{"entity": "researcher", "timestamp": "2026-08-11T15:06:17.103Z", "family": "Hansson", "given": "Mats", "initials": "M", "orcid": "0000-0002-0168-9968", "affiliations": ["Molecular Cell Biology, Department of Biology, Lund University, Lund, Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/63440c24a3874af18614b26ac550e5cc.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/63440c24a3874af18614b26ac550e5cc"}}, "publications": [{"entity": "publication", "iuid": "42d2bb44130c40a9a57616496fc17474", "links": {"self": {"href": "https://publications.scilifelab.se/publication/42d2bb44130c40a9a57616496fc17474.json"}, "display": {"href": "https://publications.scilifelab.se/publication/42d2bb44130c40a9a57616496fc17474"}}, "title": "Yellow barley xan-m mutants are deficient in the motor unit SECA1 of the SEC1 translocase system.", "authors": [{"family": "Stuart", "given": "David", "initials": "D"}, {"family": "Ivanova", "given": "Anastasiia", "initials": "A"}, {"family": "Zakhrabekova", "given": "Shakhira", "initials": "S"}, {"family": "Hansson", "given": "Mats", "initials": "M", "orcid": "0000-0002-0168-9968", "researcher": {"href": "https://publications.scilifelab.se/researcher/63440c24a3874af18614b26ac550e5cc.json"}}], "type": "journal article", "published": "2025-02-26", "journal": {"title": "Planta", "issn": "1432-2048", "volume": "261", "issue": "4", "pages": "68", "issn-l": "0032-0935"}, "abstract": "Chloroplast protein transport depends on the SEC1 translocase. Barley xan-m mutants, deficient in SECA1, lack chlorophyll and die as seedlings. Their yellow phenotype indicates that carotenoid chemistry is less SEC1-dependent. Chloroplast proteins encoded by genes located in the cell nucleus need to be transported across up to three chloroplast membranes to find its correct location. SEC1 is one of the major translocase systems. In plants, SEC1 consists of three proteins (SECA1, SECY1 and SECE1) and transports substrate proteins over the thylakoid membrane. SECA1 is an ATPase that delivers the substrate protein to the SECY1-SECE1 channel. In the present study, we analyzed five allelic barley xan-m mutants, which had been isolated between 1925 and 1957. The mutants belong to a larger collection of barley mutants deficient in chlorophyll biosynthesis and chloroplast development. Mutations in the xan-m gene are recessive and result in a yellow phenotype due to lack of chlorophyll and presence of carotenoids. Mutant seedlings die after approximately 10 days. We identified the defective gene in the xan-m mutants by a variant of bulk segregant analysis. The gene xan-m is an orthologue of SECA1 in Arabidopsis. Previously, only genes related to chlorophyll biosynthesis have been identified in the collection of barley xan mutants. The yellow phenotype of the mutants demonstrates that proteins responsible for carotenoid biosynthesis and storage are not or less dependent on an intact SEC1 translocase.", "doi": "10.1007/s00425-025-04654-9", "pmid": "40009246", "labels": {"NGI Short read": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service", "National Genomics Infrastructure": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC11865152"}, {"db": "pii", "key": "10.1007/s00425-025-04654-9"}], "notes": [], "created": "2025-09-08T06:54:56.835Z", "modified": "2025-11-14T11:05:42.039Z"}, {"entity": "publication", "iuid": "4a894ab59574495e857e2b2155acc78b", "links": {"self": {"href": "https://publications.scilifelab.se/publication/4a894ab59574495e857e2b2155acc78b.json"}, "display": {"href": "https://publications.scilifelab.se/publication/4a894ab59574495e857e2b2155acc78b"}}, "title": "A pipeline for identification of causal mutations in barley identifies Xantha-j as the chlorophyll synthase gene.", "authors": [{"family": "Stuart", "given": "David", "initials": "D", "orcid": "0000-0001-5624-3608", "researcher": {"href": "https://publications.scilifelab.se/researcher/a18828bd03f04188b454b5ffc62ad106.json"}}, {"family": "Zakhrabekova", "given": "Shakhira", "initials": "S", "orcid": "0000-0002-5309-5459", "researcher": {"href": "https://publications.scilifelab.se/researcher/4ebd0fe7ba0a48d1bb1d7e34a13b6c36.json"}}, {"family": "J\u00f8rgensen", "given": "Morten Egevang", "initials": "ME", "orcid": "0000-0001-6503-0495", "researcher": {"href": "https://publications.scilifelab.se/researcher/569eabce9b404d04adc3d85120140adc.json"}}, {"family": "Dockter", "given": "Christoph", "initials": "C", "orcid": "0000-0001-5923-3667", "researcher": {"href": "https://publications.scilifelab.se/researcher/a7c36daf65a3443aace9f0803a4b1a62.json"}}, {"family": "Hansson", "given": "Mats", "initials": "M", "orcid": "0000-0002-0168-9968", "researcher": {"href": "https://publications.scilifelab.se/researcher/63440c24a3874af18614b26ac550e5cc.json"}}], "type": "journal article", "published": "2024-07-31", "journal": {"title": "Plant Physiol.", "issn": "1532-2548", "volume": "195", "issue": "4", "pages": "2877-2890", "issn-l": "0032-0889"}, "abstract": "Thousands of barley (Hordeum vulgare L.) mutants have been isolated over the last century, and many are stored in gene banks across various countries. In the present work, we developed a pipeline to efficiently identify causal mutations in barley. The pipeline is also efficient for mutations located in centromeric regions. Through bulked segregant analyses using whole genome sequencing of pooled F2 seedlings, we mapped 2 mutations and identified a limited number of candidate genes. We applied the pipeline on F2 mapping populations made from xan-j.59 (unknown mutation) and xan-l.82 (previously known). The Xantha-j (xan-j) gene was identified as encoding chlorophyll synthase, which catalyzes the last step in the chlorophyll biosynthetic pathway: the addition of a phytol moiety to the propionate side chain of chlorophyllide. Key amino acid residues in the active site, including the binding sites of the isoprenoid and chlorophyllide substrates, were analyzed in an AlphaFold2-generated structural model of the barley chlorophyll synthase. Three allelic mutants, xan-j.19, xan-j.59, and xan-j.64, were characterized. While xan-j.19 is a 1 base pair deletion and xan-j.59 is a nonsense mutation, xan-j.64 causes an S212F substitution in chlorophyll synthase. Our analyses of xan-j.64 and treatment of growing barley with clomazone, an inhibitor of chloroplastic isoprenoid biosynthesis, suggest that binding of the isoprenoid substrate is a prerequisite for the stable maintenance of chlorophyll synthase in the plastid. We further suggest that chlorophyll synthase is a sensor for coordinating chlorophyll and isoprenoid biosynthesis.", "doi": "10.1093/plphys/kiae218", "pmid": "38630859", "labels": {"NGI Uppsala (SNP&SEQ Technology Platform)": "Service", "National Genomics Infrastructure": "Service", "NGI Short read": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC11288739"}, {"db": "pii", "key": "7649211"}], "notes": [], "created": "2024-11-12T10:48:23.148Z", "modified": "2024-11-25T10:25:51.770Z"}, {"entity": "publication", "iuid": "c0bb50ac623641d88b32b975f7e3b455", "links": {"self": {"href": "https://publications.scilifelab.se/publication/c0bb50ac623641d88b32b975f7e3b455.json"}, "display": {"href": "https://publications.scilifelab.se/publication/c0bb50ac623641d88b32b975f7e3b455"}}, "title": "The mosaic oat genome gives insights into a uniquely healthy cereal crop.", "authors": [{"family": "Kamal", "given": "Nadia", "initials": "N"}, {"family": "Tsardakas Renhuldt", "given": "Nikos", "initials": "N", "orcid": "0000-0001-7216-5320", "researcher": {"href": "https://publications.scilifelab.se/researcher/117e1cc25e4545298e212d86b3ee8ce3.json"}}, {"family": "Bentzer", "given": "Johan", "initials": "J"}, {"family": "Gundlach", "given": "Heidrun", "initials": "H", "orcid": "0000-0002-6757-0943", "researcher": {"href": "https://publications.scilifelab.se/researcher/22e6d69126dd4a9a9a99827c672b5fa5.json"}}, {"family": "Haberer", "given": "Georg", "initials": "G", "orcid": "0000-0002-6612-6939", "researcher": {"href": "https://publications.scilifelab.se/researcher/5313eb519bd24ee3b92a090746ad93a3.json"}}, {"family": "Juh\u00e1sz", "given": "Ang\u00e9la", "initials": "A"}, {"family": "Lux", "given": "Thomas", "initials": "T", "orcid": "0000-0002-5543-1911", "researcher": {"href": "https://publications.scilifelab.se/researcher/076281817e274a45819ff2f53f9047cf.json"}}, {"family": "Bose", "given": "Utpal", "initials": "U"}, {"family": "Tye-Din", "given": "Jason A", "initials": "JA", "orcid": "0000-0001-7687-9654", "researcher": {"href": "https://publications.scilifelab.se/researcher/0dacb233f9d747f7802937fdbfa63d07.json"}}, {"family": "Lang", "given": "Daniel", "initials": "D", "orcid": "0000-0002-2166-0716", "researcher": {"href": "https://publications.scilifelab.se/researcher/a42c82d2c3944382811323db528b074f.json"}}, {"family": "van Gessel", "given": "Nico", "initials": "N", "orcid": "0000-0002-0606-246X", "researcher": {"href": "https://publications.scilifelab.se/researcher/f634bf44243b4c9e8862d2fcbb637357.json"}}, {"family": "Reski", "given": "Ralf", "initials": "R", "orcid": "0000-0002-5496-6711", "researcher": {"href": "https://publications.scilifelab.se/researcher/9f01ef88d61741e8a2fa6ad36d545f52.json"}}, {"family": "Fu", "given": "Yong-Bi", "initials": "YB"}, {"family": "Sp\u00e9gel", "given": "Peter", "initials": "P", "orcid": "0000-0002-6092-2387", "researcher": {"href": "https://publications.scilifelab.se/researcher/0e06a5bbd6114a248eafb168782d0b27.json"}}, {"family": "Ceplitis", "given": "Alf", "initials": "A"}, {"family": "Himmelbach", "given": "Axel", "initials": "A"}, {"family": "Waters", "given": "Amanda J", "initials": "AJ"}, {"family": "Bekele", "given": "Wubishet A", "initials": "WA"}, {"family": "Colgrave", "given": "Michelle L", "initials": "ML"}, {"family": "Hansson", "given": "Mats", "initials": "M", "orcid": "0000-0002-0168-9968", "researcher": {"href": "https://publications.scilifelab.se/researcher/63440c24a3874af18614b26ac550e5cc.json"}}, {"family": "Stein", "given": "Nils", "initials": "N", "orcid": "0000-0003-3011-8731", "researcher": {"href": "https://publications.scilifelab.se/researcher/11ef5173e1214a9f920bcadad30afc70.json"}}, {"family": "Mayer", "given": "Klaus F X", "initials": "KFX", "orcid": "0000-0001-6484-1077", "researcher": {"href": "https://publications.scilifelab.se/researcher/fd32d600030146e9891b324e80708362.json"}}, {"family": "Jellen", "given": "Eric N", "initials": "EN", "orcid": "0000-0002-7906-4845", "researcher": {"href": "https://publications.scilifelab.se/researcher/83594761835445f9a5c92cad770ca372.json"}}, {"family": "Maughan", "given": "Peter J", "initials": "PJ", "orcid": "0000-0003-3714-3411", "researcher": {"href": "https://publications.scilifelab.se/researcher/74f53b85b82e4ccfbb9220754ae0d59a.json"}}, {"family": "Tinker", "given": "Nicholas A", "initials": "NA", "orcid": "0000-0002-2452-4779", "researcher": {"href": "https://publications.scilifelab.se/researcher/ef54eb854d47488f88ffc97360bfef59.json"}}, {"family": "Mascher", "given": "Martin", "initials": "M", "orcid": "0000-0001-6373-6013", "researcher": {"href": "https://publications.scilifelab.se/researcher/ad2d033b05734d53a888db3e03edee0a.json"}}, {"family": "Olsson", "given": "Olof", "initials": "O"}, {"family": "Spannagl", "given": "Manuel", "initials": "M", "orcid": "0000-0003-0701-7035", "researcher": {"href": "https://publications.scilifelab.se/researcher/88a57f18a3794d1aaf7af7c579697860.json"}}, {"family": "Sirijovski", "given": "Nick", "initials": "N", "orcid": "0000-0002-6191-3845", "researcher": {"href": "https://publications.scilifelab.se/researcher/040fc49df77d4171bf2695ae420f2302.json"}}], "type": "journal article", "published": "2022-06-00", "journal": {"title": "Nature", "issn": "1476-4687", "issn-l": "0028-0836", "volume": "606", "issue": "7912", "pages": "113-119"}, "abstract": "Cultivated oat (Avena sativa L.) is an allohexaploid (AACCDD, 2n = 6x = 42) thought to have been domesticated more than 3,000 years ago while growing as a weed in wheat, emmer and barley fields in Anatolia1,2. Oat has a low carbon footprint, substantial health benefits and the potential to replace animal-based food products. However, the lack of a fully annotated reference genome has hampered efforts to deconvolute its complex evolutionary history and functional gene dynamics. Here we present a high-quality reference genome of A. sativa and close relatives of its diploid (Avena longiglumis, AA, 2n = 14) and tetraploid (Avena insularis, CCDD, 2n = 4x = 28) progenitors. We reveal the mosaic structure of the oat genome, trace large-scale genomic reorganizations in the polyploidization history of oat and illustrate a breeding barrier associated with the genome architecture of oat. We showcase detailed analyses of gene families implicated in human health and nutrition, which adds to the evidence supporting oat safety in gluten-free diets, and we perform mapping-by-sequencing of an agronomic trait related to water-use efficiency. This resource for the Avena genus will help to leverage knowledge from other cereal genomes, improve understanding of basic oat biology and accelerate genomics-assisted breeding and reanalysis of quantitative trait studies.", "doi": "10.1038/s41586-022-04732-y", "pmid": "35585233", "labels": {"National Genomics Infrastructure": "Service", "NGI Stockholm (Genomics Production)": "Service", "NGI Short read": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC9159951"}, {"db": "pii", "key": "10.1038/s41586-022-04732-y"}], "notes": [], "created": "2022-08-19T08:37:48.764Z", "modified": "2024-01-16T13:48:36.250Z"}]}