{"entity": "researcher", "timestamp": "2026-06-15T17:25:57.333Z", "family": "Brunoni", "given": "Federica", "initials": "F", "orcid": "0000-0003-1497-9419", "affiliations": ["1Ume\u00e5 Plant Science Centre, Department of Plant Physiology, Ume\u00e5 University (Umu), Ume\u00e5, Sweden.", "2Ume\u00e5 Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences (SLU), Ume\u00e5, Sweden.", "4Present Address: Laboratory of Growth Regulators, Faculty of Science, Palack\u00fd University & Institute of Experimental Botany, The Czech Academy of Sciences, \u0160lechtitel\u016f 27, 78371 Olomouc, Czech Republic."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/8a28132c7a0e407da31e4d79698679c6.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/8a28132c7a0e407da31e4d79698679c6"}}, "publications": [{"entity": "publication", "iuid": "067b61d871b748229c2cf96c89adeaa7", "links": {"self": {"href": "https://publications.scilifelab.se/publication/067b61d871b748229c2cf96c89adeaa7.json"}, "display": {"href": "https://publications.scilifelab.se/publication/067b61d871b748229c2cf96c89adeaa7"}}, "title": "A suitable strategy to find IAA metabolism mutants.", "authors": [{"family": "Casanova-S\u00e1ez", "given": "Rub\u00e9n", "initials": "R", "orcid": "0000-0001-5683-7051", "researcher": {"href": "https://publications.scilifelab.se/researcher/17868bb801534bd794ef1f5d2815a531.json"}}, {"family": "P\u011bn\u010d\u00edk", "given": "Ale\u0161", "initials": "A", "orcid": "0000-0002-1314-2249", "researcher": {"href": "https://publications.scilifelab.se/researcher/b13dbbec35c441daa7ed84daa05cd6e7.json"}}, {"family": "Mu\u00f1oz-Viana", "given": "Rafael", "initials": "R", "orcid": "0000-0002-1363-6978", "researcher": {"href": "https://publications.scilifelab.se/researcher/1bd9a92a13fd4395aeae214b4930e55a.json"}}, {"family": "Brunoni", "given": "Federica", "initials": "F", "orcid": "0000-0003-1497-9419", "researcher": {"href": "https://publications.scilifelab.se/researcher/8a28132c7a0e407da31e4d79698679c6.json"}}, {"family": "Pinto", "given": "Rui", "initials": "R", "orcid": "0000-0002-8527-4873", "researcher": {"href": "https://publications.scilifelab.se/researcher/58f5bd6ddde8458d927e78ef13efb67b.json"}}, {"family": "Nov\u00e1k", "given": "Ond\u0159ej", "initials": "O", "orcid": "0000-0003-3452-0154", "researcher": {"href": "https://publications.scilifelab.se/researcher/8c19165acb9a4ff79dd96af7fccdc5f8.json"}}, {"family": "Ljung", "given": "Karin", "initials": "K", "orcid": "0000-0003-2901-189X", "researcher": {"href": "https://publications.scilifelab.se/researcher/f91b1e1f90c24559b915ebcd265804a4.json"}}, {"family": "Mateo-Bonmat\u00ed", "given": "Eduardo", "initials": "E", "orcid": "0000-0002-2364-5173", "researcher": {"href": "https://publications.scilifelab.se/researcher/f1e96edf1a914d2f8ea8eb46c3ebacc4.json"}}], "type": "journal article", "published": "2025-03-21", "journal": {"title": "Physiol Plantarum", "issn": "1399-3054", "volume": "177", "issue": "2", "pages": "e70166", "issn-l": "0031-9317"}, "abstract": "Indole-3-acetic acid (IAA), the most common form of auxin, is involved in a great range of plant physiological processes. IAA is synthesized from the amino acid tryptophan and can be transported and inactivated in a myriad of ways. Despite intense research efforts, there are still dark corners in our comprehension of IAA metabolism and its interplays with other pathways. Genetic screens are a powerful tool for unbiasedly looking for new players in a given biological process. However, pleiotropism of auxin-related phenotypes and indirect effects make it necessary to incorporate additional screening steps to specifically find mutants affected in IAA homeostasis. We previously developed and validated a high-throughput methodology to simultaneously quantify IAA, key precursors, and inactive forms from as little as 10 mg of fresh tissue. We have carried out a genetic screening to identify mutants involved in IAA metabolism. Auxin reporters DR5pro:VENUS and 35Spro:DII-VENUS were EMS-mutagenized and subjected to a parallel morphological and reporter-signal pre-screen. We then obtained the auxin metabolite profile of 325 M3 selected lines and used multivariate data analysis to identify potential IAA-metabolism mutants. To test the screening design, we identified the causal mutations in three of the candidate lines by mapping-by-sequencing: dii365.3, dii571.1 and dr693. These carry new alleles of CYP83A1, MIAO, and SUPERROOT2, respectively, all of which have been previously involved in auxin homeostasis. Our results support the suitability of this approach to find new genes involved in IAA metabolism.", "doi": "10.1111/ppl.70166", "pmid": "40113441", "labels": {"Swedish Metabolomics Centre": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC11925725"}], "notes": [], "created": "2025-11-18T12:07:26.876Z", "modified": "2025-11-18T12:07:27.054Z"}, {"entity": "publication", "iuid": "ce734f9ae7b5490b8f6022b18a7a3fc0", "links": {"self": {"href": "https://publications.scilifelab.se/publication/ce734f9ae7b5490b8f6022b18a7a3fc0.json"}, "display": {"href": "https://publications.scilifelab.se/publication/ce734f9ae7b5490b8f6022b18a7a3fc0"}}, "title": "In situ seasonal patterns of root auxin concentrations and meristem length in an arctic sedge.", "authors": [{"family": "Blume-Werry", "given": "Gesche", "initials": "G", "orcid": "0000-0003-0909-670X", "researcher": {"href": "https://publications.scilifelab.se/researcher/834dc85a0d9f4ab59572deab63e643a3.json"}}, {"family": "Semenchuk", "given": "Philipp", "initials": "P", "orcid": "0000-0002-1949-6427", "researcher": {"href": "https://publications.scilifelab.se/researcher/663ebd034e3f481fa7a569a83dd21e34.json"}}, {"family": "Ljung", "given": "Karin", "initials": "K", "orcid": "0000-0003-2901-189X", "researcher": {"href": "https://publications.scilifelab.se/researcher/f91b1e1f90c24559b915ebcd265804a4.json"}}, {"family": "Milbau", "given": "Ann", "initials": "A", "orcid": "0000-0003-3555-8883", "researcher": {"href": "https://publications.scilifelab.se/researcher/9389bf5441d54064bfaee999117d752c.json"}}, {"family": "Novak", "given": "Ondrej", "initials": "O", "orcid": "0000-0003-3452-0154", "researcher": {"href": "https://publications.scilifelab.se/researcher/8c19165acb9a4ff79dd96af7fccdc5f8.json"}}, {"family": "Olofsson", "given": "Johan", "initials": "J", "orcid": "0000-0002-6943-1218", "researcher": {"href": "https://publications.scilifelab.se/researcher/5e9ecce51d244e0ab066f315aae8548d.json"}}, {"family": "Brunoni", "given": "Federica", "initials": "F", "orcid": "0000-0003-1497-9419", "researcher": {"href": "https://publications.scilifelab.se/researcher/8a28132c7a0e407da31e4d79698679c6.json"}}], "type": "journal article", "published": "2024-05-00", "journal": {"title": "New Phytol.", "issn": "1469-8137", "volume": "242", "issue": "3", "pages": "988-999", "issn-l": "0028-646X"}, "abstract": "Seasonal dynamics of root growth play an important role in large-scale ecosystem processes; they are largely governed by growth regulatory compounds and influenced by environmental conditions. Yet, our knowledge about physiological drivers of root growth is mostly limited to laboratory-based studies on model plant species. We sampled root tips of Eriophorum vaginatum and analyzed their auxin concentrations and meristem lengths biweekly over a growing season in situ in a subarctic peatland, both in surface soil and at the permafrost thawfront. Auxin concentrations were almost five times higher in surface than in thawfront soils and increased over the season, especially at the thawfront. Surprisingly, meristem length showed an opposite pattern and was almost double in thawfront compared with surface soils. Meristem length increased from peak to late season in the surface soils but decreased at the thawfront. Our study of in situ seasonal dynamics in root physiological parameters illustrates the potential for physiological methods to be applied in ecological studies and emphasizes the importance of in situ measurements. The strong effect of root location and the unexpected opposite patterns of meristem length and auxin concentrations likely show that auxin actively governs root growth to ensure a high potential for nutrient uptake at the thawfront.", "doi": "10.1111/nph.19616", "pmid": "38375943", "labels": {"Swedish Metabolomics Centre": "Service"}, "xrefs": [], "notes": [], "created": "2024-11-26T10:28:02.968Z", "modified": "2025-10-17T13:03:13.205Z"}, {"entity": "publication", "iuid": "74c38ce26afa4ab181be8918dda27738", "links": {"self": {"href": "https://publications.scilifelab.se/publication/74c38ce26afa4ab181be8918dda27738.json"}, "display": {"href": "https://publications.scilifelab.se/publication/74c38ce26afa4ab181be8918dda27738"}}, "title": "A bacterial assay for rapid screening of IAA catabolic enzymes.", "authors": [{"family": "Brunoni", "given": "Federica", "initials": "F", "orcid": "0000-0003-1497-9419", "researcher": {"href": "https://publications.scilifelab.se/researcher/8a28132c7a0e407da31e4d79698679c6.json"}}, {"family": "Collani", "given": "Silvio", "initials": "S", "orcid": "0000-0002-9603-0882", "researcher": {"href": "https://publications.scilifelab.se/researcher/0896530185b54e16824cd26658ccdfc8.json"}}, {"family": "\u0160imura", "given": "Jan", "initials": "J", "orcid": "0000-0002-1567-2278", "researcher": {"href": "https://publications.scilifelab.se/researcher/ac1674ad68434ab19f17056e7824c932.json"}}, {"family": "Schmid", "given": "Markus", "initials": "M", "orcid": "0000-0002-0068-2967", "researcher": {"href": "https://publications.scilifelab.se/researcher/8705d242aa8f4f92b930c2cdc23254f0.json"}}, {"family": "Bellini", "given": "Catherine", "initials": "C", "orcid": "0000-0003-2985-6649", "researcher": {"href": "https://publications.scilifelab.se/researcher/644f290e267f43fa9c5e76b2f159a62d.json"}}, {"family": "Ljung", "given": "Karin", "initials": "K", "orcid": "0000-0003-2901-189X", "researcher": {"href": "https://publications.scilifelab.se/researcher/f91b1e1f90c24559b915ebcd265804a4.json"}}], "type": "journal article", "published": "2019-11-04", "journal": {"title": "Plant Methods", "issn": "1746-4811", "volume": "15", "issue": "1", "pages": "126", "issn-l": "1746-4811"}, "abstract": "Plants rely on concentration gradients of the native auxin, indole-3-acetic acid (IAA), to modulate plant growth and development. Both metabolic and transport processes participate in the dynamic regulation of IAA homeostasis. Free IAA levels can be reduced by inactivation mechanisms, such as conjugation and degradation. IAA can be conjugated via ester linkage to glucose, or via amide linkage to amino acids, and degraded via oxidation. Members of the UDP glucosyl transferase (UGT) family catalyze the conversion of IAA to indole-3-acetyl-1-glucosyl ester (IAGlc); by contrast, IAA is irreversibly converted to indole-3-acetyl-l-aspartic acid (IAAsp) and indole-3-acetyl glutamic acid (IAGlu) by Group II of the GRETCHEN HAGEN3 (GH3) family of acyl amido synthetases. Dioxygenase for auxin oxidation (DAO) irreversibly oxidizes IAA to oxindole-3-acetic acid (oxIAA) and, in turn, oxIAA can be further glucosylated to oxindole-3-acetyl-1-glucosyl ester (oxIAGlc) by UGTs. These metabolic pathways have been identified based on mutant analyses, in vitro activity measurements, and in planta feeding assays. In vitro assays for studying protein activity are based on producing Arabidopsis enzymes in a recombinant form in bacteria or yeast followed by recombinant protein purification. However, the need to extract and purify the recombinant proteins represents a major obstacle when performing in vitro assays.\n\nIn this work we report a rapid, reproducible and cheap method to screen the enzymatic activity of recombinant proteins that are known to inactivate IAA. The enzymatic reactions are carried out directly in bacteria that produce the recombinant protein. The enzymatic products can be measured by direct injection of a small supernatant fraction from the bacterial culture on ultrahigh-performance liquid chromatography coupled to electrospray ionization tandem spectrometry (UHPLC-ESI-MS/MS). Experimental procedures were optimized for testing the activity of different classes of IAA-modifying enzymes without the need to purify recombinant protein.\n\nThis new method represents an alternative to existing in vitro assays. It can be applied to the analysis of IAA metabolites that are produced upon supplementation of substrate to engineered bacterial cultures and can be used for a rapid screening of orthologous candidate genes from non-model species.", "doi": "10.1186/s13007-019-0509-6", "pmid": "31700527", "labels": {"Swedish Metabolomics Centre": "Service"}, "xrefs": [{"db": "pii", "key": "509"}, {"db": "pmc", "key": "PMC6827244"}], "notes": [], "created": "2020-01-07T15:51:28.889Z", "modified": "2025-10-17T13:03:17.248Z"}]}