{"entity": "journal", "iuid": "50d1fb58ef0c4e1f955ec37495ea954e", "timestamp": "2026-07-13T08:53:12.770Z", "links": {"self": {"href": "https://publications.scilifelab.se/journal/J.%20Agric.%20Food%20Chem..json"}, "display": {"href": "https://publications.scilifelab.se/journal/J.%20Agric.%20Food%20Chem."}}, "title": "J. Agric. Food Chem.", "issn": "1520-5118", "issn-l": "0021-8561", "publications_count": 5, "publications": [{"entity": "publication", "iuid": "36d41f27cba2473e9498ad1733f0a1ad", "links": {"self": {"href": "https://publications.scilifelab.se/publication/36d41f27cba2473e9498ad1733f0a1ad.json"}, "display": {"href": "https://publications.scilifelab.se/publication/36d41f27cba2473e9498ad1733f0a1ad"}}, "title": "Metabolite Biomarkers Linking a High-Fiber Rye Intervention with Cardiometabolic Risk Factors: The RyeWeight Study.", "authors": [{"family": "Uni\u00f3n Caballero", "given": "Andrea", "initials": "A", "orcid": "0000-0001-5500-9019", "researcher": {"href": "https://publications.scilifelab.se/researcher/4ef06c4ba2cd471c97c402af62b34385.json"}}, {"family": "Mero\u00f1o", "given": "Tom\u00e1s", "initials": "T", "orcid": "0000-0002-2673-3494", "researcher": {"href": "https://publications.scilifelab.se/researcher/76a887d04cc84fe394befeee1c5e6cc1.json"}}, {"family": "\u00c5berg", "given": "Sebastian", "initials": "S"}, {"family": "Nordin", "given": "Elise", "initials": "E"}, {"family": "Dicksved", "given": "Johan", "initials": "J"}, {"family": "S\u00e1nchez-Pla", "given": "Alex", "initials": "A"}, {"family": "Cubedo", "given": "Marta", "initials": "M"}, {"family": "Carmona-Pontaque", "given": "Francisco", "initials": "F"}, {"family": "Iversen", "given": "Kia No\u0337hr", "initials": "KN"}, {"family": "Mart\u00ednez-Hu\u00e9lamo", "given": "Miriam", "initials": "M"}, {"family": "Guadall", "given": "Anna", "initials": "A"}, {"family": "Landberg", "given": "Rikard", "initials": "R"}, {"family": "Andr\u00e9s-Lacueva", "given": "Cristina", "initials": "C", "orcid": "0000-0002-8494-4978", "researcher": {"href": "https://publications.scilifelab.se/researcher/5374c25bdb4845ddaf5afc498ff68222.json"}}], "type": "journal article", "published": "2025-09-03", "journal": {"title": "J. Agric. Food Chem.", "issn": "1520-5118", "volume": "73", "issue": "35", "pages": "21869-21879", "issn-l": "0021-8561"}, "abstract": "Wholegrain rye, considered one of the cereals with the highest content of dietary fiber and bioactive compounds, has been linked with reduced risk of cardiometabolic diseases. Thus, biomarkers reflecting its intake and/or the metabolic effect after consumption are essential to better elucidate its health effects. Our aim was to identify plasma metabolite biomarkers associated with a high-fiber rye intervention and to assess the associations between these metabolites, gut microbiota composition, and cardiometabolic risk factors in a 12-week randomized controlled trial comparing a hypocaloric diet with high-fiber rye (n = 108) or refined wheat (n = 99) in participants with obesity. Rye intervention increased plasma concentrations of benzoxazinoids (DIBOA-S) and phenylacetamides (2-HPA-S and 2-HHPA-S), gut microbial metabolites (indolepropionic acid, 2-aminophenol, enterolactone sulfate, and enterolactone glucuronide), betainized compounds (pipecolic-betaine), phenolic acids (2,6-DHBA and gallic acid-4-sulfate), and diverse endogenous metabolites. Microbiota composition changes were increased Eubacterium xylanophilum and Agathobacter and decreased Ruminococcus torques and Romboutsia. Moreover, the intervention effect was mostly captured by changes in metabolites and gut microbiota compared to clinical variables. Gallic acid-4-sulfate and phenylacetamides were associated with reductions in weight, fat mass, BMI, or fasting insulin levels even after adjusting for plasma alkylresorcinols, used as markers for rye intake compliance. Altogether, these metabolites may constitute biomarkers of wholegrain rye cardiometabolic effects.", "doi": "10.1021/acs.jafc.5c01415", "pmid": "40838659", "labels": {"Chalmers Mass Spectrometry Infrastructure": "Collaborative"}, "xrefs": [{"db": "pmc", "key": "PMC12412176"}], "notes": [], "created": "2025-12-01T05:42:35.304Z", "modified": "2025-12-01T05:42:35.625Z"}, {"entity": "publication", "iuid": "6a882e6f1a1b4223856db18d105468ea", "links": {"self": {"href": "https://publications.scilifelab.se/publication/6a882e6f1a1b4223856db18d105468ea.json"}, "display": {"href": "https://publications.scilifelab.se/publication/6a882e6f1a1b4223856db18d105468ea"}}, "title": "Advanced Microbiome Therapeutics Accelerate MASLD Recovery by Restoring Intestinal Microbiota Equilibrium and the Gut-Liver Axis in a Mouse Model.", "authors": [{"family": "Lok", "given": "Johnson", "initials": "J"}, {"family": "Chen", "given": "Congjia", "initials": "C", "orcid": "0009-0004-6800-3184", "researcher": {"href": "https://publications.scilifelab.se/researcher/119fd6649b3246d58f27178b96506865.json"}}, {"family": "Iannone", "given": "Valeria", "initials": "V"}, {"family": "Babu", "given": "Ambrin Farizah", "initials": "AF"}, {"family": "Lo", "given": "Emily Kwun Kwan", "initials": "EKK"}, {"family": "Vazquez-Uribe", "given": "Ruben", "initials": "R"}, {"family": "Vaaben", "given": "Troels Holger", "initials": "TH"}, {"family": "Kettunen", "given": "Mikko", "initials": "M"}, {"family": "Savolainen", "given": "Otto", "initials": "O"}, {"family": "Schwab", "given": "Ursula", "initials": "U"}, {"family": "Sommer", "given": "Morten Otto Alexander", "initials": "MOA", "orcid": "0000-0003-4005-5674", "researcher": {"href": "https://publications.scilifelab.se/researcher/dae0481b087348b9867cedce834bf483.json"}}, {"family": "Hanhineva", "given": "Kati", "initials": "K"}, {"family": "Kolehmainen", "given": "Marjukka", "initials": "M"}, {"family": "El-Nezami", "given": "Hani", "initials": "H"}, {"family": "G\u00f3mez-Gallego", "given": "Carlos", "initials": "C", "orcid": "0000-0003-0219-1827", "researcher": {"href": "https://publications.scilifelab.se/researcher/d8036c43a3b74d8f91614e5406ec93ca.json"}}], "type": "journal article", "published": "2025-06-18", "journal": {"title": "J. Agric. Food Chem.", "issn": "1520-5118", "volume": "73", "issue": "24", "pages": "15199-15214", "issn-l": "0021-8561"}, "abstract": "Gut microbiota dysbiosis and endocrine dysregulation are key players in metabolic dysfunction-associated steatotic liver disease (MASLD) development. This study evaluated whether advanced microbiome therapeutics can restore intestinal microbial equilibrium and gut-liver axis balance during MASLD recovery. MASLD was induced in mice using a high-fat, high-sugar diet, and then shifted to a standard diet, where intervention groups received engineered Escherichia coli Nissle 1917 expressing IGF1 (EcNI) or aldafermin (EcNA), and control groups received E. coli Nissle 1917 vehicle (EcN) or no microbial intervention (CTRL). EcNI and EcNA improved MASLD recovery compared to controls by lowering hepatic fat, plasma cholesterol, and body weight, while increasing bacterial diversity, plasma acetate, and propionate, and modulating particular microbial groups, potentially alleviating dysbiosis. Additionally, EcNI and EcNA downregulated acetyl-CoA, the steroid hormone biosynthesis pathway, and EcNA upregulated the pentose phosphate pathway and pyruvate, which are related to oxidative stress reduction. These results suggest that EcNI and EcNA are potential novel treatments for MASLD.", "doi": "10.1021/acs.jafc.5c01674", "pmid": "40480642", "labels": {"Chalmers Mass Spectrometry Infrastructure": "Collaborative"}, "xrefs": [{"db": "pmc", "key": "PMC12186743"}], "notes": [], "created": "2025-11-27T11:24:02.659Z", "modified": "2025-11-27T11:24:03.021Z"}, {"entity": "publication", "iuid": "367c8639a9ee4c38bfd128395558e496", "links": {"self": {"href": "https://publications.scilifelab.se/publication/367c8639a9ee4c38bfd128395558e496.json"}, "display": {"href": "https://publications.scilifelab.se/publication/367c8639a9ee4c38bfd128395558e496"}}, "title": "Restricting Promiscuity of Plant Flavonoid 3'-Hydroxylase and 4'-O-Methyltransferase Improves the Biosynthesis of (2S)-Hesperetin in E. coli.", "authors": [{"family": "Liu", "given": "Juan", "initials": "J", "orcid": "0009-0004-4256-416X", "researcher": {"href": "https://publications.scilifelab.se/researcher/dd3952ebdce441b0bd36bce4a23fd33f.json"}}, {"family": "Xiao", "given": "Zhiqiang", "initials": "Z"}, {"family": "Zhang", "given": "Siqi", "initials": "S"}, {"family": "Wang", "given": "Zhen", "initials": "Z"}, {"family": "Chen", "given": "Yun", "initials": "Y", "orcid": "0000-0002-2146-6008", "researcher": {"href": "https://publications.scilifelab.se/researcher/c8a0c4c96b7e491496aa0991c7e9a460.json"}}, {"family": "Shan", "given": "Yang", "initials": "Y"}], "type": "journal article", "published": "2023-06-28", "journal": {"title": "J. Agric. Food Chem.", "issn": "1520-5118", "volume": "71", "issue": "25", "pages": "9826-9835", "issn-l": "0021-8561"}, "abstract": "Enzyme promiscuity is evolutionarily advantageous to plants for gaining new enzyme functions when adapting to environmental challenges. However, this promiscuity can negatively affect the expression of genes encoding for plant enzymes in microorganisms. Here, we show that refining the promiscuity of flavonoid 3'-hydroxylase (F3'H) and 4'-O-methyltransferase (F4'OMT) improves (2S)-hesperetin production in Escherichia coli. First, we employed inverse molecular docking to screen a highly substrate-specific ThF3'H from Tricyrtis hirta, which could selectively convert 100 mg L-1 (2S)-naringenin to (2S)-eriodictyol but not (2S)-isosakuranetin, with a cytochrome P450 reductase from Arabidopsis thaliana. Second, we employed a directed evolution approach to restrict the promiscuity of MpOMT from Mentha \u00d7 piperita. The strain harboring the MpOMTS142V mutant presented a remarkably increased preference for (2S)-eriodictyol. Finally, 27.5 mg L-1 (2S)-hesperetin was produced, while only minor amounts of (2S)-eriodictyol and (2S)-isosakuranetin accumulated as byproducts. This value represents a 14-fold increase in (2S)-hesperetin compared to the parental strain, along with a dramatic reduction in side products. Our work highlights the benefit of alleviating the promiscuity of plant enzymes when engineering production of natural products by microbial cell factories.", "doi": "10.1021/acs.jafc.3c02071", "pmid": "37310069", "labels": {"Chalmers Mass Spectrometry Infrastructure": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC10311525"}], "notes": [], "created": "2024-01-03T13:11:46.987Z", "modified": "2024-01-03T13:11:47.065Z"}, {"entity": "publication", "iuid": "7ebce2d706ed4fe2ae711dd646da1e72", "links": {"self": {"href": "https://publications.scilifelab.se/publication/7ebce2d706ed4fe2ae711dd646da1e72.json"}, "display": {"href": "https://publications.scilifelab.se/publication/7ebce2d706ed4fe2ae711dd646da1e72"}}, "title": "Detailed Characterization of the Cell Wall Structure and Composition of Nordic Green Microalgae.", "authors": [{"family": "Spain", "given": "Olivia", "initials": "O"}, {"family": "Funk", "given": "Christiane", "initials": "C", "orcid": "0000-0002-7897-4038", "researcher": {"href": "https://publications.scilifelab.se/researcher/5db6c5fa2a754060b1583caf37bba1b8.json"}}], "type": "journal article", "published": "2022-08-10", "journal": {"title": "J. Agric. Food Chem.", "issn": "1520-5118", "volume": "70", "issue": "31", "pages": "9711-9721", "issn-l": "0021-8561"}, "abstract": "Green microalgae are attractive to food, pharmaceutical, and biofuel industries due to the promising and diverse properties of their intracellular components. In current biotechnological applications, however, clear bottlenecks are the cell disruption and cell harvesting steps. Challenges in both of these processes are directly linked to the properties of the microalgal cell wall. The aim of this study was to explore the cell wall compositions and morphologies of four Nordic microalgal strains (Chlorella vulgaris (13-1), Scenedesmus sp. (B2-2), Haematococcus pluvialis, and Coelastrella sp. (3-4)) and their changes in relation to logarithmic and stationary growth phases. Transmission electron microscopy imaging enabled us to visualize the cell walls and to observe structural elements such as spines, microfibrillar hairs, or layers. Using cryogenic X-ray photoelectron spectroscopy, we quantified lipid, protein, and polysaccharide content of the outer surface of the microalgal cell wall in cultures. Fourier transform infrared spectroscopy highlighted changes between growth phases within the polysaccharide and protein fractions of the cell wall. Very prominent differences were observed in sugar and protein composition of the Scenedesmus sp. (B2-2) cell wall compared to the cell walls of the other three Nordic strains using trimethylsilyl derivatization.", "doi": "10.1021/acs.jafc.2c02783", "pmid": "35894177", "labels": {"Integrated Microscopy Technologies Ume\u00e5": "Service", "Cryo-EM": "Service", "Swedish Metabolomics Centre": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC9372998"}], "notes": [], "created": "2022-12-05T08:13:57.637Z", "modified": "2025-10-17T13:03:14.774Z"}, {"entity": "publication", "iuid": "397ba1ff858d40eea8ca43ffdd6c1e3a", "links": {"self": {"href": "https://publications.scilifelab.se/publication/397ba1ff858d40eea8ca43ffdd6c1e3a.json"}, "display": {"href": "https://publications.scilifelab.se/publication/397ba1ff858d40eea8ca43ffdd6c1e3a"}}, "title": "Untargeted 1H NMR-Based Metabolomics Analysis of Urine and Serum Profiles after Consumption of Lentils, Chickpeas, and Beans: An Extended Meal Study To Discover Dietary Biomarkers of Pulses.", "authors": [{"family": "Madrid-Gambin", "given": "Francisco", "initials": "F", "orcid": "0000-0001-9333-0014", "researcher": {"href": "https://publications.scilifelab.se/researcher/256cc3fae55349d6a706bd4149ca94bf.json"}}, {"family": "Brunius", "given": "Carl", "initials": "C"}, {"family": "Garcia-Aloy", "given": "Mar", "initials": "M", "orcid": "0000-0002-1330-6610", "researcher": {"href": "https://publications.scilifelab.se/researcher/58ca12c32dc34d40a3e1d2c78ae135f3.json"}}, {"family": "Estruel-Amades", "given": "Sheila", "initials": "S"}, {"family": "Landberg", "given": "Rikard", "initials": "R"}, {"family": "Andres-Lacueva", "given": "Cristina", "initials": "C", "orcid": "0000-0002-8494-4978", "researcher": {"href": "https://publications.scilifelab.se/researcher/5374c25bdb4845ddaf5afc498ff68222.json"}}], "type": "journal article", "published": "2018-07-11", "journal": {"title": "J. Agric. Food Chem.", "issn": "1520-5118", "volume": "66", "issue": "27", "pages": "6997-7005", "issn-l": "0021-8561"}, "abstract": "High legume intake has been shown to have beneficial effects on the health of humans. The use of nutritional biomarkers, as a complement to self-reported questionnaires, could assist in evaluating dietary intake and downstream effects on human health. The aim of this study was to investigate potential biomarkers of the consumption of pulses (i.e., white beans, chickpeas, and lentils) by using untargeted NMR-based metabolomics. Meals rich in pulses were consumed by a total of 11 participants in a randomized crossover study and multilevel partial least-squares regression was employed for paired comparisons. Metabolomics analysis indicated that trigonelline, 3-methylhistidine, dimethylglycine, trimethylamine, and lysine were potential, though not highly specific, biomarkers of pulse intake. Furthermore, monitoring of these metabolites for a period of 48 h after intake revealed a range of different excretion patterns among pulses. Following the consumption of pulses, a metabolomic profiling revealed that the concentration ratios of trigonelline, choline, lysine, and histidine were similar to those found in urine. In conclusion, this study identified potential urinary biomarkers of exposure to dietary pulses and provided valuable information about the time-response effect of these putative biomarkers.", "doi": "10.1021/acs.jafc.8b00047", "pmid": "29920085", "labels": {"Swedish NMR Centre": "Service"}, "xrefs": [], "notes": [], "created": "2023-05-31T16:34:23.987Z", "modified": "2025-10-17T13:03:58.626Z"}], "created": "2018-10-31T13:02:44.955Z", "modified": "2020-11-27T13:14:04.285Z"}