{"entity": "journal", "iuid": "a4ec6816cda84442859ffe0af0c94fd9", "timestamp": "2026-04-20T22:11:52.734Z", "links": {"self": {"href": "https://publications.scilifelab.se/journal/Plant%20Biotechnol.%20J..json"}, "display": {"href": "https://publications.scilifelab.se/journal/Plant%20Biotechnol.%20J."}}, "title": "Plant Biotechnol. J.", "issn": "1467-7652", "issn-l": "1467-7644", "publications_count": 4, "publications": [{"entity": "publication", "iuid": "a67c5743740447bcbba2abfcda523262", "links": {"self": {"href": "https://publications.scilifelab.se/publication/a67c5743740447bcbba2abfcda523262.json"}, "display": {"href": "https://publications.scilifelab.se/publication/a67c5743740447bcbba2abfcda523262"}}, "title": "Glycoalkaloid-Free Starch Potatoes Generated by CRISPR/Cas9-Mediated Mutations of Genes in the Glycoalkaloid Biosynthesis Pathway Enable More Sustainable Uses of By-Products From Starch Production.", "authors": [{"family": "Liu", "given": "Ying", "initials": "Y", "orcid": "0000-0001-8826-9562", "researcher": {"href": "https://publications.scilifelab.se/researcher/e6294480fc9c49c494776dab3f9cd0ef.json"}}, {"family": "Merino", "given": "Irene", "initials": "I", "orcid": "0000-0002-9418-7157", "researcher": {"href": "https://publications.scilifelab.se/researcher/1cba6cd99cb542c1bb36db80b8113eed.json"}}, {"family": "Gutensohn", "given": "Mareike", "initials": "M", "orcid": "0009-0002-4706-547X", "researcher": {"href": "https://publications.scilifelab.se/researcher/d710e21fabb4462591baa1bb0a49db51.json"}}, {"family": "Johansson", "given": "Annika I", "initials": "AI", "orcid": "0000-0001-5000-1288", "researcher": {"href": "https://publications.scilifelab.se/researcher/0b0835b94db946929c1cb0c8f9319068.json"}}, {"family": "Johansson", "given": "Kalle", "initials": "K", "orcid": "0009-0002-3465-6852", "researcher": {"href": "https://publications.scilifelab.se/researcher/23927b98997748ec8f17599baf7dea3f.json"}}, {"family": "Andersson", "given": "Mariette", "initials": "M", "orcid": "0000-0002-9769-5288", "researcher": {"href": "https://publications.scilifelab.se/researcher/ed10b2742ea94f43ba535ce6b424255f.json"}}, {"family": "Hofvander", "given": "Per", "initials": "P", "orcid": "0000-0003-1048-2608", "researcher": {"href": "https://publications.scilifelab.se/researcher/80db51f10c8f4179aba3c621098b65b7.json"}}, {"family": "Sitbon", "given": "Folke", "initials": "F", "orcid": "0000-0002-6852-069X", "researcher": {"href": "https://publications.scilifelab.se/researcher/15ceb60e3b0f4d97b1a167db8c090f99.json"}}], "type": "journal article", "published": "2025-10-18", "journal": {"title": "Plant Biotechnol. J.", "issn": "1467-7652", "issn-l": "1467-7644"}, "abstract": "Steroidal glycoalkaloids (SGAs) are toxic cholesterol-derived secondary metabolites present in several Solanaceae species. In potato, tuber SGA levels are for reasons of toxicity of concern in both table and starch cultivars. In the latter, SGAs bind to proteins and fibres in starch production side-streams and prevent their further uses as food and feed. To enable more sustainable uses of starch by-products, we have here reduced SGA biosynthesis in a starch potato cultivar using DNA-free CRISPR/Cas9. Six SGA genes were targeted, encoding enzymes acting either before cholesterol (SMO1-L, DWF1-L, DWF7-L), or after (16DOX, CYP88B1, TAMiso2). Editing efficiencies varied between 20% and 49%, and generated mutants were investigated under greenhouse and field conditions. Target mass-spectrometric analyses confirmed reduced SGA levels and alterations of sterol metabolism in mutated events. Plant height and tuber yield were reduced in several events, although this was not correlated to low SGA levels. Several knockout mutants had almost SGA-free leaves and tubers, the latter also under two SGA-inducing conditions. Similarly, both fibre and protein fractions isolated from side-streams in the starch production process from mutant tubers had very low SGA levels. By contrast, the corresponding wild-type SGA levels were almost 10-fold and, respectively, 40-fold higher than the recommended upper safe limit. The results demonstrate that glycoalkaloid-free mutants can be generated and grown with moderate yield reductions under both greenhouse and field conditions. This suggests a potential for sustainable production of high-value products, e.g., food-grade protein and fibre, from starch production side-streams of SGA knockout tubers.", "doi": "10.1111/pbi.70412", "pmid": "41108596", "labels": {"Swedish Metabolomics Centre": "Collaborative"}, "xrefs": [], "notes": [], "created": "2025-11-18T12:03:34.024Z", "modified": "2025-11-18T12:03:34.488Z"}, {"entity": "publication", "iuid": "ce4033f0d9fc495bb5eaed500136d045", "links": {"self": {"href": "https://publications.scilifelab.se/publication/ce4033f0d9fc495bb5eaed500136d045.json"}, "display": {"href": "https://publications.scilifelab.se/publication/ce4033f0d9fc495bb5eaed500136d045"}}, "title": "Glucuronoyl Esterase Expressed in Aspen Xylem Affects \u03b3-Ester Linkages Between Lignin and Glucuronoxylan Reducing Recalcitrance and Accelerating Growth.", "authors": [{"family": "Derba-Maceluch", "given": "Marta", "initials": "M", "orcid": "0000-0002-8034-3630", "researcher": {"href": "https://publications.scilifelab.se/researcher/a5be452cef9048e19a08fa8043b74329.json"}}, {"family": "Garc\u00eda Roma\u00f1ach", "given": "Laura", "initials": "L", "orcid": "0000-0003-1188-5193", "researcher": {"href": "https://publications.scilifelab.se/researcher/b0a86fa91e6745e0ac048cf33e1ecda5.json"}}, {"family": "Hedenstr\u00f6m", "given": "Mattias", "initials": "M", "orcid": "0000-0002-0903-6662", "researcher": {"href": "https://publications.scilifelab.se/researcher/2db0f81a369741b0847c6f79746d82aa.json"}}, {"family": "Mitra", "given": "Madhusree", "initials": "M", "orcid": "0000-0002-8653-8770", "researcher": {"href": "https://publications.scilifelab.se/researcher/8c1827f45c7f4853888f15d857b7e414.json"}}, {"family": "Donev", "given": "Evgeniy N", "initials": "EN", "orcid": "0000-0002-7279-0481", "researcher": {"href": "https://publications.scilifelab.se/researcher/26467c84e2664b4980a4ed04335860ad.json"}}, {"family": "Urbancsok", "given": "J\u00e1nos", "initials": "J", "orcid": "0000-0003-3237-6806", "researcher": {"href": "https://publications.scilifelab.se/researcher/ab6f0e25417543f49060959d3af92967.json"}}, {"family": "Yassin", "given": "Zakiya", "initials": "Z", "orcid": "0000-0001-6878-3361", "researcher": {"href": "https://publications.scilifelab.se/researcher/53cd7ddc17274c0c9eabb07ae4e6c8e0.json"}}, {"family": "Gandla", "given": "Madhavi L", "initials": "ML", "orcid": "0000-0003-2798-6298", "researcher": {"href": "https://publications.scilifelab.se/researcher/a1e32323239243999cbb5f1dcc06279a.json"}}, {"family": "Sivan", "given": "Pramod", "initials": "P", "orcid": "0000-0001-5297-2221", "researcher": {"href": "https://publications.scilifelab.se/researcher/3bed5958298d4ca08df06860c94a3878.json"}}, {"family": "\u0160imura", "given": "Jan", "initials": "J", "orcid": "0000-0002-1567-2278", "researcher": {"href": "https://publications.scilifelab.se/researcher/ac1674ad68434ab19f17056e7824c932.json"}}, {"family": "Scheepers", "given": "Gerhard", "initials": "G", "orcid": "0000-0002-5630-1377", "researcher": {"href": "https://publications.scilifelab.se/researcher/60a566216ee146d1bba50d7f8779a6f8.json"}}, {"family": "J\u00f6nsson", "given": "Leif J", "initials": "LJ", "orcid": "0000-0003-3866-0111", "researcher": {"href": "https://publications.scilifelab.se/researcher/1769e674df8649ce82a0d058f0a309dc.json"}}, {"family": "Vilaplana", "given": "Francisco", "initials": "F", "orcid": "0000-0003-3572-7798", "researcher": {"href": "https://publications.scilifelab.se/researcher/2ee4f3eaece8487fb5cb34ce6cfbbcbf.json"}}, {"family": "Mellerowicz", "given": "Ewa J", "initials": "EJ", "orcid": "0000-0001-6817-1031", "researcher": {"href": "https://publications.scilifelab.se/researcher/a9bf45f4790e4360b19ec021469cfad2.json"}}], "type": "journal article", "published": "2025-08-17", "journal": {"title": "Plant Biotechnol. J.", "issn": "1467-7652", "issn-l": "1467-7644"}, "abstract": "Wood is the most abundant renewable natural resource composed of different polysaccharides and lignin, but its utilisation is hampered by intermolecular linkages between these components forming lignin-carbohydrate complexes (LCCs) causing recalcitrance. The links between glucuronoxylan and the \u03b3-C of lignin (\u03b3-ester linkages) are thought to contribute to one-third of LCCs, but direct evidence for their natural occurrence and their role in recalcitrance has been scarce so far. To address these issues, Phanerochaete carnosa glucuronoyl esterase (PcGCE), hydrolysing \u03b3-ester linkages, was expressed in cell walls of developing wood in hybrid aspen (Populus tremula L. \u00d7 tremuloides Michx.). The enzyme reduced HSQC 2D NMR signals corresponding to the \u03b3-esters and xylan in dioxane-extracted LCCs without altering glucuronoxylan content or structure. This increased acid solubility of lignin and lignin content. Reduced wood recalcitrance was shown by increased sugar yields and glucose production rates (by approx. 20%) in saccharification without pretreatment and increased xylan extractability by subcritical water (by approx. 70%). Moreover, trees expressing PcGCE exhibited greater primary and secondary growth. Transcriptomics and metabolomics analyses in developing wood suggested that growth could have been induced by a higher transcription of SMR2 and RPOTmp, which was likely triggered by the secondary cell wall integrity signalling. The results provide evidence for the natural existence of LCC \u03b3-esters and their significant contribution to lignocellulose recalcitrance. Furthermore, they show that reducing \u03b3-ester linkages could increase plant productivity.", "doi": "10.1111/pbi.70301", "pmid": "40819283", "labels": {"Swedish NMR Centre": "Collaborative", "Swedish Metabolomics Centre": "Service"}, "xrefs": [], "notes": [], "created": "2025-09-10T14:26:46.012Z", "modified": "2025-11-18T12:07:29.246Z"}, {"entity": "publication", "iuid": "4e7a9e7c4d2c4b9f97fe7db41cc35680", "links": {"self": {"href": "https://publications.scilifelab.se/publication/4e7a9e7c4d2c4b9f97fe7db41cc35680.json"}, "display": {"href": "https://publications.scilifelab.se/publication/4e7a9e7c4d2c4b9f97fe7db41cc35680"}}, "title": "Modification of xylan in secondary walls alters cell wall biosynthesis and wood formation programs and improves saccharification.", "authors": [{"family": "Sivan", "given": "Pramod", "initials": "P", "orcid": "0000-0001-5297-2221", "researcher": {"href": "https://publications.scilifelab.se/researcher/3bed5958298d4ca08df06860c94a3878.json"}}, {"family": "Urbancsok", "given": "J\u00e1nos", "initials": "J", "orcid": "0000-0003-3237-6806", "researcher": {"href": "https://publications.scilifelab.se/researcher/ab6f0e25417543f49060959d3af92967.json"}}, {"family": "Donev", "given": "Evgeniy N", "initials": "EN", "orcid": "0000-0002-7279-0481", "researcher": {"href": "https://publications.scilifelab.se/researcher/26467c84e2664b4980a4ed04335860ad.json"}}, {"family": "Derba-Maceluch", "given": "Marta", "initials": "M", "orcid": "0000-0002-8034-3630", "researcher": {"href": "https://publications.scilifelab.se/researcher/a5be452cef9048e19a08fa8043b74329.json"}}, {"family": "Barbut", "given": "F\u00e9lix R", "initials": "FR", "orcid": "0000-0001-5395-6776", "researcher": {"href": "https://publications.scilifelab.se/researcher/8df5c17bbf0440fd8be22761c2df9a6f.json"}}, {"family": "Yassin", "given": "Zakiya", "initials": "Z", "orcid": "0000-0001-6878-3361", "researcher": {"href": "https://publications.scilifelab.se/researcher/53cd7ddc17274c0c9eabb07ae4e6c8e0.json"}}, {"family": "Gandla", "given": "Madhavi L", "initials": "ML", "orcid": "0000-0003-2798-6298", "researcher": {"href": "https://publications.scilifelab.se/researcher/a1e32323239243999cbb5f1dcc06279a.json"}}, {"family": "Mitra", "given": "Madhusree", "initials": "M", "orcid": "0000-0002-8653-8770", "researcher": {"href": "https://publications.scilifelab.se/researcher/8c1827f45c7f4853888f15d857b7e414.json"}}, {"family": "Heinonen", "given": "Saara E", "initials": "SE", "orcid": "0000-0002-5069-2370", "researcher": {"href": "https://publications.scilifelab.se/researcher/3756b55888f745e6b7af3783e80b6037.json"}}, {"family": "\u0160imura", "given": "Jan", "initials": "J", "orcid": "0000-0002-1567-2278", "researcher": {"href": "https://publications.scilifelab.se/researcher/ac1674ad68434ab19f17056e7824c932.json"}}, {"family": "Cermanov\u00e1", "given": "Kate\u0159ina", "initials": "K", "orcid": "0009-0006-5809-0733", "researcher": {"href": "https://publications.scilifelab.se/researcher/16ca192806d6450fb69225e175eef629.json"}}, {"family": "Karady", "given": "Michal", "initials": "M", "orcid": "0000-0002-5603-706X", "researcher": {"href": "https://publications.scilifelab.se/researcher/114911ccd31849e1a7584b5a52e9eb14.json"}}, {"family": "Scheepers", "given": "Gerhard", "initials": "G", "orcid": "0000-0002-5630-1377", "researcher": {"href": "https://publications.scilifelab.se/researcher/60a566216ee146d1bba50d7f8779a6f8.json"}}, {"family": "J\u00f6nsson", "given": "Leif J", "initials": "LJ", "orcid": "0000-0003-3866-0111", "researcher": {"href": "https://publications.scilifelab.se/researcher/1769e674df8649ce82a0d058f0a309dc.json"}}, {"family": "Master", "given": "Emma R", "initials": "ER", "orcid": "0000-0002-6837-9817", "researcher": {"href": "https://publications.scilifelab.se/researcher/d8b15165d3c44d74a533948db1aa2d9a.json"}}, {"family": "Vilaplana", "given": "Francisco", "initials": "F", "orcid": "0000-0003-3572-7798", "researcher": {"href": "https://publications.scilifelab.se/researcher/2ee4f3eaece8487fb5cb34ce6cfbbcbf.json"}}, {"family": "Mellerowicz", "given": "Ewa J", "initials": "EJ", "orcid": "0000-0001-6817-1031", "researcher": {"href": "https://publications.scilifelab.se/researcher/a9bf45f4790e4360b19ec021469cfad2.json"}}], "type": "journal article", "published": "2025-01-00", "journal": {"title": "Plant Biotechnol. J.", "issn": "1467-7652", "volume": "23", "issue": "1", "pages": "174-197", "issn-l": "1467-7644"}, "abstract": "Wood of broad-leaf tree species is a valued source of renewable biomass for biorefinery and a target for genetic improvement efforts to reduce its recalcitrance. Glucuronoxylan (GX) plays a key role in recalcitrance through its interactions with cellulose and lignin. To reduce recalcitrance, we modified wood GX by expressing GH10 and GH11 endoxylanases from Aspergillus nidulans in hybrid aspen (Populus tremula L. \u00d7 tremuloides Michx.) and targeting the enzymes to cell wall. The xylanases reduced tree height, modified cambial activity by increasing phloem and reducing xylem production, and reduced secondary wall deposition. Xylan molecular weight was decreased, and the spacing between acetyl and MeGlcA side chains was reduced in transgenic lines. The transgenic trees produced hypolignified xylem having thin secondary walls and deformed vessels. Glucose yields of enzymatic saccharification without pretreatment almost doubled indicating decreased recalcitrance. The transcriptomics, hormonomics and metabolomics data provided evidence for activation of cytokinin and ethylene signalling pathways, decrease in ABA levels, transcriptional suppression of lignification and a subset of secondary wall biosynthetic program, including xylan glucuronidation and acetylation machinery. Several candidate genes for perception of impairment in xylan integrity were detected. These candidates could provide a new target for uncoupling negative growth effects from reduced recalcitrance. In conclusion, our study supports the hypothesis that xylan modification generates intrinsic signals and evokes novel pathways regulating tree growth and secondary wall biosynthesis.", "doi": "10.1111/pbi.14487", "pmid": "39436777", "labels": {"Cryo-EM": "Service", "Swedish Metabolomics Centre": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC11672743"}], "notes": [], "created": "2024-11-26T10:43:47.363Z", "modified": "2025-11-18T12:14:05.231Z"}, {"entity": "publication", "iuid": "c63ea0fe49dd453798aca844add7e849", "links": {"self": {"href": "https://publications.scilifelab.se/publication/c63ea0fe49dd453798aca844add7e849.json"}, "display": {"href": "https://publications.scilifelab.se/publication/c63ea0fe49dd453798aca844add7e849"}}, "title": "The in silico identification and characterization of a bread wheat/Triticum militinae introgression line.", "authors": [{"family": "Abrouk", "given": "Michael", "initials": "M"}, {"family": "Balc\u00e1rkov\u00e1", "given": "Barbora", "initials": "B"}, {"family": "\u0160imkov\u00e1", "given": "Hana", "initials": "H"}, {"family": "Kom\u00ednkova", "given": "Eva", "initials": "E"}, {"family": "Martis", "given": "Mihaela M", "initials": "MM"}, {"family": "Jakobson", "given": "Irena", "initials": "I"}, {"family": "Timofejeva", "given": "Ljudmilla", "initials": "L"}, {"family": "Rey", "given": "Elodie", "initials": "E"}, {"family": "Vr\u00e1na", "given": "Jan", "initials": "J"}, {"family": "Kilian", "given": "Andrzej", "initials": "A"}, {"family": "J\u00e4rve", "given": "Kadri", "initials": "K"}, {"family": "Dole\u017eel", "given": "Jaroslav", "initials": "J"}, {"family": "Val\u00e1rik", "given": "Miroslav", "initials": "M"}], "type": "journal article", "published": "2017-02-00", "journal": {"volume": "15", "issn": "1467-7652", "issue": "2", "pages": "249-256", "title": "Plant Biotechnol. J.", "issn-l": "1467-7644"}, "abstract": "The capacity of the bread wheat (Triticum aestivum) genome to tolerate introgression from related genomes can be exploited for wheat improvement. A resistance to powdery mildew expressed by a derivative of the cross-bread wheat cv. T\u00e4hti\u00a0\u00d7\u00a0T.\u00a0militinae (Tm) is known to be due to the incorporation of a Tm segment into the long arm of chromosome 4A. Here, a newly developed in silico method termed rearrangement identification and characterization (RICh) has been applied to characterize the introgression. A virtual gene order, assembled using the GenomeZipper approach, was obtained for the native copy of chromosome 4A; it incorporated 570 4A DArTseq markers to produce a zipper comprising 2132 loci. A comparison between the native and introgressed forms of the 4AL chromosome arm showed that the introgressed region is located at the distal part of the arm. The Tm segment, derived from chromosome 7G, harbours 131 homoeologs of the 357 genes present on the corresponding region of Chinese Spring 4AL. The estimated number of Tm genes transferred along with the disease resistance gene was 169. Characterizing the introgression's position, gene content and internal gene order should not only facilitate gene isolation, but may also be informative with respect to chromatin structure and behaviour studies.", "doi": "10.1111/pbi.12610", "pmid": "27510270", "labels": {"Bioinformatics Support, Infrastructure and Training": "Collaborative", "Bioinformatics Support and Infrastructure": "Collaborative", "Bioinformatics (NBIS)": "Collaborative"}, "xrefs": [{"db": "pmc", "key": "PMC5259550"}], "notes": [], "created": "2017-05-03T13:00:44.730Z", "modified": "2020-01-21T13:53:21.406Z"}], "created": "2017-05-09T09:12:33.933Z", "modified": "2020-11-27T13:14:03.160Z"}