564
2026Vargas, B. C.; Martino, C.; Dilmore, A. H.; Metcalf, J. L.; Burcham, Z. M.; Lahti, L.; Bektanov, A.; Borman, T.; Salomaa, V. V.; Niiranen, T.; Havulinna, A. S.; Gregor, R.; Eyal, S.; Meijler, M. M.; Mizrahi, I.; Song, S. J.; Bartko, A.; Dorrestein, P. C.; Morton, J. T.; McDonald, D. T.; Knight, R.; Shenhav, L., Joint-RPCA: domain-aware multi-omics integration for systems microbiology. Mol. Syst. Biol. 2026. https://doi.org/10.1038/s44320-026-00236-3
2026Wang, S.; Glöckler, D.; Kümmel, S.; Araújo, S. P.; Lomheim, L.; Ribeiro, L. A. F. S.; Ramos, D. T.; Grijalva, V. G.; Adrian, L.; Mack, E. E.; Edwards, E. A.; Passeport, E., Multi-Element (C, N, Cl) Stable Isotope Fractionation During Reductive Dechlorination of Chloroanilines. Environ. Sci. Technol. 2026, 60 (33), 23306-23318. https://doi.org/10.1021/acs.est.6c05159
2026Dyussekenova, D.; Parmar, J. K.; Ezabadi, M. A.; Lindner, B. G.; Hong, Y.; Werber, J. R.; Lawson, C. E., Long-Term Production and Recovery of Medium-Chain Carboxylates from Source-Separated Organics. ACS ES&T Eng. 2026, 6 (9), 2592-2605. https://doi.org/10.1021/acsestengg.6c00464
2026Liao, B.; Allen, D. G.; Hai, F. I.; Liu, M., Recent advances in emerging and advanced membrane technologies for biological wastewater treatment: Processes, applications, limitations, challenges, and prospects. J. Water Process Eng. 2026, 91, 110443. https://doi.org/10.1016/j.jwpe.2026.110443
2026Carlson, R. P.; Gedeon, T.; Benitez, M. G.; Putnam, C.; Harcombe, W. R.; Mahadevan, R.; Beck, A. E., Cell geometry and membrane protein crowding constrain Escherichia coli growth rate, overflow metabolism, respiration, and maintenance energy. FEBS Lett. 2026, 600 (15), 2154-2174. https://doi.org/10.1002/1873-3468.70380
2026Saville, S. H.; Venema, K.; Saville, B. A.; Baric, H.; Derya, S. M., Technical Aspects of Commercial Prebiotic Manufacturing. Preprints 2026. https://doi.org/10.20944/preprints202606.1046.v1
2026Manchel, A.; Mahadevan, R.; Hoek, J. B.; Bataller, R. A.; Vadigepalli, R., Patient-specific modeling identifies metabolic interventions for reversing glucose use reprogramming in alcohol-associated hepatitis. Commun. Biol. 2026, 9 (1). https://doi.org/10.1038/s42003-026-10407-5
2026Santos, W. A.; de Oliveira, R. D.; Giannari, D.; Barghout, R. A.; Tremblay, A.; Mahadevan, R.; Gomez, J. G. C.; Le Roux, G. A. C., Cellular- to Plant-Scale Techno-Economic and Strain Design Analysis for Batch and Fed-Batch Process with the DySEEP Framework. Processes 2026, 14 (10), 1659. https://doi.org/10.3390/pr14101659
2026Scott, W. T.; Jácome, L. A. P.; Nijsse, B.; Wang, J.; Stouten, G. R.; Koehorst, J. J.; Smidt, H.; Edwards, E. A.; Schaap, P. J.; Kleerebezem, R., Unraveling the metabolic interactions of a Dehalobacter-containing anaerobic mixed culture for bioremediation. bioRxiv 2026. https://doi.org/10.64898/2026.05.05.723060
2026Turner, M.; Saville, B. A., Greenhouse gas emissions from the conversion of palm kernel cake to ethanol, animal feed and residual vegetable oil. Biomass Bioenergy 2026, 214, 109323. https://doi.org/10.1016/j.biombioe.2026.109323
2026Gois, I. M.; Bowers, C. M.; Kim, B.-C.; Flick, R.; Lawson, C. E., Acetate utilization strategy in chain-elongating bacteria determines butyrate versus medium-chain carboxylate production. Nat. Microbiol. 2026, 11 (6), 1639-1651. https://doi.org/10.1038/s41564-026-02320-8
2026S, P. K.; Sridhar, S.; Alsmadi, N.; Mahadevan, R.; Bhatt, N., Generalist method to reconstruct metabolic networks from multi-omics data at large-scale. bioRxiv 2026. https://doi.org/10.64898/2026.04.02.716249
2026Hegazy, N.; Peng, K. K.; de Haan-Ward, J.; Renouf, E. M.; Mercier, E.; Wan, S.; Hu, X. J.; Dean, C. B.; Servos, M.; Edwards, E. A.; Ybazeta, G.; Habash, M. B.; Goodridge, L. D.; Brown, R. S.; Payne, S. J.; Kirkwood, A. E.; Kyle, C. J.; McKay, R. M. L.; Gilbride, K. A.; DeGroot, C. T.; Delatolla, R., Twelve Distinct Laboratory Methods Used to Measure SARS-CoV-2 in Wastewaters throughout a Three-Year Ontario-Wide, Canada Study: Impact on Public Health Interpretation of Disease Incidence. medRxiv 2026. https://doi.org/10.64898/2026.03.27.26349524
2026Toth, C. R. A.; Molenda, O.; Nesbø, C. L.; Luo, F.; Devine, C. E.; Chen, X.; Wu, K.; Xiao, J. Z.; Puri, R.; Guo, S.; Bawa, N.; Wang, P.-H.; Wei, Y.; Flick, R.; Edwards, E. A., Identification of a highly expressed gene cluster likely coding for benzene activation enzymes in a methanogenic enrichment culture. Appl. Environ. Microbiol. 2026, 92 (4), e0208325. https://doi.org/10.1128/aem.02083-25
2026Agena, E.; Badani, A. A.; Lindner, B. G.; Gois, I. M.; Dempster, A. W.; Minton, N. P.; Mahadevan, R.; Lawson, C. E., Enabling Plasmid-Based Expression in Clostridium kluyveri Using a Biparental Methylation-Conjugation System. ACS Synth. Biol. 2026, 15 (4), 1689-1698. https://doi.org/10.1021/acssynbio.5c00788
2026Barghout, R. A.; Serrano, L. C.; Sánchez-Lengeling, B.; Mahadevan, R., kinGEMs: A Robust and Scalable Framework for Resource-Constraint Models through Stochastic Tuning of Deep Learning-Predicted Kinetic Parameters. bioRxiv 2026. https://doi.org/10.64898/2026.03.14.711833
2026Vercelli, G. T.; Zhou, X.; Moreno-Gámez, S.; Jeeda, R. R.; Gregor, R.; Słomka, J.; Dagadu, A.; Furst, A. L.; Cordero, O. X., A universal surface functionalization technique to chemically enhance live microbial cells. Mol. Syst. Biol. 2026, 22 (6), 962-978. https://doi.org/10.1038/s44320-026-00202-z
2026Teichman, D. L.; Chan, A.; Zimmermann, M. B.; Diosady, L. L., TiO2 Alternative Coatings for Ferric Pyrophosphate Premixes: Stability and Bioaccessibility Relative to Ferrous Fumarate. Innovative Food Sci. Emerging Technol. 2026, 111, 104527. https://doi.org/10.1016/j.ifset.2026.104527
2026Antony, P. S.; Bergerson, J. A.; MacLean, H. L.; Saville, B. A.; Posen, I. D., A retrospective analysis over 25 years of modelling corn ethanol in the US to inform prospective life cycle assessment. Int. J. Life Cycle Assess. 2026, 31 (1-3). https://doi.org/10.1007/s11367-026-02621-4
2026Benitez, M. G.; Scott, M. P.; Carlson, R. P.; Mahadevan, R., Membrane and proteome allocation constraints in Escherichia coli models during overflow metabolism. Biophys. J. 2026, 125 (18), 5133-5149. https://doi.org/10.1016/j.bpj.2026.01.028
2026Feigis, M.; Mahadevan, R., Multicriteria evaluation of ethylene glycol assimilation pathways. J. Ind. Microbiol. Biotechnol. 2026, 53. https://doi.org/10.1093/jimb/kuag007
2026Fatima, A.; Siddiqui, J.; Shah, S. Z. A.; Maqsood, T.; Mehmood, Z.; Bender, T. P.; Diosady, L. L., Analytical Challenges in Multiple Fortified Salt (MFS): Ferrous Fumarate Interference in Folic Acid Quantification using UV-visible Spectrophotometry. SSRN 2026. https://doi.org/10.2139/ssrn.6798402
2025Donev, E.N.; Derba-Maceluch, M.; Liu, X.K.; Bwanika, H.C.; Dobrowolska, I.; Thapa, M.; Leśniewska, J.; Šimura, J.; Yi-Lin Tsai, A.; Krajewski, K.S.; Boström, D.; Kleczkowski, L.A.; Eriksson, M.E.; Ljung, K.; Master, E.R.; Mellerowicz, E.J., Glucuronoyl esterase of pathogenic Phanerochaete carnosa induces immune responses in Aspen independently of its enzymatic activity. Plant Biotechnol J. https://doi.org/10.1111/pbi.70357
2025Koitto, T.; Dahiya, D.; Huusela, M.; Penttilä, M.; Master, E.R., Phylogenetically distinct fungal expansins show different binding preferences towards cellulosic materials and enhance cellulase activity. Current Research in Biotechnology. 2025. 9:100296. https://doi.org/10.1016/j.crbiot.2025.100296
2025Asbury, R. E.; Saville, B. A., Manno-oligosaccharides as a promising antimicrobial strategy: pathogen inhibition and synergistic effects with antibiotics. Front. Microbiol. 2025, 16, 1529081. https://doi.org/10.3389/fmicb.2025.1529081
2025Picott, K. J.; Bowers, C. M.; Edwards, E. A., Deciphering reductive dehalogenase specificity through targeted mutagenesis of chloroalkane reductases. Appl Environ Microbiol 2025, 91 (3), e0150124. https://doi.org/10.1128/aem.01501-24
2025Teichman, D. L.; Siddiqui, J.; Chadha, M. K.; de Romana, D. L.; Arabi, M.; Diosady, L. L., Titanium dioxide replacement with inorganic alternatives for color-masking of ferrous fumarate in double fortified salt. JSFA Rep. 2025, 5 (4), 128-139. https://doi.org/https://doi.org/10.1002/jsf2.231
2025Choolaei, Z.; Khusnutdinova, A. N.; Skarina, T.; Stogios, P.; Diep, P.; Lemak, S.; Edwards, E. A.; Savchenko, A.; Yakunin, A. F., Structural and Biochemical Insights into Lignin-Oxidizing Activity of Bacterial Peroxidases against Soluble Substrates and Kraft Lignin. ACS Chem. Biol. 2025. https://doi.org/10.1021/acschembio.4c00788
2025Hegazy, N.; Peng, K. K.; D’Aoust, P. M.; Pisharody, L.; Mercier, E.; Ramsay, N. T.; Kabir, M. P.; Nguyen, T. B.; Tomalty, E.; Addo, F.; Wong, C. H.; Wan, S.; Hu, J.; Dean, C.; Yang, M. I.; Dhiyebi, H.; Edwards, E. A.; Servos, M. R.; Ybazeta, G.; Habash, M.; Goodridge, L.; Poon, A. F. Y.; Arts, E. J.; Brown, S.; Payne, S. J.; Kirkwood, A.; Simmons, D. B. D.; Desaulniers, J.-P.; Ormeci, B.; Kyle, C.; Bulir, D.; Charles, T.; McKay, R. M.; Gilbride, K. A.; Oswald, C. J.; Peng, H.; DeGroot, C.; Renouf, E.; Delatolla, R., Variability of Clinical Metrics in Small Population Communities Drive Perceived Wastewater and Environmental Surveillance Data Quality: Ontario, Canada-Wide Study. ACS ES&T Water 2025. https://doi.org/10.1021/acsestwater.4c00958
2025Jabalera, Y.; Dahiya, D.; Cencerrado, C. D. O.; Caballero, A. J.; Zaldua, N.; Eceiza, A.; Master, E. R.; Perez-Jimenez, R., Impact of loosenins on the enzymatic preparation of cellulose nanocrystals. Carbohydr. Polym. 2025, 357, 123469. https://doi.org/https://doi.org/10.1016/j.carbpol.2025.123469
2025Puumala, E.; Nandakumar, M.; Yiu, B.; Stogios, P. J.; Strickland, B. G.; Zarnowski, R.; Wang, X.; Williams, N. S.; Savchenko, A.; Andes, D. R.; Robbins, N.; Whitesell, L.; Willson, T. M.; Cowen, L. E., Structure-guided optimization of small molecules targeting Yck2 as a strategy to combat Candida albicans. Nat Commun 2025, 16 (1), 2156. https://doi.org/10.1038/s41467-025-57346-z
2025Agbavor, C.; Torres, M.; Inniss, N. L.; Latimer, S.; Minasov, G.; Shuvalova, L.; Wawrzak, Z.; Borek, D.; Otwinowski, Z.; Stogios, P. J.; Savchenko, A.; Anderson, W. F.; Satchell, K. J. F.; Cahoon, L. A., Structural analysis of extracellular ATP-independent chaperones of streptococcal species and protein substrate interactions. mSphere 2025, 10 (2), e0107824. https://doi.org/10.1128/msphere.01078-24
2025Dahiya, D.; Péter-Szabó, Z.; Senanayake, M.; Pingali, S. V.; Leite, W. C.; Byrnes, J.; Buchko, G. W.; Sivan, P.; Vilaplana, F.; Master, E. R.; O'Neill, H., SANS investigation of fungal loosenins reveals substrate-dependent impacts of protein action on the inter-microfibril arrangement of cellulosic substrates. Biotechnol Biofuels Bioprod 2025, 18 (1), 27. https://doi.org/10.1186/s13068-025-02618-5
2025Rosas-Lemus, M.; Minasov, G.; Brunzelle, J. S.; Taha, T. Y.; Lemak, S.; Yin, S.; Shuvalova, L.; Rosecrans, J.; Khanna, K.; Seifert, H. S.; Savchenko, A.; Stogios, P. J.; Ott, M.; Satchell, K. J. F., Torsional twist of the SARS-CoV and SARS-CoV-2 SUD-N and SUD-M domains. Protein Sci. 2025, 34 (3), e70050. https://doi.org/10.1002/pro.70050
2025Marrs, K.; Vuong, T. V.; Master, E. R., 4-O-Methylglucaric Acid Production from Xylan with Uronic Acid Oxidase and Comparison to Glucaric Acid from Glucose. ChemBioChem 2025, e202400985. https://doi.org/10.1002/cbic.202400985
2025Chen, X.; Toth, C. R. A.; Guo, S.; Luo, F.; Howe, J.; Nesbø, C. L.; Edwards, E. A., Visualization of Syntrophic Benzene-Fermenting Desulfobacterota ORM2 in a Methanogenic Enrichment Culture Using Fluorescence In Situ Hybridization. Environ Sci Technol 2025, 59 (1), 591-602. https://doi.org/10.1021/acs.est.4c08254
2025Mototsune, O.; Zhang, Y.; Kavishvar, D.; Ramchandran, A.; Loewen, M. C.; Master, E. R., Enzymatic oxidation of carbohydrate byproducts for use in formation of chitosan hydrogels. ChemBioChem. https://doi.org/10.1002/cbic.202500559
2025Hiltunen, S.; Dahiya, D.; Huusela, M.; Master, E.; Ristolainen, M.; Sapkota, J., Effects of sequential ball milling and loosenin-like protein treatment on pulp fibers. Industrial Crops and Products. https://doi.org/10.1016/j.indcrop.2025.122177
2025Rämgård, C.; Parada, M. L.; Janewithayapun, R.; Vuong, T. V.; Master, E. R.; Ström, A.; McKee, L. S.; Vilaplana, F., Tuning the rheological properties of laccase-crosslinked arabinoxylan hydrogels by prior arabinofuranosidase treatments. Food Hydrocolloids. https://doi.org/10.1016/j.foodhyd.2025.112080
2025Pohto, A.; Koitto, T.; Dahiya, D.; Castro, A.; Sidorova, E.; Huusela, M.; Baker, S. E.; Tsang, A.; Master, E., Uncovering Sequence and Structural Characteristics of Fungal Expansin-Related Proteins With Potential to Drive Substrate Targeting. Proteins. https://doi.org/10.1002/prot.70029
2025Sivan, P.; Dahiya, D.; Jabalera, Y.; Koitto, T.; Perez-Jimenez, R.; Mellerowicz, E. J.; Master, E.; Vilaplana, F., Carbohydrate-binding domain CBM63 of microbial expansin-like BsEXLX1 facilitates the adsorption of expansin-related proteins to hemicelluloses in plant secondary cell walls. Biotechnol Biofuels Bioprod. 18(1):70. https://doi.org/10.1186/s13068-025-02674-x
2025Zhu, J.; Gutierrez, R.; Zhang, Y.; Sarker, N. R.; Dyussekenova, D.; Parmar, J. K.; Kim, B.-C.; Abbas, B.; Ren, K.; Lawson, C. E.; Werber, J. R., Selective and Solvent-Free Extraction of Medium-Chain Carboxylic Acids with Poly(dimethylsiloxane) Membranes. ACS ES&T Eng. 2025, 6 (1), 460-472. https://doi.org/10.1021/acsestengg.5c00919
2025Stephens, S. M.; Abo-Hashesh, M.; Mahadevan, R.; Allen, D. G., Improving a photosynthetic bioprocess with a ubiquitous additive: Using clay powder in the cultivation of Rhodopseudomonas palustris. Biotechnol. Rep. 2025, 48, e00930. https://doi.org/10.1016/j.btre.2025.e00930
2025Teichman, D. L.; Chan, A.; Zimmermann, M. B.; Diosady, L. L., Development and pilot scale demonstration of encapsulated ferric pyrophosphate premixes for double and multiple fortified salt with vitamins B9,B12, iodine and zinc. Innovative Food Sci. Emerging Technol. 2025, 106, 104286. https://doi.org/10.1016/j.ifset.2025.104286
2025Harrison, E.; Zheng, A.; Wicks, J.; Xie, K.; Sargent, E. H.; Mahadevan, R., Cascading the Electrochemical Reduction of CO2 with Bioprocesses for the Production of Reduced-Carbon-Intensity Chemicals. ACS Sustainable Chem. Eng. 2025, 13 (46), 19937-19950. https://doi.org/10.1021/acssuschemeng.5c04176
2025Golla, S. A.; Abo-Hashesh, M.; Gupta, D.; Liu, Y.; Mahadevan, R., Model-Based Optimization of a qCRISPRi Circuit for Dynamic Control of Metabolic Pathways. ACS Synth. Biol. 2025, 14 (10), 3890-3898. https://doi.org/10.1021/acssynbio.5c00095
2025Hug, L. A.; Hatzenpichler, R.; Moraru, C.; Soares, A.; Meyer, F.; Heyder, A.; Abdallah, R. Z.; Abdalrahem, A.; Abdulkadir, N.; Adesiyan, I. M.; Alteio, L. V.; Anantharaman, K.; Anderson, R. E.; Andrei, A. H.; Baeza, J. A.; Bak, F.; Baker, B. J.; Bartholomäus, A.; Bejerman, N.; Biddle, J. F.; Bissett, A. B.; Blakeley-Ruiz, J. A.; Block, K. A.; Boldt, J.; Bonilla-Rosso, G.; Bornemann, T. L. V.; Brauer, V. S.; Brazelton, W. J.; Bremges, A.; Buelow, E.; Burcham, Z. M.; Cansdale, A.; Caporaso, J. G.; Cernava, T.; Chatzigiannidou, I.; Costa, R.; Currie, C. R.; Daebeler, A.; De Anda, V.; de Santiago, A.; de Tacca, L. M. A.; Debelius, J. W.; Dittami, S. M.; Dong, X.; Džunková, M.; Edwards, A.; Edwards, R. A.; Egbert, S.; Engelmann, J. C.; Esser, S. P.; Ettema, T. J. G.; Ettinger, C. L.; Fabijan, A. P.; Ferguson, R. M. W.; Ferretti, P.; Foucault, P.; Fuhrman, J. A.; Gada, A.; Geesink, P.; Gerhardt, I. R.; Gessner, M. O.; Giovannelli, D.; Gittins, D. I.; Gloor, G. B.; González-Pech, R. A.; Gopalakrishnappa, C.; Greening, C.; Gregor, R.; Gregory, A.; Grossart, H.-P.; Groussin, M.; Guerrero, B. V.; Güzel, M.; Hamamura, N.; Hamilton, T. L.; Hamm, J. T.; Hart, L.; Hassenrück, C.; Hay, M.; Hechler, R. M.; Hellwig, P.; Henson, M. A.; Herold, M. J.; Hesketh-Best, P. J.; Hess, M.; Hillary, L. S.; Hitch, T. C. A.; Hivarkar, S. S.; Hoff, K. J.; Hom, E. F. Y.; Hou, S.; Hugerth, L. W.; Hwang, Y.; Ilott, N. E.; Jay, Z. J.; Jungbluth, S. P.; Karimi, E.; Kaspareit, Y. M.; Keating, C.; Kellom, M., A roadmap for equitable reuse of public microbiome data. Nat. Microbiol. 2025, 10 (10), 2384-2395. https://doi.org/10.1038/s41564-025-02116-2
2025Liang, J.; Boparai, H. K.; Lomheim, L.; Garcia, A. N.; Edwards, E. A.; O’Carroll, D. M.; Sleep, B. E., Microbial Response Following a Carboxymethyl Cellulose-Stabilized Sulfidated Nano Zero-Valent Iron Injection: A Long-Term Field Study. ACS ES&T Eng. 2025, 5 (11), 2758-2771. https://doi.org/10.1021/acsestengg.5c00240
2025Stephens, S. M.; Mahadevan, R.; Allen, D. G., Establishing a quantitative link between crystal violet absorbance and biomass in biofilms. MethodsX 2025, 15, 103630. https://doi.org/10.1016/j.mex.2025.103630
2025Bulka, O.; Edwards, E. A.; Mahadevan, R., Modeling reveals a metabolic basis of competition among Dehalobacter strains during tandem chloroform and dichloromethane metabolism. mSystems 2025, 10 (10), e0084725. https://doi.org/10.1128/msystems.00847-25
2025Kim, B.-C.; Blair, E. M.; Howard, J. P.; Gois, I. M.; Flick, R.; Lankiewicz, T. S.; Mondo, S. J.; Pangilinan, J. L.; Lipzen, A.; Guo, J. Q.; Hundley, H.; Lee, R.; Talag, J.; Bunting, V. M.; Rajasekar, S.; Barry, K.; Grigoriev, I. V.; O'Malley, M. A.; Lawson, C. E., Engineering anaerobic fungal-bacterial consortia for direct conversion of lignocellulosic biomass into medium-chain fatty acids. bioRxiv 2025. https://doi.org/10.1101/2025.08.19.670934
2025Nino, S. L.; Qayume, A.; Meyer, T. L.; Allen, D. G., Rapid estimation of biosludge polymer demand for dewatering via image classification. J. Water Process Eng. 2025, 77, 108554. https://doi.org/10.1016/j.jwpe.2025.108554
2025Câmara, I.; Melo, N.; Lomheim, L.; Mack, E. E.; Edwards, E. A.; Spain, J. C.; Menezes, O.; Gavazza, S., Designing a blended microbial culture to bioremediate distinct environmental matrices from a complex industrial site contaminated with amino-, nitro-, and chloroaromatic compounds. Environ. Res. 2025, 285 (Pt 4), 122618. https://doi.org/10.1016/j.envres.2025.122618
2025Adams, K. P.; Gashu, D.; Zegeye, E. A.; Mannar, M. G. V.; Diosady, L. L.; Ananth, N.; Ander, E. L., The Cost of Expanding Ethiopia’s Salt Iodization Program to Include Multiple Micronutrients. Curr. Dev. Nutr. 2025, 9 (8), 107508. https://doi.org/10.1016/j.cdnut.2025.107508
2025Shen, H.; Edwards, E. A.; Mahadevan, R.; Papangelakis, V. G., Modeling Steady-State Ferrous Oxidation in Continuous Bioreactors for Non-contact Bioleaching. J. Sustainable Metall. 2025, 11 (4), 3770-3779. https://doi.org/10.1007/s40831-025-01141-z
2025Buitrón, G.; Meyer, T.; Edwards, E. A.; Corona, V. M., Modeling and optimization of bioproduct formation with purple phototrophic bacteria using machine learning. Bioresour. Technol. 2025, 436, 132963. https://doi.org/10.1016/j.biortech.2025.132963
2025Araújo, S. P.; Lomheim, L.; Kraus, S. P. Q.; Mack, E. E.; Spain, J. C.; Gavazza, S.; Edwards, E. A., Dehalobacter Dechlorinates Dichloroanilines and Contributes to the Natural Attenuation of Dichloronitrobenzenes at a Complex Industrial Site. Environ. Sci. Technol. 2025, 59 (29), 15251-15260. https://doi.org/10.1021/acs.est.5c04189
2025Wang, S.; Araújo, S. P.; Lomheim, L.; Mack, E. E.; Edwards, E. A.; Passeport, E., Reductive Dechlorination of 2,3-Dichloroaniline by Dehalobacter in an Anaerobic Enrichment Culture. Environ. Sci. Technol. 2025, 59 (29), 15261-15271. https://doi.org/10.1021/acs.est.5c04190
2025Barraza-Chavez, J. M.; Barghout, R. A.; Almada-Monter, R.; Sánchez-Lengeling, B.; Jinich, A.; Mahadevan, R., Graph Data Modeling: Molecules, Proteins, & Chemical Processes. ACS In Focus; American Chemical Society: 2025. https://doi.org/10.1021/acsinfocus.7e9017
2025Kalhori, S. K.; Allen, D. G.; Ramachandran, A. C., A compressional rheological approach to characterize biosludge with implications to dewatering. J. Rheol. 2025, 69 (4), 553-572. https://doi.org/10.1122/8.0000951
2025Bulka, O.; Edwards, E. A., Complete metagenome-assembled genome sequence of Solidesulfovibrio sp. DCME from a dichloromethane dechlorinating microbial community. Microbiol. Resour. Announce. 2025, 14 (8), e0051525. https://doi.org/10.1128/mra.00515-25
2025Kim, B.-C.; Kleinsteuber, S.; Lawson, C. E., Carbon-efficient waste upcycling: combining syngas fermentation and chain elongation with synthetic consortia. Curr. Opin. Biotechnol. 2025, 94, 103321. https://doi.org/10.1016/j.copbio.2025.103321
2025Nino, S. L.; Meyer, T.; Edwards, E. A.; Allen, D. G., Effects of anaerobic digestion on the dewaterability of sonicated biosludge. J. Environ. Manage. 2025, 388, 125981. https://doi.org/10.1016/j.jenvman.2025.125981
2025Vázquez-Sánchez, H.; Okeke, I. J.; Singh, E.; Baaqel, H.; Saville, B. A.; MacLean, H. L.; Sarathy, S. M., A life cycle assessment of e-hydrogen production using proton-exchange membrane water electrolysis coupled with desalination in Saudi Arabia. Int. J. Hydrogen Energy 2025, 139, 792-805. https://doi.org/10.1016/j.ijhydene.2025.05.154
2025Khan, S.; Shoaib, M.; Wani, O. B.; Bobicki, E. R.; Allen, D. G., Cellulose nanocrystals as a rheology modifier in the processing of ultramafic nickel ores. Chem. Eng. J. Adv. 2025, 22, 100767. https://doi.org/10.1016/j.ceja.2025.100767
2025Zournas, A.; Incha, M. R.; Radivojević, T.; Blay, V.; Martí, J. M.; Costello, Z.; Schmidt, M.; Chung, T.; Thompson, M. G.; Pearson, A. S.; Kinnunen, P. C.; Eng, T.; Lawson, C. E.; Tan, S.; Ogorzalek, T.; Kaplan, N.; Forrer, M.; Backman, T. W. H.; Mukhopadhyay, A.; Hillson, N. J.; Keasling, J. D.; Martín, H. G., Machine learning-led semi-automated medium optimization reveals salt as key for flaviolin production in Pseudomonas putida. Commun. Biol. 2025, 8 (1), 630. https://doi.org/10.1038/s42003-025-08039-2
2025Reeve, D.; Simpson, A.; Kumar, V.; Master, E. R.; Colcleugh, D.; Evans, G. J., Leaders of Tomorrow - A Leadership Development Program for Engineering Students at the University of Toronto. ASEE Conf. Proc. 2025. https://doi.org/10.18260/1-2-1153-52791
2025Zak, M. T. E.; Papangelakis, V. G.; Allen, D. G., Biosorption selectivity of rare earth elements onto Euglena mutabilis suspensions and biofilms and the effect of divalent metal ions. J. Rare Earths 2025, 43 (10), 2269-2275. https://doi.org/10.1016/j.jre.2025.03.018
2025Xu, Z.; Barghout, R. A.; Wu, J.; Garg, D.; Song, Y. S.; Mahadevan, R., CPI-Pred: A deep learning framework for predicting functional parameters of compound-protein interactions. bioRxiv 2025. https://doi.org/10.1101/2025.01.16.633372
2025Paasela, T.; Schwenner, N.; Zhao, H.; Sun, M.; Haataja, T.; Karppi, J.; Vaattovaara, A.; Master, E. R.; Sandgren, M. O. J.; Kärkönen, A. K.; Tenkanen, M., A glycerol oxidase from Norway spruce (Picea abies L. Karst.) expands biochemical and structural attributes of the GMC oxidoreductase superfamily. bioRxiv 2025. https://doi.org/10.1101/2025.01.06.631446
2025Strachan, C. R.; Bowers, C. M.; Kim, B.-C.; Movsesijan, T.; Neubauer, V.; Mueller, A. J.; Yu, X. A.; Pereira, M. D. F.; Nagl, V.; Faas, J.; Wagner, M.; Zebeli, Q.; Weimer, P. J.; Candry, P.; Polz, M. F.; Lawson, C. E.; Selberherr, E., Distinct lactate utilization strategies drive niche differentiation between two co-existing Megasphaera species in the rumen microbiome. ISME J. 2025, 19 (1). https://doi.org/10.1093/ismejo/wraf147
2025Siddiqui, J.; Wang, Y.; Diosady, L. L., Delivering Iron Through Iced Tea; a Functional Beverage to Combat Iron Deficiency Anemia in At-Risk Populations. SSRN 2025. https://doi.org/10.2139/ssrn.5397626
2025Bayleyegn, Z.; Modupe, O.; Hailu, S.; Mamo, G.; Woldeyohannes, M.; Tessema, M.; Martı́nez, H.; Diosady, L. L.; Brown, K. H.; Assefa, T.; Arabi, M., Testing for feasibility of large-scale production of Double Fortified Salt with iodine and folic acid in Ethiopia. SSRN 2025. https://doi.org/10.2139/ssrn.5606213
2025Badewole, A.; Huang, J. E.; Sargent, E. H.; Saville, B. A.; MacLean, H. L., Carbon footprint assessment of ethylene oxide production via CO2 electrolysis. RSC Sustainability 2025, 3 (7), 3095-3108. https://doi.org/10.1039/d5su00258c
2025Gregor, R.; Vercelli, G. T.; Szabo, R. E.; Gralka, M.; Reynolds, R. C.; Qu, E. B.; Levine, N. M.; Cordero, O. X., Vitamin auxotrophies shape microbial community assembly on model marine particles. ISME J. 2025, 19 (1). https://doi.org/10.1093/ismejo/wraf184
2024Picott, K. J.; Edwards, E. A., Contrasting Kinetics of Highly Similar Chloroalkane Reductive Dehalogenases. Environ Sci Technol 2024. https://doi.org/10.1021/acs.est.4c07149
2024Nesbø¸, C. L.; Yang, M. I.; Sharan, A. A.; Meyer, T.; Edwards, E. A., Metagenomes and metagenome assembled genomes from anaerobic digesters at three Canadian pulp and paper mills. Microbiol Resour Announc 2024, 13 (11), e0056124. https://doi.org/10.1128/mra.00561-24
2024Khatir, B.; Lin, A.; Vuong, T. V.; Serles, P.; Shayesteh, A.; Hsu, N. S. Y.; Sinton, D.; Tran, H.; Master, E. R.; Filleter, T.; Golovin, K., Molecular Structure of Omniphobic, Surface-Grafted Polydimethylsiloxane Chains. Small 2024, e2406089. https://doi.org/10.1002/smll.202406089
2024Khatir, B.; Serles, P.; Wen, T.; Vuong, T. V.; Shayesteh, A.; Au, S.; Sinton, D.; Master, E. R.; Filleter, T.; Golovin, K., Autophobic polydimethylsiloxane nanodroplets enable abrasion-tolerant omniphobic surfaces. Chem. Eng. J. 2024,502, 157718. https://doi.org/https://doi.org/10.1016/j.cej.2024.157718
2024Bulka, O.; Mahadevan, R.; Edwards, E. A., Pangenomic insights into Dehalobacter evolution and acquisition of functional genes for bioremediation. Microb Genom 2024, 10 (11). https://doi.org/10.1099/mgen.0.001324
2024Patel, D. T.; Stogios, P. J.; Jaroszewski, L.; Urbanus, M. L.; Sedova, M.; Semper, C.; Le, C.; Takkouche, A.; Ichii, K.; Innabi, J.; Patel, D. H.; Ensminger, A. W.; Godzik, A.; Savchenko, A., Global atlas of predicted functional domains in Legionella pneumophila Dot/Icm translocated effectors. Mol. Syst. Biol. 2024. https://doi.org/10.1038/s44320-024-00076-z
2024Aliabbasi, N.; Diosady, L. L.; Emam-Djomeh, Z., Purification and Characterization of Pinto Bean Protein Using Membrane Technology. Food Science & Nutrition 2024, n/a (n/a). https://doi.org/https://doi.org/10.1002/fsn3.4511
2024Chan, Y. K. K.; Han, F.; Cheng, Y. L.; Diosady, L. L., Thermodynamic analysis of the effect of palm stearin on fully hydrogenated soybean oil coatings in granular micronutrient premixes. Food Chem. 2024, 466, 142119. https://doi.org/10.1016/j.foodchem.2024.142119
2024Ma, H.; Khusnutdinova, A. N.; Lemak, S.; Chernikova, T. N.; Golyshina, O. V.; Almendral, D.; Ferrer, M.; Golyshin, P. N.; Yakunin, A. F., Polyesterase activity is widespread in the family IV carboxylesterases from bacteria. J. Hazard. Mater. 2024, 481, 136540. https://doi.org/10.1016/j.jhazmat.2024.136540
2024Xie, L.; Yuan, L.; Sun, J.; Yang, M. I.; Khan, I.; Jaramillo Lopez, J.; Gong, Y.; Nair, P.; Hao, C.; Helm, P.; Barrett, H.; Edwards, E. A.; Peng, H., Compound Class-Specific Temporal Trends (2021–2023) of Tire Wear Compounds in Suspended Solids from Toronto Wastewater Treatment Plants. ACS ES&T Water 2024. https://doi.org/10.1021/acsestwater.4c00705
2024Sivan, P.; Urbancsok, J.; Donev, E. N.; Derba-Maceluch, M.; Barbut, F. R.; Yassin, Z.; Gandla, M. L.; Mitra, M.; Heinonen, S. E.; Šimura, J.; Cermanová, K.; Karady, M.; Scheepers, G.; Jönsson, L. J.; Master, E. R.; Vilaplana, F.; Mellerowicz, E. J., Modification of xylan in secondary walls alters cell wall biosynthesis and wood formation programs and improves saccharification. Plant Biotechnol. J. 2024. https://doi.org/10.1111/pbi.14487
2024Khusnutdinova, A. N.; Batyrova, K. A.; Wang, P.-H.; Flick, R.; Edwards, E. A.; Yakunin, A. F., Enzyme cascades for in vitro and in vivo FMN prenylation and UbiD (de)carboxylase activation under aerobic conditions. In Methods Enzymol., Academic Press: 2024. https://doi.org/https://doi.org/10.1016/bs.mie.2024.10.015
2024Wu, N. C.; Quevedo, R.; Nurse, M.; Hezaveh, K.; Liu, H.; Sun, F.; Muffat, J.; Sun, Y.; Simmons, C. A.; McGaha, T. L.; Prinos, P.; Arrowsmith, C. H.; Ailles, L.; D'Arcangelo, E.; McGuigan, A. P., The use of a multi-metric readout screen to identify EHMT2/G9a-inhibition as a modulator of cancer-associated fibroblast activation state. Biomaterials 2024, 314, 122879. https://doi.org/10.1016/j.biomaterials.2024.122879
2024Lemak, S.; Brown, G.; Makarova, K. S.; Koonin, E. V.; Yakunin, A. F., Biochemical plasticity of the Escherichia coli CRISPR Cascade revealed by in vitro reconstitution of Cascade activities from purified Cas proteins. FEBS J. 2024. https://doi.org/10.1111/febs.17295
2024Faurschou, K. L.; Clasky, A. J.; Watchorn, J.; Tram Su, J.; Li, N. T.; McGuigan, A. P.; Gu, F. X., Lateral Assessment of Mucomimetic Hydrogels to Evaluate Correlation between Microscopic and Macroscopic Properties. Macromol. Biosci. 2024, e2400146. https://doi.org/10.1002/mabi.202400146
2024Bulka, O.; Edwards, E., Metagenome from ACT-3/CF: an anaerobic chloroform-degrading microbial community. Microbiology Resource Announcements 2024, 0 (0), e00674-24. https://doi.org/10.1128/mra.00674-24
2024Bulka, O.; Edwards, E. A., Two distinct Dehalobacter metagenome-assembled genomes from anaerobic chloroform and dichloromethane degrading consortia. Microbiology Resource Announcements 2024, 0 (0), e00803-24. https://doi.org/10.1128/mra.00803-24
2024Anih, C. E.; Kumar, P.; Chen, B.-K.; Dueik, V.; Carré, D.; Diosady, L. L., Production and characterisation of protein isolates from Chilean granado beans (Phaseolus vulgaris L.). International Journal of Food Science & Technology 2024, 59(11), 8321-8330. https://doi.org/https://doi.org/10.1111/ijfs.17545
2024Agena, E.; Gois, I. M.; Bowers, C. M.; Mahadevan, R.; Scarborough, M. J.; Lawson, C. E., Evaluating the feasibility of medium-chain oleochemical synthesis using microbial chain elongation. J Ind Microbiol Biotechnol 2024, 51. https://doi.org/10.1093/jimb/kuae027
2024Khusnutdinova, A. N.; Tran, H.; Devlekar, S.; Distaso, M. A.; Kublanov, I. V.; Skarina, T.; Stogios, P.; Savchenko, A.; Ferrer, M.; Golyshina, O. V.; Yakunin, A. F.; Golyshin, P. N., Moderately thermostable GH1 β-glucosidases from hyperacidophilic archaeon Cuniculiplasma divulgatum S5. FEMS Microbiol. Ecol. 2024, 100 (9). https://doi.org/10.1093/femsec/fiae114
2024Urbanus, M. L.; Zheng, T. M.; Khusnutdinova, A. N.; Banh, D.; O'Connor Mount, H.; Gupta, A.; Stogios, P. J.; Savchenko, A.; Isberg, R. R.; Yakunin, A. F.; Ensminger, A. W., A random mutagenesis screen enriched for missense mutations in bacterial effector proteins. G3 (Bethesda) 2024, 14 (9). https://doi.org/10.1093/g3journal/jkae158
2024Xiao, J. Z.; Nesbø¸, C. L.; Molenda, O.; Toth, C. R. A.; Edwards, E. A., Draft genome of an anaerobic nitrate-reducing, benzene-degrading member of the order Thermincolales. Microbiol Resour Announc 2024, e0029524. https://doi.org/10.1128/mra.00295-24
2024Yan, S.; Cheng, K. Y.; Bohu, T.; Ginige, M. P.; Morris, C.; Lomheim, L.; Yang, I.; Edwards, E.; Zheng, G.; Zhou, L.; Kaksonen, A. H., Changes in microbial communities during high-rate microbial selenate reduction in an up-flow anaerobic fluidized bed reactor. Chemosphere 2024, 364, 143224. https://doi.org/10.1016/j.chemosphere.2024.143224
2024Di Pede, E.; Kolade, O.; Saville, B., Impact of enzymatically derived manno-oligosaccharides on the growth of select lactobacillus strains under aerobic and anaerobic conditions. Bioactive Carbohydrates and Dietary Fibre 2024, 32, 100445. https://doi.org/https://doi.org/10.1016/j.bcdf.2024.100445
2024Phillips, E.; Picott, K.; Kümmel, S.; Bulka, O.; Edwards, E.; Wang, P.-H.; Gehre, M.; Nijenhuis, I.; Lollar, B. S., Vitamin B12as a source of variability in isotope effects for chloroform biotransformation by Dehalobacter. MicrobiologyOpen 2024,13 (4), e1433. https://doi.org/https://doi.org/10.1002/mbo3.1433
2024Mobin, L.; Diosady, L. L.; Haq, M. A., Enhancing vitamin A stability using saponin-chitosan polyelectrolytes coating: Optimization, haracterization, and controlled release. J. Food Sci. 2024. https://doi.org/10.1111/1750-3841.17320
2024Siddiqui, J.; Dialani, G. J.; Diosady, L. L., Designing iron-ethyl cellulose microparticles to prevent unwanted color changes during iron fortification of milk tea. J. Food Process Eng. 2024, 47 (8), e14712. https://doi.org/https://doi.org/10.1111/jfpe.14712
2024Semper, C.; Watanabe, N.; Karimullina, E.; Patel, D. T.; Di Leo, R.; Castellanos, M.; Patel, D. H.; Chaconas, G.; Savchenko, A., Structure analysis of the telomere resolvase from the Lyme disease spirochete Borrelia garinii reveals functional divergence of its C-terminal domain. Nucleic Acids Res. 2024, 52 (14), 8431-8442. https://doi.org/10.1093/nar/gkae580
2024Aqeel, H.; Brei, E.; Allen, D. G.; Liss, S. N., Distribution of extracellular adhesins in environmental biofilms and flocs: Reimagining the microbial structure. Chemosphere 2024, 363, 142928. https://doi.org/10.1016/j.chemosphere.2024.142928
2024Co, I. L.; Fomina, A.; Nurse, M.; McGuigan, A. P., Applications and evolution of 3D cancer-immune cell models. Trends Biotechnol. 2024. https://doi.org/10.1016/j.tibtech.2024.06.008
2024Siluvai Antony, P.; Vanderghem, C.; MacLean, H. L.; Saville, B. A.; Posen, I. D., A framework to estimate national biofuel potential by siting production facilities: a case study for canola sustainable aviation fuel in Canada. Energy Advances 2024, 3 (7), 1612-1631. https://doi.org/10.1039/D3YA00579H
2024Bulka, O.; Edwards, E. A., Metagenomic sequences from anaerobic chloroform and dichloromethane degrading microbial communities. Microbiol Resour Announc 2024, e0039124. https://doi.org/10.1128/mra.00391-24
2024Barbut, F. R.; Cavel, E.; Donev, E. N.; Gaboreanu, I.; Urbancsok, J.; Pandey, G.; Demailly, H.; Jiao, D.; Yassin, Z.; Derba-Maceluch, M.; Master, E. R.; Scheepers, G.; Gutierrez, L.; Mellerowicz, E. J., Integrity of xylan backbone affects plant responses to drought. Front Plant Sci 2024, 15, 1422701. https://doi.org/10.3389/fpls.2024.1422701
2024Rjaibi, S. T.; Jacques, E.; Ni, J.; Xu, B.; Kouthouridis, S.; Sitolle, J.; Lad, H.; Gulati, N.; Li, N. T.; Ahn, H.; Ginsberg, H. J.; Zhang, B.; Grand, F. L.; Gilbert, P. M.; McGuigan, A. P., A Cryopreservation Strategy for Myoblast Storage in Paper-Based Scaffolds for Inter-Laboratory Studies of Skeletal Muscle Health. Adv. Mater. Interfaces 2024. https://doi.org/10.1002/admi.202400382
2024Suchana, S.; Araujo, S. P.; Lomheim, L.; Mack, E. E.; Spain, J. C.; Edwards, E.; Passeport, E., Compound-Specific Carbon, Nitrogen, and Hydrogen Isotope Analysis to Characterize Aerobic Biodegradation of 2,3-Dichloroaniline by a Mixed Enrichment Culture. Environ Sci Technol 2024. https://doi.org/10.1021/acs.est.4c02173
2024Mototsune, O. M.; Hong, S. H.; Naguib, H. E.; Master, E. R., Enzymatically Oxidized Carbohydrates As Dicarbonyl Biobased Cross-Linkers for Polyamines. Biomacromolecules 2024, 25 (7), 4428-4439. https://doi.org/10.1021/acs.biomac.4c00457
2024D'Aoust, P. M.; Hegazy, N.; Ramsay, N. T.; Yang, M. I.; Dhiyebi, H. A.; Edwards, E.; Servos, M. R.; Ybazeta, G.; Habash, M.; Goodridge, L.; Poon, A.; Arts, E.; Brown, R. S.; Payne, S. J.; Kirkwood, A.; Simmons, D.; Desaulniers, J. P.; Ormeci, B.; Kyle, C.; Bulir, D.; Charles, T.; McKay, R. M.; Gilbride, K.; Oswald, C.; Peng, H.; Pileggi, V.; Wang, M. L.; Tong, A.; Orellano, D.; DeGroot, C. T.; Delatolla, R., SARS-CoV-2 viral titer measurements in Ontario, Canada wastewaters throughout the COVID-19 pandemic. Sci Data 2024, 11 (1), 656. https://doi.org/10.1038/s41597-024-03414-w
2024Bulka, O.; Picott, K.; Mahadevan, R.; Edwards, E. A., From mec cassette to rdhA: a key Dehalobacter genomic neighborhood in a chloroform and dichloromethane-transforming microbial consortium. Appl Environ Microbiol 2024,90 (6), e0073224. https://doi.org/10.1128/aem.00732-24
2024Pham, C.; Stogios, P. J.; Savchenko, A.; Mahadevan, R., Design and Characterization of a Generalist Biosensor for Indole Derivatives. ACS Synth Biol 2024. https://doi.org/10.1021/acssynbio.3c00736
2024Choudhary, R.; Mahadevan, R., FOCUS on NOD2: Advancing IBD Drug Discovery with a User-Informed Machine Learning Framework. ACS Med. Chem. Lett. 2024. https://doi.org/10.1021/acsmedchemlett.4c00148
2024Meyer, T.; Yang, M. I.; Nesbø, C. L.; Master, E. R.; Edwards, E. A., Microbial Community Organization during Anaerobic Pulp and Paper Mill Wastewater Treatment. ACS ES&T Engineering 2024. https://doi.org/10.1021/acsestengg.3c00554
2024Choudhary, R.; Mahadevan, R., DyMMM-LEAPS: An ML-based framework for modulating evenness and stability in synthetic microbial communities. Biophys. J. 2024. https://doi.org/10.1016/j.bpj.2024.05.006
2024Zak, M. T. E.; Carunungan, N. A. R.; Papangelakis, V. G.; Allen, D. G., Desorption of rare earth elements biosorbed on Euglena mutabilis suspensions and biofilms. Can. J. Chem. Eng. 2024. https://doi.org/10.1002/cjce.25344
2024Pham, C.; Stogios, P. J.; Savchenko, A.; Mahadevan, R., Computation-guided transcription factor biosensor specificity engineering for adipic acid detection. Computational and Structural Biotechnology Journal 2024, 23, 2211-2219. https://doi.org/10.1016/j.csbj.2024.05.002
2024Goitom, E.; Ariano, S.; Gilbride, K.; Yang, M. I.; Edwards, E. A.; Peng, H.; Dannah, N.; Farahbakhsh, F.; Hataley, E.; Sarvi, H.; Sun, J.; Waseem, H.; Oswald, C., Identification of environmental and methodological factors driving variability of Pepper Mild Mottle Virus (PMMoV) across three wastewater treatment plants in the City of Toronto. Sci. Total Environ. 2024, 932, 172917. https://doi.org/10.1016/j.scitotenv.2024.172917
2024Pham, C.; Nasr, M. A.; Skarina, T.; Di Leo, R.; Kwan, D. H.; Martin, V. J. J.; Stogios, P. J.; Mahadevan, R.; Savchenko, A., Functional and structural characterization of an IclR family transcription factor for the development of dicarboxylic acid biosensors. FEBS J. 2024. https://doi.org/10.1111/febs.17149
2024Saffarionpour, S.; Diosady, L. L., Cyclodextrins and their potential applications for delivering vitamins, iron, and iodine for improving micronutrient status. Drug Deliv Transl Res 2024. https://doi.org/10.1007/s13346-024-01586-x
2024Haddad Momeni, M.; Zitting, A.; Jäämuru, V.; Turunen, R.; Penttilä, P.; Buchko, G. W.; Hiltunen, S.; Maiorova, N.; Koivula, A.; Sapkota, J.; Marjamaa, K.; Master, E. R., Insights into the action of phylogenetically diverse microbial expansins on the structure of cellulose microfibrils. Biotechnol Biofuels Bioprod 2024, 17 (1), 56. https://doi.org/10.1186/s13068-024-02500-w
2024Cadavid, J. L.; Li, N. T.; McGuigan, A. P., Bridging systems biology and tissue engineering: Unleashing the full potential of complex 3D in vitro tissue models of disease. Biophys Rev (Melville) 2024, 5 (2), 021301. https://doi.org/10.1063/5.0179125
2024Garieri, T.; Allen, D. G.; Gao, W.; Liao, B., A review of emerging membrane-based microalgal-bacterial processes for wastewater treatment: Process configurations, biological and membrane performance, and perspectives. Sci. Total Environ. 2024, 927, 172141. https://doi.org/10.1016/j.scitotenv.2024.172141
2024Sun, J.; Yang, M. I.; Peng, J.; Khan, I.; Lopez, J. J.; Chan, R.; Edwards, E. A.; Peng, H., Underestimation of SARS-CoV-2 in wastewater due to single or double mutations in the N1 qPCR probe binding region. Water Res X 2024, 22, 100221. https://doi.org/10.1016/j.wroa.2024.100221
2024Diep, P.; Stogios, P. J.; Evdokimova, E.; Savchenko, A.; Mahadevan, R.; Yakunin, A. F., Ni(II)-binding affinity of CcNikZ-II and its homologs: the role of the HH-prong and variable loop revealed by structural and mutational studies. FEBS J. 2024. https://doi.org/10.1111/febs.17125
2024Vuong, T.V.; Aghajohari, M.; Feng, X.; Woodstock, A.K.; Nambiar, D.M.; Sleiman, Z.C.; Urbanowicz, B.R.; Master, E.R., Enzymatic routes to designer hemicelluloses for use in biobased materials. JACS Au 2024. 4(11). https://doi.org/10.1021/jacsau.4c00469,
2024Zhao, H.; Karppi, J.; Mototsune, O.; Poshina, D.; Svartström, J.; Nguyen, T. T. M.; Vo, T. M.; Tsang, A.; Master, E.; Tenkanen, M., Substrate specificity mapping of fungal CAZy AA3_2 oxidoreductases. Biotechnol Biofuels Bioprod 2024,17 (1), 47. https://doi.org/10.1186/s13068-024-02491-8
2024Pattisapu, J. V.; Manda, V. V.; Kottakki, M. N. R.; Kajana, P. M.; Kancherla, V.; Bhaganagarapu, H. R.; Veerappan, V.; Ediga, A.; Mannar, V.; Diosady, L.; Oakley, G. P., Jr., Folic Acid-Fortified Iodized Salt and Serum Folate Levels in Reproductive-Aged Women of Rural India: A Nonrandomized Controlled Trial. JAMA Netw Open 2024, 7 (3), e241777. https://doi.org/10.1001/jamanetworkopen.2024.1777
2024Kastenhofer, J.; Spadiut, O.; Papangelakis, V. G.; Allen, D. G., Roles of pH and phosphate in rare earth element biosorption with living acidophilic microalgae. Appl Microbiol Biotechnol 2024, 108 (1), 262. https://doi.org/10.1007/s00253-024-13068-8
2024Syriste, L.; Patel, D. T.; Stogios, P. J.; Skarina, T.; Patel, D.; Savchenko, A., An acetyltransferase effector conserved across Legionella species targets the eukaryotic eIF3 complex to modulate protein translation. mBio 2024, 15 (3), e0322123. https://doi.org/10.1128/mbio.03221-23
2024Feng, X.; Hong, S.; Zhao, H.; Vuong, T. V.; Master, E. R., Biocatalytic cascade to polysaccharide amination. Biotechnol Biofuels Bioprod 2024, 17 (1), 34. https://doi.org/10.1186/s13068-024-02477-6
2024Leshuk, T. M. C.; Young, Z. W.; Wilson, B.; Chen, Z. Q.; Smith, D. A.; Lazaris, G.; Gopanchuk, M.; McLay, S.; Seelemann, C. A.; Paradis, T.; Bekele, A.; Guest, R.; Massara, H.; White, T.; Zubot, W.; Letinski, D. J.; Redman, A. D.; Allen, D. G.; Gu, F., A Light Touch: Solar Photocatalysis Detoxifies Oil Sands Process-Affected Waters Prior to Significant Treatment of Naphthenic Acids. ACS ES&T Water 2024. https://doi.org/10.1021/acsestwater.3c00616
2024Chan, Y. K. K.; Sodhi, R. N. S.; Cheng, Y.-L.; Diosady, L. L., Characterization of granular micronutrient premixes for food fortification. J. Food Process Eng. 2024, 47 (2), e14543. https://doi.org/https://doi.org/10.1111/jfpe.14543
2024Hiltunen, S.; Sapkota, J.; Ioannou, E.; Haddad Momeni, M.; Master, E.; Ristolainen, M., Comparative assessment of chemical and biochemical approaches for the activation of lignocellulosic materials and emerging opportunities for expansin-related proteins. Cellulose 2024, 31 (1), 147-168. https://doi.org/10.1007/s10570-023-05637-3
2024Potter, N.; Latour, S.; Wong, E. C. N.; Winnik, M. A.; Jackson, H. W.; McGuigan, A. P.; Nitz, M., Design Parameters for a Mass Cytometry Detectable HaloTag Ligand. Bioconjugate Chemistry 2024, 35 (1), 80-91. https://doi.org/10.1021/acs.bioconjchem.3c00434
2024Nesbø, C. L.; Fitamo, T. M.; Lee, H.; Edwards, E. A., Metagenomes and metagenome-assembled genomes from a sequentially fed anaerobic digester treating solid organic municipal waste. Microbiol Resour Announc 2024, 13 (1), e0091923. https://doi.org/10.1128/mra.00919-23
2024Sharan, A. A.; Bellemare, A.; DiFalco, M.; Tsang, A.; Vuong, T. V.; Edwards, E. A.; Master, E. R., Functional screening pipeline to uncover laccase-like multicopper oxidase enzymes that transform industrial lignins. Bioresour. Technol. 2024, 393, 130084. https://doi.org/10.1016/j.biortech.2023.130084
2024Robbins, B.; Gaona, A.; Tavasoli, A.; Bergerson, J. A.; Saville, B. A.; MacLean, H. L., Life cycle environmental performance of methanol production through photocatalytic dry methane reforming. J. CO2 Util. 2024, 79. https://doi.org/10.1016/j.jcou.2023.102638
2024Rana, K.; Coll, F.; Master, E. R.; Moore, E. B., Using systems thinking to understand bio-product commercialization: The chemical engineer's perspective. Proc. Can. Eng. Educ. Assoc. (CEEA) 2024. https://doi.org/10.24908/pceea.2024.18615
2024Weissman, J. L.; Chappell, C. R.; de Oliveira, B. F. R.; Evans, N.; Fagre, A. C.; Forsythe, D.; Frese, S. A.; Gregor, R.; Ishaq, S. L.; Johnston, J.; Bittu, K. R.; Matsuda, S. B.; McCarren, S.; de la Campa, M. O. A.; Roepke, T. A.; Sinnott-Armstrong, N.; Stobie, C. S.; Talluto, L.; Vargas-Muñiz, J. M., Queer- and trans-inclusive faculty hiring—A call for change. PLoS Biol. 2024, 22 (11), e3002919. https://doi.org/10.1371/journal.pbio.3002919
2024Shen, H.; Edwards, E. A.; Mahadevan, R.; Papangelakis, V. G., Recovering Nickel from Pyrrhotite Tailings via Multistage Bioleaching. In TMS 2025 154th Annual Meeting & Exhibition Supplemental Proceedings, Springer: 2024; pp 1079-1082. https://doi.org/10.1007/978-3-031-67398-6_180
2024Nagree, N.; Ruzzante, S.; Juneja, R.; Diosady, L. L., Blotting Method to Determine Oil Content in Mustard Seeds: A Solution to Asymmetries in the Mustard Seed Economy. J. Food Eng. Technol. 2024, 13 (2), 57-62. https://doi.org/10.32732/jfet.2024.13.2.57
2024Feigis, M.; Mahadevan, R., Synthetic metabolic pathways for ethylene glycol assimilation outperform natural counterparts. bioRxiv 2024. https://doi.org/10.1101/2024.09.05.611552
2024Xiao, J. Z.; Nesbø, C. L.; Molenda, O.; Toth, C. R. A.; Edwards, E. A., Metagenomic and genomic sequences from a nitrate-reducing benzene-degrading enrichment culture. Microbiol. Resour. Announce. 2024, 13 (10), e0029424. https://doi.org/10.1128/mra.00294-24
2024Teichman, D. L.; Nagree, N.; Chan, A.; Diosady, L. L., Evaluation of Rice-based Alternatives to Titanium Dioxide for Colour-masking in Iron-Fortified Salts. J. Food Eng. Technol. 2024, 13 (2), 41-46. https://doi.org/10.32732/jfet.2024.13.2.41
2024Shabestary, K.; Klamt, S.; Link, H.; Mahadevan, R.; Steuer, R.; Hudson, E. P., Design of microbial catalysts for two-stage processes. Nat. Rev. Bioeng. 2024, 2 (12), 1039-1055. https://doi.org/10.1038/s44222-024-00225-x
2024Galatro, D.; Chin, Y. D.; Saville, B., STRATEGIES FOR CHEMICAL PROCESS DESIGN: A SUSTAINABILITY-BASED APPROACH. ASEE Conf. Proc. 2024. https://doi.org/10.18260/1-2-660.1113-48560
2024Sampara, P.; Lawson, C. E.; Scarborough, M.; Ziels, R. M., Advancing environmental biotechnology with microbial community modeling rooted in functional ‘omics. Curr. Opin. Biotechnol. 2024, 88, 103165. https://doi.org/10.1016/j.copbio.2024.103165
2024Vatandoust, A.; Doucet, L.; Diosady, L. L., Investigating Magnesium Carbonate as a Substitute for Titanium Dioxide in Ferrous Fumarate Premixes for Double Salt Fortification. Curr. Dev. Nutr. 2024, 8, 102910. https://doi.org/10.1016/j.cdnut.2024.102910
2024Modupe, O.; Oyewole, F.; Siddiqui, J.; Diosady, L. L., Pilot Scale Production and Optimization of Quadruple Fortification of Salt. Curr. Dev. Nutr. 2024, 8, 102856. https://doi.org/10.1016/j.cdnut.2024.102856
2024Tremblay, A.; Bekiaris, P. S.; Klamt, S.; Mahadevan, R., Understanding systems level metabolic adaptation resulting from osmotic stress. bioRxiv 2024. https://doi.org/10.1101/2024.03.19.585265
2024Thakali, O.; Mercier, É.; Eid, W.; Wellman, M. K.; Brasset-Gorny, J.; Overton, A. K.; Knapp, J. J.; Manuel, D. G.; Charles, T. C.; Goodridge, L. D.; Arts, E. J.; Poon, A. F. Y.; Brown, R. S.; Graber, T. E.; Delatolla, R.; DeGroot, C. T.; Adebiyi, A. I.; Advani, M.; Agboola, S. O.; Andino, D.; Aqeel, H.; Badlani, Y.; Bitter, L. C.; Bragg, L. M.; Breadner, P.; Bulir, D. C.; Chan, R.; Channa, B.; Charles, T. C.; Chen, J.; Corchis-Scott, R.; Cranney, M.; D’Aoust, P. M.; Dang, H. T.; Danna, N.; Dawe, R.; de Melo, T.; Desaulniers, J.-P.; Dhiyebi, H. A.; Donovan, J.; Edwards, E. A.; Ellmen, I.; Farah, J. A.; Farahbakhsh, F.; Fuzzen, M. L. M.; Garant, T. M.; Geng, Q.; Gedge, A.; Gere, A.; Gibson, R. M.; Gilbride, K. A.; Goitom, E.; Gong, Q.; Habash, M. B.; Hamilton, A. M.; Haskell, B.; Hayat, S.; Hegazy, N.; Ho, H.; Hungwe, Y. C.; Ikert, H.; Islam, G.; Joseph, D. P.; Khan, I.; Kibbee, R. J.; Kirkwood, A. E.; Knapp, J. J.; Knockleby, J.; Kwon, S.-H.; Kyle, C. J.; Lawal, O. U.; Lomheim, L.; McKay, R. M. L.; Menon, R.; Miller, Z.; Mloszewska, A. M.; Mohammadiankia, A.; Naik, S.; Nash, D.; Ng, A.; Olabode, A. S.; Örmeci, B.; Oswald, C. J.; Overton, A. K.; Pabon, G. J.; Paramananthasivam, V.; Pardy, J.; Parreira, V. R.; Payne, S. J.; Peng, H.; Pisharody, L.; Prasla, S. R.; Precious, M. J.; Rizvi, F.; Santilli, M.; Sarvi, H.; Servos, M. R.; Siemon, D.; Simmons, D. B. D.; Sing-Judge, C., Real-time evaluation of signal accuracy in wastewater surveillance of pathogens with high rates of mutation. Sci. Rep. 2024, 14 (1), 3728. https://doi.org/10.1038/s41598-024-54319-y
2024Zuffa, S.; Schmid, R.; Bauermeister, A.; Gomes, P. W. P.; Caraballo-Rodríguez, A. M.; Abiead, Y. E.; Aron, A. T.; Gentry, E. C.; Zemlin, J.; Meehan, M. J.; Avalon, N. E.; Cichewicz, R. H.; Buzun, E.; Terrazas, M. C.; Hsu, C.-Y.; Oles, R. E.; Ayala, A. V.; Zhao, J.; Chu, H.; Kuijpers, M. C. M.; Jackrel, S. L.; Tugizimana, F.; Nephali, L. P.; Dubery, I. A.; Madala, N. E.; Moreira, E. A.; Costa-Lotufo, L. V.; Lopes, N. P.; Teixeira, P. R.; Jimenez, P. C.; Rimal, B.; Patterson, A. D.; Traxler, M. F.; Pessotti, R. D. C.; Alvarado-Villalobos, D.; Tamayo-Castillo, G.; Chaverri-Echandi, P.; Escudero-Leyva, E.; Quirós-Guerrero, L.-M.; Bory, A. J.; Joubert, J.; Rutz, A.; Wolfender, J.-L.; Allard, P.-M.; Sichert, A.; Pontrelli, S.; Pullman, B. S.; Bandeira, N.; Gerwick, W. H.; Gindro, K.; Codina, J. M.; Wagner, B. C.; Forchhammer, K.; Petras, D.; Aiosa, N.; Garg, N.; Liebeke, M.; Bourceau, P.; Kang, K. B.; Gadhavi, H.; de Carvalho, L. P. S.; dos Santos, M. S.; Pérez-Lorente, A. I.; Molina-Santiago, C.; Romero, D.; Franke, R.; Brönstrup, M.; de León, A. V. P.; Pope, P. B.; La Rosa, S. L.; La Barbera, G.; Roager, H. M.; Laursen, M. F.; Hammerle, F. J.; Siewert, B.; Peintner, U.; Licona-Cassani, C.; Rodríguez-Orduña, L.; Rampler, E.; Hildebrand, F.; Koellensperger, G.; Schoeny, H.; Hohenwallner, K.; Panzenboeck, L.; Gregor, R.; O’Neill, E. C.; Roxborough, E. T.; Odoi, J.; Bale, N. J.; Ding, S.; Damsté, J. S. S.; Guan, X. L.; Cui, J. J.; Ju, K.-S.; Silva, D. B.; Silva, F. M. R.; da Silva, G. F.; Koolen, H. H. F.; Grundmann, C. O.; Clement, J. A., microbeMASST: a taxonomically informed mass spectrometry search tool for microbial metabolomics data. Nat. Microbiol. 2024, 9 (2), 336-345. https://doi.org/10.1038/s41564-023-01575-9
2024Nesbø, C. L.; Kublanov, I. V.; Yang, M. I.; Sharan, A. A.; Meyer, T.; Edwards, E. A., High quality Bathyarchaeia MAGs from lignocellulose-impacted environments elucidate metabolism and evolutionary mechanisms. ISME Commun. 2024, 4 (1), ycae156. https://doi.org/10.1093/ismeco/ycae156
2024Gotsmy, M.; Giannari, D.; Mahadevan, R.; Zanghellini, J., Optimizing Fed-Batch Processes with Dynamic Control Flux Balance Analysis. IFAC-PapersOnLine 2024, 58 (23), 109-114. https://doi.org/10.1016/j.ifacol.2024.10.019
2024Nwanebu, E. O.; Jezernik, M.; Lawson, C. E.; Bruant, G.; Tartakovsky, B., Impact of cathodic pH and bioaugmentation on acetate and CH4 production in a microbial electrosynthesis cell. RSC Adv. 2024, 14 (32), 22962-22973. https://doi.org/10.1039/d4ra03906h
2024Pattisapu, J. V.; Manda, V. V.; Rao, K. M. N.; Kajana, P. M.; Kancherla, V.; Bhaganagarapu, H.; Veerappan, V. R.; Achuith, E.; Mannar, V.; Diosady, L. L.; Oakley, G. P., The Impact of Folic Acid-Fortified Iodized Salt on Serum Folate Concentration in Women of Reproductive Age- A Longitudinal Interventional Study Based in South India. Brain Spine 2024, 4, 103421. https://doi.org/10.1016/j.bas.2024.103421
2023Dahiya, D.; Koitto, T.; Kutvonen, K.; Wang, Y.; Haddad Momeni, M.; de Ruijter, S.; Master, E. R., Fungal loosenin-like proteins boost the cellulolytic enzyme conversion of pretreated wood fiber and cellulosic pulps. Bioresour. Technol. 2023, 394, 130188. https://doi.org/10.1016/j.biortech.2023.130188
2023Raji, O.; Eijsink, V. G. H.; Master, E.; Forsberg, Z., Modularity impacts cellulose surface oxidation by a lytic polysaccharide monooxygenase from Streptomyces coelicolor. Cellulose 2023. https://doi.org/10.1007/s10570-023-05551-8
2023Bulka, O.; Webb, J.; Dworatzek, S.; Mahadevan, R.; Edwards, E. A., A Multifunctional Dehalobacter? Tandem Chloroform and Dichloromethane Degradation in a Mixed Microbial Culture. Environ Sci Technol 2023, 57 (48), 19912-19920. https://doi.org/10.1021/acs.est.3c06686
2023Liu, J.; Edwards, E.; Van Hamme, J.; Manefield, M.; Higgins, C. P.; Blotevogel, J.; Liu, J.; Lee, L. S., Correspondence on "Defluorination of Perfluorooctanoic Acid (PFOA) and Perfluorooctane Sulfonate (PFOS) by Acidimicrobium sp. Strain A6". Environ Sci Technol 2023, 57 (48), 20440-20442. https://doi.org/10.1021/acs.est.3c06681
2023Bordeleau, E.; Stogios, P. J.; Evdokimova, E.; Koteva, K.; Savchenko, A.; Wright, G. D., Mechanistic plasticity in ApmA enables aminoglycoside promiscuity for resistance. Nat. Chem. Biol. 2023. https://doi.org/10.1038/s41589-023-01483-3
2023Lin, J. D.; Stogios, P. J.; Abe, K. T.; Wang, A.; MacPherson, J.; Skarina, T.; Gingras, A. C.; Savchenko, A.; Ensminger, A. W., Functional diversification despite structural congruence in the HipBST toxin-antitoxin system of Legionella pneumophila. mBio 2023, 14 (5), e0151023. https://doi.org/10.1128/mbio.01510-23
2023Oyewole, A. O.; Diosady, L. L., Evaluating the potential of Hibiscus sabdariffa beverage to address the prevalence of iron deficiency in sub-Saharan Africa. LWT 2023, 188. https://doi.org/10.1016/j.lwt.2023.115433
2023Barghout, R. A.; Xu, Z.; Betala, S.; Mahadevan, R., Advances in generative modeling methods and datasets to design novel enzymes for renewable chemicals and fuels. Curr. Opin. Biotechnol. 2023, 84, 103007. https://doi.org/10.1016/j.copbio.2023.103007
2023Toth, C. R. A.; Molenda, O.; Nesbø, C.; Luo, F.; Devine, C.; Guo, S.; Chen, X.; Edwards, E. A., Metagenomic and Genomic Sequences from a Methanogenic Benzene-Degrading Consortium. Microbiol Resour Announc 2023, 12 (5), e0134222. https://doi.org/10.1128/mra.01342-22
2023Saffarionpour, S.; Diosady, L. L., Preparation and characterization of an iron-β-cyclodextrin inclusion complex: factors influencing the host-guest interaction. Food Funct. 2023. https://doi.org/10.1039/d3fo00090g
2023Skrivergaard, S.; Young, J. F.; Sahebekhtiari, N.; Semper, C.; Venkatesan, M.; Savchenko, A.; Stogios, P. J.; Therkildsen, M.; Rasmussen, M. K., A simple and robust serum-free media for the proliferation of muscle cells. Food Res. Int. 2023,172, 113194. https://doi.org/https://doi.org/10.1016/j.foodres.2023.113194
2023Mathieu, Y.; Raji, O.; Bellemare, A.; Di Falco, M.; Nguyen, T. T. M.; Viborg, A. H.; Tsang, A.; Master, E.; Brumer, H., Functional characterization of fungal lytic polysaccharide monooxygenases for cellulose surface oxidation. Biotechnol Biofuels Bioprod 2023, 16 (1), 132. https://doi.org/10.1186/s13068-023-02383-3
2023Landon-Brace, N.; Li, N. T.; McGuigan, A. P., Exploring New Dimensions of Tumor Heterogeneity: The Application of Single Cell Analysis to Organoid-Based 3D In Vitro Models. Adv Healthc Mater 2023, e2300903. https://doi.org/10.1002/adhm.202300903
2023Chen, J.; Liu, Y.; Mahadevan, R., Genetic Engineering of Acidithiobacillus ferridurans Using CRISPR Systems To Mitigate Toxic Release in Biomining. Environ Sci Technol 2023, 57 (33), 12315-12324. https://doi.org/10.1021/acs.est.3c02492
2023Khusnutdinova, A. N.; Batyrova, K. A.; Brown, G.; Fedorchuk, T.; Chai, Y. S.; Skarina, T.; Flick, R.; Petit, A. P.; Savchenko, A.; Stogios, P.; Yakunin, A. F., Structural insights into hydrolytic defluorination of difluoroacetate by microbial fluoroacetate dehalogenases. FEBS J. 2023. https://doi.org/10.1111/febs.16903
2023Diep, P.; Kell, B.; Yakunin, A.; Hilfinger, A.; Mahadevan, R., Quantifying metal-binding specificity of CcNikZ-II from Clostridium carboxidivorans in the presence of competing metal ions. Anal. Biochem. 2023, 676, 115182. https://doi.org/10.1016/j.ab.2023.115182
2023Melo, N.; Araújo, S. P.; de Paula Queiroz Kraus, S.; Lomheim, L.; Quintero, P. B.; Mack, E. E.; Edwards, E. A.; Spain, J.; Gavazza, S., Strategies for Bioremediation of Soil from an Industrial Site Exposed to Chlorinated and Nitroaromatic Compounds. Groundwater Monit. Rem. 2023. https://doi.org/10.1111/gwmr.12596
2023Suchana, S.; Edwards, E.; Mack, E. E.; Lomheim, L.; Melo, N.; Gavazza, S.; Passeport, E., Compatibility of polar organic chemical integrative sampler (POCIS) with compound specific isotope analysis (CSIA) of substituted chlorobenzenes. Sci. Total Environ. 2023, 906, 167628. https://doi.org/10.1016/j.scitotenv.2023.167628
2023Panda, S.; Zhou, J. F. J.; Feigis, M.; Harrison, E.; Ma, X.; Fung Kin Yuen, V.; Mahadevan, R.; Zhou, K., Engineering Escherichia coli to produce aromatic chemicals from ethylene glycol. Metab. Eng. 2023, 79, 38-48. https://doi.org/10.1016/j.ymben.2023.06.012
2023Venturelli, O. S.; Wang, H. H.; Estrela, S.; Huang, K. C.; Ledesma-Amaro, R.; Fedorec, A. J. H.; Stecher, B.; Lawson, C. E.; Zarrinpar, A.; Guo, C.-J.; Soyer, O. S., What is the key challenge in engineering microbiomes? Cell Systems 2023, 14 (2), 85-90. https://doi.org/https://doi.org/10.1016/j.cels.2023.01.002
2023Gonçalves, M. C. P.; Cansian, A. B. M.; Tardioli, P. W.; Saville, B. A., Production of sugars from mixed hardwoods for use in the synthesis of sugar fatty acid esters catalyzed by immobilized-stabilized derivatives of Candida antarctica lipase B. Biofuels, Bioproducts and Biorefining 2023. https://doi.org/10.1002/bbb.2517
2023Vatandoust, A.; Krishnaswamy, K.; Li, Y. O.; Diosady, L., Triple fortification of salt with iron, iodine and zinc oxide using extrusion. J. Food Eng. 2023, 339, 111258. https://doi.org/https://doi.org/10.1016/j.jfoodeng.2022.111258
2023Zak, M. T. E.; Papangelakis, V. G.; Allen, D. G., Biosorption of lanthanum by acidophile Euglena mutabilis biofilms and the role of extracellular polymeric substances. Algal Research 2023, 72, 103111. https://doi.org/https://doi.org/10.1016/j.algal.2023.103111
2023Siddiqui, J.; McGee, E. J. T.; Mhasavade, D.; Palagiri, S.; Balamurugan, V.; Diosady, L. L., Spray Encapsulation of Iron in Chitosan Biopolymer for Tea Fortification. J. Food Qual. 2023, 2023, 4127663. https://doi.org/10.1155/2023/4127663
2023Arellano-Saab, A.; Skarina, T.; Xu, Z.; McErlean, C. S. P.; Savchenko, A.; Lumba, S.; Stogios, P. J.; McCourt, P., Structural analysis of a hormone-bound Striga strigolactone receptor. Nat Plants 2023. https://doi.org/10.1038/s41477-023-01423-y
2023Chen, X.; Molenda, O.; Brown, C. T.; Toth, C. R. A.; Guo, S.; Luo, F.; Howe, J.; Nesbø, C. L.; He, C.; Montabana, E. A.; Cate, J. H. D.; Banfield, J. F.; Edwards, E. A., "Candidatus Nealsonbacteria" Are Likely Biomass Recycling Ectosymbionts of Methanogenic Archaea in a Stable Benzene-Degrading Enrichment Culture. Appl Environ Microbiol 2023, 89 (5), e0002523. https://doi.org/10.1128/aem.00025-23
2023Diep, P.; Leo Shen, H.; Wiesner, J. A.; Mykytczuk, N.; Papangelakis, V.; Yakunin, A. F.; Mahadevan, R., Engineered nickel bioaccumulation in Escherichia coli by NikABCDE transporter and metallothionein overexpression. Eng. Life Sci. 2023. https://doi.org/10.1002/elsc.202200133
2023Fuzzen, M.; Harper, N. B. J.; Dhiyebi, H. A.; Srikanthan, N.; Hayat, S.; Bragg, L. M.; Peterson, S. W.; Yang, I.; Sun, J. X.; Edwards, E. A.; Giesy, J. P.; Mangat, C. S.; Graber, T. E.; Delatolla, R.; Servos, M. R., An improved method for determining frequency of multiple variants of SARS-CoV-2 in wastewater using qPCR assays. Sci. Total Environ. 2023,881, 163292. https://doi.org/10.1016/j.scitotenv.2023.163292
2023Semper, C.; Savchenko, A., Protein expression and purification of bioactive growth factors for use in cell culture and cellular agriculture. STAR Protoc 2023, 4 (3), 102351. https://doi.org/10.1016/j.xpro.2023.102351
2023Wong, M.T.,; Nesbø, C.L.; Wang, W.; Couturier, M.; Lombard, V.; Lapebie, P.; Terrapon, N.; Henrissat, B.; Edwards, E.A.; Master, E.R., Taxonomic composition and carbohydrate-active enzyme content in microbial enrichments from pulp mill anaerobic granules after cultivation on lignocellulosic substrates. Frontiers in Microbiomes. 2023. https://doi.org/10.3389/frmbi.2023.1094865
2023Cao, R.; Li, N. T.; Latour, S.; Cadavid, J. L.; Tan, C. M.; Forman, A.; Jackson, H. W.; McGuigan, A. P., An Automation Workflow for High-Throughput Manufacturing and Analysis of Scaffold-Supported 3D Tissue Arrays. Adv Healthc Mater 2023, e2202422. https://doi.org/10.1002/adhm.202202422
2023Lee, D.; Latour, S.; Emblem, M.; Clark, H. J.; Santos, J. T.; Jang, J.; McGuigan, A. P.; Nitz, M., Characterization of an N-Allylglyoxylamide-Based Bioorthogonal Nitrone Trap. Bioconjug. Chem. 2023, 34 (12), 2358-2365. https://doi.org/10.1021/acs.bioconjchem.3c00463
2023Lash, E.; Prudent, V.; Stogios, P. J.; Savchenko, A.; Noble, S. M.; Robbins, N.; Cowen, L. E., Ent2 Governs Morphogenesis and Virulence in Part through Regulation of the Cdc42 Signaling Cascade in the Fungal Pathogen Candida albicans. mBio 2023, 14 (2), e0343422. https://doi.org/10.1128/mbio.03434-22
2023Lee, H.; Fitamo, T. M.; Nesbø, C. L.; Guilford, N. G. H.; Kanger, K.; Yang, M. I.; Edwards, E. A., Microbial community dynamics of a sequentially fed anaerobic digester treating solid organic waste. FEMS Microbiol. Ecol. 2023, 99 (3), fiad017. https://doi.org/10.1093/femsec/fiad017
2023Guo, Y.; Karimullina, E.; Emde, T.; Otwinowski, Z.; Borek, D.; Savchenko, A., Monomer and dimer structures of cytochrome bo(3) ubiquinol oxidase from Escherichia coli. Protein Sci. 2023, 32 (4), e4616. https://doi.org/10.1002/pro.4616
2023Karlikow, M.; Amalfitano, E.; Yang, X.; Doucet, J.; Chapman, A.; Mousavi, P. S.; Homme, P.; Sutyrina, P.; Chan, W.; Lemak, S.; Yakunin, A. F.; Dolezal, A. G.; Kelley, S.; Foster, L. J.; Harpur, B. A.; Pardee, K., CRISPR-induced DNA reorganization for multiplexed nucleic acid detection. Nat Commun 2023, 14 (1), 1505. https://doi.org/10.1038/s41467-023-36874-6
2023Okeke, I. J.; Saville, B. A.; MacLean, H. L., Low carbon hydrogen production in Canada via natural gas pyrolysis. Int. J. Hydrogen Energy 2023, 48 (34), 12581-12599. https://doi.org/https://doi.org/10.1016/j.ijhydene.2022.12.169
2023Popov, G.; Fiebig-Comyn, A.; Syriste, L.; Little, D. J.; Skarina, T.; Stogios, P. J.; Birstonas, S.; Coombes, B. K.; Savchenko, A., Distinct Molecular Features of NleG Type 3 Secreted Effectors Allow for Different Roles during Citrobacter rodentium Infection in Mice. Infect Immun 2023, 91 (1), e0050522. https://doi.org/10.1128/iai.00505-22
2023Distaso, M. A.; Chernikova, T. N.; Bargiela, R.; Coscolín, C.; Stogios, P.; Gonzalez-Alfonso, J. L.; Lemak, S.; Khusnutdinova, A. N.; Plou, F. J.; Evdokimova, E.; Savchenko, A.; Lunev, E. A.; Yakimov, M. M.; Golyshina, O. V.; Ferrer, M.; Yakunin, A. F.; Golyshin, P. N., Thermophilic Carboxylesterases from Hydrothermal Vents of the Volcanic Island of Ischia Active on Synthetic and Biobased Polymers and Mycotoxins. Appl Environ Microbiol 2023, 89 (2), e0170422. https://doi.org/10.1128/aem.01704-22
2023Monschein, M.; Ioannou, E.; Koitto, T.; Al Amin, L.; Varis, J. J.; Wagner, E. R.; Mikkonen, K. S.; Cosgrove, D. J.; Master, E. R., Loosenin-Like Proteins from Phanerochaete carnosa Impact Both Cellulose and Chitin Fiber Networks. Appl Environ Microbiol 2023, 89 (1), e0186322. https://doi.org/10.1128/aem.01863-22
2023Khan, S.; Shoaib, M.; Molaei, N.; Wani, O. B.; Chen, Z.; Vuong, T. V.; Roth, E. W.; Fiddes, L. K.; Kuzmenko, I.; Master, E. R.; Bobicki, E. R., Cellulose Nanocrystals’ Role in Critical Mineral Beneficiation: Dual Aggregate-Dispersant Behavior Supports Environmentally Benign Nickel Processing. ACS Sustainable Chem. Eng. 2023, 11 (4), 1294-1304. https://doi.org/10.1021/acssuschemeng.2c05923
2023Derba-Maceluch, M.; Mitra, M.; Hedenström, M.; Liu, X.; Gandla, M. L.; Barbut, F. R.; Abreu, I. N.; Donev, E. N.; Urbancsok, J.; Moritz, T.; Jönsson, L. J.; Tsang, A.; Powlowski, J.; Master, E. R.; Mellerowicz, E. J., Xylan glucuronic acid side chains fix suberin-like aliphatic compounds to wood cell walls. New Phytol. 2023, 238 (1), 297-312. https://doi.org/10.1111/nph.18712
2023Liu, Y.; Chen, J.; Raj, K.; Baerg, L.; Nathan, N.; Philpott, D. J.; Mahadevan, R., A Universal Strategy to Promote Secretion of G+/G- Bacterial Extracellular Vesicles and Its Application in Host Innate Immune Responses. ACS Synthetic Biology 2023, 12 (1), 319-328. https://doi.org/10.1021/acssynbio.2c00583
2023de Oliveira, R. D.; Le Roux, G. A. C.; Mahadevan, R., Nonlinear programming reformulation of dynamic flux balance analysis models. Comput. Chem. Eng. 2023, 170, 108101. https://doi.org/https://doi.org/10.1016/j.compchemeng.2022.108101
2023Yan, S.; Cheng, K. Y.; Bohu, T.; Morris, C.; Lomheim, L.; Yang, I.; Ginige, M. P.; Edwards, E.; Zheng, G.; Zhou, L.; Kaksonen, A. H., Microbial community dynamics in a feedback-redox controlled bioreactor process that enabled sequential selenate, nitrate and sulfate removal, and elemental selenium recovery. Journal of Water Process Engineering 2023, 54, 103881. https://doi.org/https://doi.org/10.1016/j.jwpe.2023.103881
2023Venkatesan, M.; Fruci, M.; Verellen, L. A.; Skarina, T.; Mesa, N.; Flick, R.; Pham, C.; Mahadevan, R.; Stogios, P. J.; Savchenko, A., Molecular mechanism of plasmid-borne resistance to sulfonamide antibiotics. Nat Commun 2023, 14(1), 4031. https://doi.org/10.1038/s41467-023-39778-7
2023Mdoe, P.; Mannar, V.; Paulo, B.; Guga, G.; Mushi, C.; Kimathi, C.; Paschal, J.; Jatosh, S.; Assey, V.; Abdallah, F.; Mduma, E.; Diosady, L., Multiple micronutrients fortified salt: consumers’ acceptability survey, Tanzania. BMC Public Health 2023, 23 (1), 73. https://doi.org/10.1186/s12889-023-15000-7
2023Ghazisaidi, H.; Wang, V.; Fatehi, P.; Tran, H.; Meyer, T.; Allen, D. G., Determining the performance of lignin-based flocculants in improving biosludge dewaterability. J. Environ. Manage. 2023, 325. https://doi.org/10.1016/j.jenvman.2022.116509
2023Ghazisaidi, H.; Tran, H.; Meyer, T.; Allen, D. G., Enhancement of biosludge dewatering using proteins through dual conditioning. The Canadian Journal of Chemical Engineering 2023, 101 (6), 3226-3233. https://doi.org/https://doi.org/10.1002/cjce.24705
2023Gregor, R.; Johnston, J.; Coe, L. S. Y.; Evans, N.; Forsythe, D.; Jones, R.; Muratore, D.; de Oliveira, B. F. R.; Szabo, R. E.; Wan, Y.; Williams, J. K.; Chappell, C. R.; Matsuda, S. B.; de la Campa, M. O. A.; Weissman, J. L.; Fagre, A. C.; Frese, S. A.; Hamilton, M.; Labbate, M.; Mollner, M.; Moroenyane, I.; Pacciani-Mori, L.; Piedade, G. J.; Pontrelli, S.; Yang, M. Y.; Weiss, A. C.; Zablocki, O.; Vyas, H. K. N., Building a queer- and trans-inclusive microbiology conference. mSystems 2023, 8 (5), e0043323. https://doi.org/10.1128/msystems.00433-23
2023Suchana, S.; Lomheim, L.; Edwards, E. A.; Quintero, P. B.; Mack, E. E.; Mancini, S. A.; Passeport, E., Compound specific isotope analysis to evaluate in situ transformation of a complex mixture of substituted chlorobenzenes in a pilot constructed wetland system. ChemRxiv 2023. https://doi.org/10.26434/chemrxiv-2023-rbr9x
2023Mdoe, P. F.; Mannar, V.; Justine, M.; Guga, G.; Gadiye, R.; Assey, V.; Kimathi, C.; Abdallah, F. C. B.; Paschal, J.; Mduma, E. R.; Diosady, L. L., Effectiveness of Quadruple Fortified Salt Compared to Double and Single Fortified Salts in Improving Haemoglobin Levels Among Moderately Anemic Women Aged 18–49 Years in Rural Low Resource Setting: Randomized Clinical Trial. Nutr. Diet. Suppl. 2023, 15, 77-89. https://doi.org/10.2147/nds.s412893
2023Asbury, R. E.; Di Pede, E.; Saville, B. A., P20-004-23 Effect of Carbohydrate Structure on Biological Function: Mannan-oligosaccharides and Control of Pathogens. Curr. Dev. Nutr. 2023, 7, 101510. https://doi.org/10.1016/j.cdnut.2023.101510
2023Shan, X.; Goyal, A.; Gregor, R.; Cordero, O. X., Annotation-free discovery of functional groups in microbial communities. Nat. Ecol. Evol. 2023, 7 (5), 716-724. https://doi.org/10.1038/s41559-023-02021-z
2023Anton, M.; Almaas, E.; Benfeitas, R.; Benito-Vaquerizo, S.; Blank, L. M.; Dräger, A.; Hancock, J. M.; Kittikunapong, C.; König, M.; Li, F.; Liebal, U. W.; Lu, H.; Ma, H.; Mahadevan, R.; Mardinoğlu, A.; NIELSEN, J. K.; Nogales, J. M.; Pagni, M.; Papin, J. A.; Patil, K. R.; Price, N. D.; Robinson, J. L.; Sánchez, B. J.; Diez, M. S.; Sulheim, S.; Svensson, T. L.; Teusink, B.; Vongsangnak, W.; Wang, H.; Zeidan, A. A.; Kerkhoven, E. J., standard-GEM: standardization of open-source genome-scale metabolic models. bioRxiv 2023. https://doi.org/10.1101/2023.03.21.512712
2023Raj, K.; Wong, W. T. Z.; Zhang, B.; Mahadevan, R., Fundamental Trade-Off Between Speed of Switching and Robustness of Genetic Switches Limits Dynamic Control of Metabolism. SSRN 2023. https://doi.org/10.2139/ssrn.4489792
2022Zhao, H.; Karppi, J.; Nguyen, T. T. M.; Bellemare, A.; Tsang, A.; Master, E.; Tenkanen, M., Characterization of a novel AA3_1 xylooligosaccharide dehydrogenase from Thermothelomyces myriococcoides CBS 398.93. Biotechnol Biofuels Bioprod 2022, 15 (1), 135. https://doi.org/10.1186/s13068-022-02231-w
2022Zhang, X.; Kushner, P. J.; Saville, B. A.; Posen, I. D., Cold Temperature Limits to Biodiesel Use under Present and Future Climates in North America. Environ. Sci. Technol. 2022, 56 (12), 8640-8649. https://doi.org/10.1021/acs.est.2c01699
2022Yi, S.; Morson, N.; Edwards, E. A.; Yang, D.; Liu, R.; Zhu, L.; Mabury, S. A., Anaerobic Microbial Dechlorination of 6:2 Chlorinated Polyfluorooctane Ether Sulfonate and the Underlying Mechanisms. Environ. Sci. Technol. 2022, 56 (2), 907-916. https://doi.org/10.1021/acs.est.1c05475
2022Xu, Z.; Mahadevan, R., Efficient Enumeration of Branched Novel Biochemical Pathways Using a Probabilistic Technique. Ind. Eng. Chem. Res. 2022, 61 (25), 8645-8657. https://doi.org/10.1021/acs.iecr.1c02211
2022Wu, N. C.; Cadavid, J. L.; Tan, X.; Latour, S.; Scaini, S.; Makhijani, P.; McGaha, T. L.; Ailles, L.; McGuigan, A. P., 3D microgels to quantify tumor cell properties and therapy response dynamics. Biomaterials 2022, 283, 121417. https://doi.org/10.1016/j.biomaterials.2022.121417
2022Vuong, T. V.; Master, E. R., Enzymatic upgrading of heteroxylans for added-value chemicals and polymers. Curr. Opin. Biotechnol. 2022, 73, 51-60. https://doi.org/10.1016/j.copbio.2021.07.001
2022Venkatesan, M.; Semper, C.; Skrivergaard, S.; Di Leo, R.; Mesa, N.; Rasmussen, M. K.; Young, J. F.; Therkildsen, M.; Stogios, P. J.; Savchenko, A., Recombinant production of growth factors for application in cell culture. iScience 2022, 25(10), 105054. https://doi.org/10.1016/j.isci.2022.105054
2022Vatandoust, A.; Diosady, L., Iron compounds and their organoleptic properties in salt fortification with iron and iodine: an overview. Current Opinion in Food Science 2022, 43, 232-236. https://doi.org/https://doi.org/10.1016/j.cofs.2021.12.007
2022Varma, R.; Poon, J.; Liao, Z.; Aitchison, J. S.; Waddell, T. K.; Karoubi, G.; McGuigan, A. P., Planar organization of airway epithelial cell morphology using hydrogel grooves during ciliogenesis fails to induce ciliary alignment. Biomaterials Science 2022, 10 (2), 396-409. https://doi.org/10.1039/d1bm01327k
2022Turner, M.; Saville, B., Technoeconomic evaluation of protein-rich animal feed and ethanol production from palm kernel cake. Biofuels, Bioproducts and Biorefining 2022, 16 (1), 105-121. https://doi.org/10.1002/bbb.2259
2022Stogios, P. J.; Bordeleau, E.; Xu, Z.; Skarina, T.; Evdokimova, E.; Chou, S.; Diorio-Toth, L.; D'Souza, A. W.; Patel, S.; Dantas, G.; Wright, G. D.; Savchenko, A., Structural and molecular rationale for the diversification of resistance mediated by the Antibiotic_NAT family. Commun Biol 2022, 5 (1), 263. https://doi.org/10.1038/s42003-022-03219-w
2022Sonawane, J. M.; Mahadevan, R.; Pandey, A.; Greener, J., Recent progress in microbial fuel cells using substrates from diverse sources. Heliyon 2022, 8 (12), e12353. https://doi.org/10.1016/j.heliyon.2022.e12353
2022Siddiqui, J.; Modupe, O.; Vatandoust, A.; Diosady, L. L., Predicting the Stability of Double Fortified Salt by Determining the Coating Quality of the Encapsulated Iron Premix. J. Food Qual. 2022, 2022, 7812022. https://doi.org/10.1155/2022/7812022
2022Scarborough, M. J.; Lawson, C. E.; DeCola, A. C.; Gois, I. M., Microbiomes for sustainable biomanufacturing. Curr. Opin. Microbiol. 2022, 65, 8-14. https://doi.org/10.1016/j.mib.2021.09.015
2022Saffarionpour, S.; Diosady, L. L., Curcumin, a potent therapeutic nutraceutical and its enhanced delivery and bioaccessibility by pickering emulsions. Drug Deliv Transl Res 2022, 12 (1), 124-157. https://doi.org/10.1007/s13346-021-00936-3
2022Saffarionpour, S.; Diosady, L. L., The influence of iron source, hydrophilic emulsifiers, and positioning of encapsulates on in vitro bioaccessibility and simultaneous delivery of iron and curcumin by water-in-oil-in-water (W1/O/W2) double emulsions. Journal of Food Measurement and Characterization 2022, 1-22. https://doi.org/10.1007/s11694-022-01691-w
2022Saffarionpour, S.; Diosady, L. L., Delivery of curcumin through colloidal systems and its applications in functional foods. Current Opinion in Food Science 2022, 43, 155-162. https://doi.org/https://doi.org/10.1016/j.cofs.2021.12.003
2022Saffarionpour, S.; Diosady, L. L., Delivery of Ferric Sodium EDTA by Water-in-Oil-in-Water (W1/O/W2) Double Emulsions: Influence of Carrier Oil on its in Vitro Bioaccessibility. Food and Bioprocess Technology 2022, 15 (2), 421-439. https://doi.org/10.1007/s11947-021-02756-2
2022Sabat, G.; Ahrendt, S.; Wu, B.; Gaskell, J.; Held, B. W.; Toapanta, C.; Vuong, T. V.; Lipzen, A.; Zhang, J.; Schilling, J. S.; Master, E.; Grigoriev, I. V.; Blanchette, R. A.; Hibbett, D. S.; Bhatnagar, J.; Cullen, D., Proteome of the Wood Decay Fungus Fomitopsis pinicola Is Altered by Substrate. Microbiol Resour Announc 2022, 11 (9), e0058622. https://doi.org/10.1128/mra.00586-22
2022Qiao, W.; Liu, G.; Li, M.; Su, X.; Lu, L.; Ye, S.; Wu, J.; Edwards, E. A.; Jiang, J., Complete Reductive Dechlorination of 4-Hydroxy-chlorothalonil by Dehalogenimonas Populations. Environ Sci Technol 2022, 56 (17), 12237-12246. https://doi.org/10.1021/acs.est.2c02574
2022Puri, S.; Rekhi, T. K.; Thomas, T.; Jadhav, M. H.; Mannar, V.; Diosady, L. L., Sensory Trial of Quintuple Fortified Salt-Salt Fortified With Iodine, Iron, Folic Acid, Vitamin B(12), and Zinc-Among Consumers in New Delhi, India. Food Nutr. Bull. 2022, 43 (3), 340-350. https://doi.org/10.1177/03795721221078361
2022Prince, E.; Kheiri, S.; Wang, Y.; Xu, F.; Cruickshank, J.; Topolskaia, V.; Tao, H.; Young, E. W. K.; McGuigan, A. P.; Cescon, D. W.; Kumacheva, E., Microfluidic Arrays of Breast Tumor Spheroids for Drug Screening and Personalized Cancer Therapies. Advanced Healthcare Materials 2022, 11 (1), 2101085. https://doi.org/https://doi.org/10.1002/adhm.202101085
2022Prince, E.; Cruickshank, J.; Ba-Alawi, W.; Hodgson, K.; Haight, J.; Tobin, C.; Wakeman, A.; Avoulov, A.; Topolskaia, V.; Elliott, M. J.; McGuigan, A. P.; Berman, H. K.; Haibe-Kains, B.; Cescon, D. W.; Kumacheva, E., Biomimetic hydrogel supports initiation and growth of patient-derived breast tumor organoids. Nat Commun 2022, 13 (1), 1466. https://doi.org/10.1038/s41467-022-28788-6
2022Pileggi, V.; Shurgold, J.; Sun, J. S.; Yang, M. I.; Edwards, E. A.; Peng, H.; Tehrani, A.; Gilbride, K. A.; Oswald, C. J.; Wijayasri, S.; Al-Bargash, D.; Stuart, R.; Khansari, Z.; Raby, M.; Thomas, J.; Fletcher, T.; Simhon, A., Quantitative Trend Analysis of SARS-CoV-2 RNA in Municipal Wastewater Exemplified with Sewershed-Specific COVID-19 Clinical Case Counts. ACS ES&T Water 2022, 2 (11), 2070-2083. https://doi.org/10.1021/acsestwater.2c00058
2022Pieters, V. M.; Rjaibi, S. T.; Singh, K.; Li, N. T.; Khan, S. T.; Nunes, S. S.; Dal Cin, A.; Gilbert, P. M.; McGuigan, A. P., A three-dimensional human adipocyte model of fatty acid-induced obesity. Biofabrication 2022, 14 (4), 045009. https://doi.org/10.1088/1758-5090/ac84b1
2022Picott, K. J.; Flick, R.; Edwards, E. A., Heterologous Expression of Active Dehalobacter Respiratory Reductive Dehalogenases in Escherichia coli. Appl Environ Microbiol 2022, 88 (3), e0199321. https://doi.org/10.1128/aem.01993-21
2022Phillips, E.; Bulka, O.; Picott, K.; Kümmel, S.; Edwards, E. A.; Nijenhuis, I.; Gehre, M.; Dworatzek, S.; Webb, J.; Sherwood Lollar, B., Investigation of active site amino acid influence on carbon and chlorine isotope fractionation during reductive dechlorination. FEMS Microbiol. Ecol. 2022, 98 (8). https://doi.org/10.1093/femsec/fiac072
2022Phillips, E.; Bergquist, B. A.; Chartrand, M. M. G.; Chen, W.; Edwards, E. A.; Elsner, M.; Gilevska, T.; Hirschorn, S.; Horst, A.; Lacrampe-Couloume, G.; Mancini, S. A.; McKelvie, J.; Morrill, P. L.; Ojeda, A. S.; Slater, G. F.; Sleep, B. E.; De Vera, J.; Warr, O.; Passeport, E., Compound specific isotope analysis in hydrogeology. Journal of Hydrology 2022, 615, 128588. https://doi.org/https://doi.org/10.1016/j.jhydrol.2022.128588
2022Pham, C.; Stogios, P. J.; Savchenko, A.; Mahadevan, R., Advances in engineering and optimization of transcription factor-based biosensors for plug-and-play small molecule detection. Curr. Opin. Biotechnol. 2022, 76, 102753. https://doi.org/10.1016/j.copbio.2022.102753
2022Peter, J. S.; Sean, D. L.; Cameron, S.; Bradley, Q.; Karolina, M.; Elena, E.; Shane, R.; Zbyszek, O.; Dominika, B.; Leah, E. C.; Alexei, S., Molecular analysis and essentiality of Aro1 shikimate biosynthesis multi-enzyme in Candida albicans. Life Science Alliance 2022, 5 (8), e202101358. https://doi.org/10.26508/lsa.202101358
2022Penttinen, L.; Kouhi, V.; Fauré, R.; Skarina, T.; Stogios, P.; Master, E.; Jurak, E., Elucidating Sequence and Structural Determinants of Carbohydrate Esterases for Complete Deacetylation of Substituted Xylans. Molecules 2022, 27 (9), 2655. https://doi.org/10.3390/molecules27092655
2022Peng, J.; Sun, J.; Yang, M. I.; Gibson, R. M.; Arts, E. J.; Olabode, A. S.; Poon, A. F. Y.; Wang, X.; Wheeler, A. R.; Edwards, E. A.; Peng, H., Early Warning Measurement of SARS-CoV-2 Variants of Concern in Wastewaters by Mass Spectrometry. Environmental Science & Technology Letters 2022, 9 (7), 638-644. https://doi.org/10.1021/acs.estlett.2c00280
2022Nouri, S.; Holcroft, J.; Caruso, L. L.; Vuong, T. V.; Simmons, C. A.; Master, E. R.; Ganss, B., An SCPPPQ1/LAM332 protein complex enhances the adhesion and migration of oral epithelial cells: Implications for dentogingival regeneration. Acta Biomater. 2022, 147, 209-220. https://doi.org/10.1016/j.actbio.2022.05.035
2022Monschein, M.; Jurak, E.; Paasela, T.; Koitto, T.; Lambauer, V.; Pavicic, M.; Enjalbert, T.; Dumon, C.; Master, E. R., PACER: a novel 3D plant cell wall model for the analysis of non-catalytic and enzymatic responses. Biotechnol Biofuels Bioprod 2022, 15 (1), 30. https://doi.org/10.1186/s13068-022-02128-8
2022Modupe, O.; Li, Y. O.; Diosady, L. L., Optimization of the color masking and coating unit operations for microencapsulating ferrous fumarate for double fortification of salt. J. Food Sci. Technol. 2022, 59 (8), 3120-3129. https://doi.org/10.1007/s13197-022-05426-z
2022Modupe, O.; Krishnaswamy, K.; Siddiqui, J.; Li, Y. O.; Diosady, L. L., Development and scale-up of microencapsulation-based technology for multimicronutrient fortification of salt. In Microencapsulation in the Food Industry: A Practical Implementation Guide, Elsevier: 2022; pp 529-553. https://doi.org/10.1016/B978-0-12-821683-5.00012-1
2022Manchel, A.; Mahadevan, R.; Bataller, R.; Hoek, J. B.; Vadigepalli, R., Genome-Scale Metabolic Modeling Reveals Sequential Dysregulation of Glutathione Metabolism in Livers from Patients with Alcoholic Hepatitis. Metabolites 2022,12 (12). https://doi.org/10.3390/metabo12121157
2022Manchel, A.; Hoek, J. B.; Bataller, R.; Mahadevan, R.; Vadigepalli, R., Patient-Specific Genome-Scale Metabolic Models for Individualized Predictions of Liver Disease. IFAC-PapersOnLine 2022, 55 (23), 148-149. https://doi.org/https://doi.org/10.1016/j.ifacol.2023.01.032
2022Mahmoud, A.; Bilton, A.; Huang, M.; Diosady, L.; Cheng, Y. L., Mobilizing higher education and research toward engineering for global development: The approach taken by the Centre for Global Engineering. In Handbook of Innovation & Appropriate Technologies for International Development, Edward Elgar Publishing Ltd.: 2022; pp 103-124.
2022Liu, Y.; Khusnutdinova, A.; Chen, J.; Crisante, D.; Batyrova, K.; Raj, K.; Feigis, M.; Shirzadi, E.; Wang, X.; Dorakhan, R.; Wang, X.; Stogios, P. J.; Yakunin, A. F.; Sargent, E. H.; Mahadevan, R., Systems engineering of Escherichia coli for n-butane production. Metab. Eng. 2022, 74, 98-107. https://doi.org/10.1016/j.ymben.2022.10.001
2022Li, N. T.; Wu, N. C.; Cao, R.; Cadavid, J. L.; Latour, S.; Lu, X.; Zhu, Y.; Mijalkovic, M.; Roozitalab, R.; Landon-Brace, N.; Notta, F.; McGuigan, A. P., An off-the-shelf multi-well scaffold-supported platform for tumour organoid-based tissues. Biomaterials 2022, 291, 121883. https://doi.org/10.1016/j.biomaterials.2022.121883
2022Li, J.; Goddard-Borger, E. D.; Raji, O.; Saxena, H.; Solhi, L.; Mathieu, Y.; Master, E. R.; Wakarchuk, W. W.; Brumer, H., Chitin-Active Lytic Polysaccharide Monooxygenases Are Rare in Cellulomonas Species. Appl Environ Microbiol 2022, 88(15), e0096822. https://doi.org/10.1128/aem.00968-22
2022Hezaveh, K.; Shinde, R. S.; Klötgen, A.; Halaby, M. J.; Lamorte, S.; Ciudad, M. T.; Quevedo, R.; Neufeld, L.; Liu, Z. Q.; Jin, R.; Grünwald, B. T.; Foerster, E. G.; Chaharlangi, D.; Guo, M.; Makhijani, P.; Zhang, X.; Pugh, T. J.; Pinto, D. M.; Co, I. L.; McGuigan, A. P.; Jang, G. H.; Khokha, R.; Ohashi, P. S.; O'Kane, G. M.; Gallinger, S.; Navarre, W. W.; Maughan, H.; Philpott, D. J.; Brooks, D. G.; McGaha, T. L., Tryptophan-derived microbial metabolites activate the aryl hydrocarbon receptor in tumor-associated macrophages to suppress anti-tumor immunity. Immunity 2022, 55 (2), 324-340.e8. https://doi.org/10.1016/j.immuni.2022.01.006
2022Hayes, A. C.; Nesbø, C.; Edwards, E. A.; Jenson, E., Anaerobic Digestion of Kraft Pulp Mill Foul Condensate Under Thermophilic and Mesophilic Conditions. Environ. Eng. Sci. 2022, 39 (6), 573-583. https://doi.org/10.1089/ees.2021.0183
2022Haddadi, K.; Ahmed Barghout, R.; Mahadevan, R., KinMod database: a tool for investigating metabolic regulation. Database (Oxford) 2022, 2022. https://doi.org/10.1093/database/baac081
2022Haas, D.; Thamm, A. M.; Sun, J.; Huang, L.; Sun, L.; Beaudoin, G. A. W.; Wise, K. S.; Lerma-Ortiz, C.; Bruner, S. D.; Breuer, M.; Luthey-Schulten, Z.; Lin, J.; Wilson, M. A.; Brown, G.; Yakunin, A. F.; Kurilyak, I.; Folz, J.; Fiehn, O.; Glass, J. I.; Hanson, A. D.; Henry, C. S.; de Crécy-Lagard, V., Metabolite Damage and Damage Control in a Minimal Genome. mBio 2022, 13(4), e0163022. https://doi.org/10.1128/mbio.01630-22
2022Guo, S.; Toth, C. R. A.; Luo, F.; Chen, X.; Xiao, J.; Edwards, E. A., Transient Oxygen Exposure Causes Profound and Lasting Changes to a Benzene-Degrading Methanogenic Community. Environ Sci Technol 2022, 56 (18), 13036-13045. https://doi.org/10.1021/acs.est.2c02624
2022Gonçalves, M. C. P.; Romanelli, J. P.; Cansian, A. B. M.; Pucci, E. F. Q.; Guimarães, J. R.; Tardioli, P. W.; Saville, B. A., A review on the production and recovery of sugars from lignocellulosics for use in the synthesis of bioproducts. Industrial Crops and Products 2022, 186, 115213. https://doi.org/https://doi.org/10.1016/j.indcrop.2022.115213
2022Euler, C.; Mahadevan, R., On the design principles of metabolic flux sensing. Biophys. J. 2022, 121 (2), 237-247. https://doi.org/10.1016/j.bpj.2021.12.022
2022Du Bois, A. C.; Xue, A.; Pham, C.; Revie, N. M.; Meyer, K. J.; Yashiroda, Y.; Boone, C.; Nodwell, J. R.; Stogios, P.; Savchenko, A.; Robbins, N.; Iyer, K. R.; Cowen, L. E., High-Throughput Chemical Screen Identifies a 2,5-Disubstituted Pyridine as an Inhibitor of Candida albicans Erg11. mSphere 2022, 7 (3), e0007522. https://doi.org/10.1128/msphere.00075-22
2022Diep, P.; Cadavid, J. L.; Yakunin, A. F.; McGuigan, A. P.; Mahadevan, R., REVOLVER: A low-cost automated protein purifier based on parallel preparative gravity column workflows. HardwareX 2022, 11, e00291. https://doi.org/10.1016/j.ohx.2022.e00291
2022Davoudi, S.; Xu, B.; Jacques, E.; Cadavid, J. L.; McFee, M.; Chin, C.-Y.; Meysami, A.; Ebrahimi, M.; Bakooshli, M. A.; Tung, K.; Ahn, H.; Ginsberg, H. J.; McGuigan, A. P.; Gilbert, P. M., MEndR: An In Vitro Functional Assay to Predict In Vivo Muscle Stem Cell-Mediated Repair. Adv. Funct. Mater. 2022, 32 (2), 2106548. https://doi.org/https://doi.org/10.1002/adfm.202106548
2022D'Aoust, P. M.; Tian, X.; Towhid, S. T.; Xiao, A.; Mercier, E.; Hegazy, N.; Jia, J. J.; Wan, S.; Kabir, M. P.; Fang, W.; Fuzzen, M.; Hasing, M.; Yang, M. I.; Sun, J.; Plaza-Diaz, J.; Zhang, Z.; Cowan, A.; Eid, W.; Stephenson, S.; Servos, M. R.; Wade, M. J.; MacKenzie, A. E.; Peng, H.; Edwards, E. A.; Pang, X. L.; Alm, E. J.; Graber, T. E.; Delatolla, R., Wastewater to clinical case (WC) ratio of COVID-19 identifies insufficient clinical testing, onset of new variants of concern and population immunity in urban communities. Sci. Total Environ. 2022, 853, 158547. https://doi.org/10.1016/j.scitotenv.2022.158547
2022Cruz, M. R.; Cristy, S.; Guha, S.; De Cesare, G. B.; Evdokimova, E.; Sanchez, H.; Borek, D.; Miramón, P.; Yano, J.; Fidel, P. L., Jr.; Savchenko, A.; Andes, D. R.; Stogios, P. J.; Lorenz, M. C.; Garsin, D. A., Structural and functional analysis of EntV reveals a 12 amino acid fragment protective against fungal infections. Nat Commun 2022, 13 (1), 6047. https://doi.org/10.1038/s41467-022-33613-1
2022Cheung, S. L.; Short, S. M.; Allen, D. G., The influence of wastewater pretreatment, attachment material, and inoculation strategy on the growth of target algal species in cultivated biofilms. J. Appl. Phycol. 2022, 34 (1), 113-125. https://doi.org/10.1007/s10811-021-02637-3
2022Chen, J.; Liu, Y.; Diep, P.; Mahadevan, R., Harnessing synthetic biology for sustainable biomining with Fe/S-oxidizing microbes. Front Bioeng Biotechnol 2022, 10, 920639. https://doi.org/10.3389/fbioe.2022.920639
2022Chen, J.; Liu, Y.; Diep, P.; Mahadevan, R., Genetic engineering of extremely acidophilic Acidithiobacillus species for biomining: Progress and perspectives. J. Hazard. Mater. 2022, 438, 129456. https://doi.org/10.1016/j.jhazmat.2022.129456
2022Chan, P. W. Y.; Chakrabarti, N.; Ing, C.; Halgas, O.; To, T. K. W.; Wälti, M.; Petit, A.-P.; Tran, C.; Savchenko, A.; Yakunin, A. F.; Edwards, E. A.; Pomès, R.; Pai, E. F., Defluorination Capability of l-2-Haloacid Dehalogenases in the HAD-Like Hydrolase Superfamily Correlates with Active Site Compactness. ChemBioChem 2022, 23 (1), e202100414. https://doi.org/https://doi.org/10.1002/cbic.202100414
2022Cadavid, J. L.; Latour, S.; Nowlan, F.; Co, I. L.; Landon-Brace, N.; Wouters, B. G.; Grünwald, B. T.; Nitz, M.; Jackson, H. W.; McGuigan, A. P., An Engineered Paper-Based 3D Coculture Model of Pancreatic Cancer to Study the Impact of Tissue Architecture and Microenvironmental Gradients on Cell Phenotype. Advanced Healthcare Materials 2022, n/a (n/a), 2201846. https://doi.org/https://doi.org/10.1002/adhm.202201846
2022Arellano-Saab, A.; McErlean, C. S. P.; Lumba, S.; Savchenko, A.; Stogios, P. J.; McCourt, P., A novel strigolactone receptor antagonist provides insights into the structural inhibition, conditioning, and germination of the crop parasite Striga. J. Biol. Chem. 2022, 298 (4), 101734. https://doi.org/10.1016/j.jbc.2022.101734
2022Arefmanesh, M.; Vuong, T. V.; Nikafshar, S.; Wallmo, H.; Nejad, M.; Master, E. R., Enzymatic synthesis of kraft lignin-acrylate copolymers using an alkaline tolerant laccase. Applied Microbiology and Biotechnology 2022, 106(8), 2969-2979. https://doi.org/10.1007/s00253-022-11916-z
2022Arefmanesh, M.; Nikafshar, S.; Master, E. R.; Nejad, M., From acetone fractionation to lignin-based phenolic and polyurethane resins. Industrial Crops and Products 2022, 178, 114604. https://doi.org/https://doi.org/10.1016/j.indcrop.2022.114604
2022Xu, Z.-Q. J.; Wu, J.; Song, Y. S.; Mahadevan, R., Enzyme Activity Prediction of Sequence Variants on Novel Substrates using Improved Substrate Encodings and Convolutional Pooling. Proc. Mach. Learn. Res. 2022, 165, 78-87.
2022Diep, P.; Stogios, P. J.; Evdokimova, E.; Savchenko, A. V.; Mahadevan, R.; Yakunin, A. F., Ni(II) binding affinity and specificity of solute binding proteins: the importance of the double His motif and variable loop revealed by structural and mutational studies. bioRxiv 2022. https://doi.org/10.1101/2022.10.03.510666
2022Li, Y. O.; González, V. P. D.; Diosady, L. L., Microencapsulation of vitamins, minerals, and nutraceuticals for food applications. In Microencapsulation in the Food Industry: A Practical Implementation Guide, Elsevier: 2022; pp 507-528. https://doi.org/10.1016/b978-0-12-821683-5.00027-3
2022Chan, K.; Olubowale, G.; Diosady, L. L.; Cheng, Y.-L., Attrition of fully hydrogenated soybean oil-coated micronutrient granules during mixing. Proceedings of the 2022 AOCS Annual Meeting & Expo 2022. https://doi.org/10.21748/iwnz7321
2022Suchana, S.; Araújo, S. P.; Lomheim, L.; Edwards, E. A.; Mack, E. E.; Passeport, E., Multi-element compound specific isotope analysis reveals aerobic biodegradation of 2,3-dichloroaniline at a complex site. ChemRxiv 2022. https://doi.org/10.26434/chemrxiv-2022-wcjjj
2022Asbury, R. E.; Dipede, E.; Saville, B. A., Prebiotic Mannan-Oligosaccharides and Their Role in the Gut Microbiota. Curr. Dev. Nutr. 2022, 6, 1130. https://doi.org/10.1093/cdn/nzac072.002
2022Choudhary, R.; Mahadevan, R., Increasing evenness and stability in synthetic microbial consortia. bioRxiv 2022. https://doi.org/10.1101/2022.05.25.493411
2022Chen, X.; Molenda, O.; Brown, C. T.; Toth, C. R. A.; Guo, S.; Luo, F.; Howe, J. Y.; Nesbø, C. L.; He, C.; Montabana, E. A.; Cate, J. H. D.; Banfield, J. F.; Edwards, E. A., Candidatus Nealsonbacteria (OD1) are biomass recycling ectosymbionts of methanogenic archaea in a stable benzene-degrading enrichment culture. bioRxiv 2022. https://doi.org/10.1101/2022.04.20.488981
2022Fuzzen, M. L. M.; Harper, N. B. J.; Dhiyebi, H. A.; Srikanthan, N.; Hayat, S.; Peterson, S. W.; Yang, M. I.; Sun, J.; Edwards, E. A.; Giesy, J. P.; Mangat, C. S.; Graber, T. E.; Delatolla, R.; Servos, M. R., Multiplex RT-qPCR assay (N200) to detect and estimate prevalence of multiple SARS-CoV-2 Variants of Concern in wastewater. medRxiv 2022. https://doi.org/10.1101/2022.04.12.22273761
2022Raj, K.; Wong, W. T. Z.; Zhang, B.; Mahadevan, R., Design principles for bistable genetic switches emerge from a growth-dependent speed–robustness trade-off. bioRxiv 2022. https://doi.org/10.1101/2022.03.31.486579
2022Arts, E. J.; Brown, R. S.; Bulir, D. C.; Charles, T. C.; DeGroot, C. T.; Delatolla, R.; Desaulniers, J.-P.; Edwards, E. A.; Fuzzen, M. L. M.; Gilbride, K. A.; Gilchrist, J.; Goodridge, L. D.; Graber, T. E.; Habash, M. B.; Jüni, P.; Kirkwood, A. E.; Knockleby, J.; Kyle, C. J.; Landgraff, C.; Mangat, C. S.; Manuel, D. G.; McKay, R. M. L.; Mejia, E. M.; Mloszewska, A. M.; Örmeci, B.; Oswald, C. J.; Payne, S. J.; Peng, H.; Peterson, S. W.; Poon, A. F. Y.; Servos, M. R.; Simmons, D. B. D.; Sun, J.; Yang, M. I.; Ybazeta, G., Community Surveillance of Omicron in Ontario: Wastewater-based Epidemiology Comes of Age. Research Square 2022. https://doi.org/10.21203/rs.3.rs-1439969/v2
2022Chen, J.; Liu, Y.; Mahadevan, R., Genetic engineering of Acidithiobacillus ferridurans with CRISPR-Cas9/dCas9 systems. bioRxiv 2022. https://doi.org/10.1101/2022.03.14.484339
2022Morson, N.; Molenda, O.; Picott, K. J.; Richardson, R. E.; Edwards, E. A., Long-term survival of Dehalococcoides mccartyi strains in mixed cultures under electron acceptor and ammonium limitation. FEMS Microbes 2022, 3, xtac021. https://doi.org/10.1093/femsmc/xtac021

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