{"type": "FeatureCollection", "features": [{"id": "10.1038/nature02052", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:18:20Z", "type": "Journal Article", "created": "2003-10-08", "title": "Loss Of Omi Mitochondrial Protease Activity Causes The Neuromuscular Disorder Of Mnd2 Mutant Mice", "description": "The mouse mutant mnd2 (motor neuron degeneration 2) exhibits muscle wasting, neurodegeneration, involution of the spleen and thymus, and death by 40 days of age. Degeneration of striatal neurons, with astrogliosis and microglia activation, begins at around 3 weeks of age, and other neurons are affected at later stages. Here we have identified the mnd2 mutation as the missense mutation Ser276Cys in the protease domain of the nuclear-encoded mitochondrial serine protease Omi (also known as HtrA2 or Prss25). Protease activity of Omi is greatly reduced in tissues of mnd2 mice but is restored in mice rescued by a bacterial artificial chromosome transgene containing the wild-type Omi gene. Deletion of the PDZ domain partially restores protease activity to the inactive recombinant Omi protein carrying the Ser276Cys mutation, suggesting that the mutation impairs substrate access or binding to the active site pocket. Loss of Omi protease activity increases the susceptibility of mitochondria to induction of the permeability transition, and increases the sensitivity of mouse embryonic fibroblasts to stress-induced cell death. The neurodegeneration and juvenile lethality in mnd2 mice result from this defect in mitochondrial Omi protease.", "keywords": ["Male", "0301 basic medicine", "0303 health sciences", "Binding Sites", "Cell Death", "Science", "Homozygote", "Molecular Sequence Data", "Caseins", "Chromosome Mapping", "Mice", " Transgenic", "High-Temperature Requirement A Serine Peptidase 2", "Mitochondria", "Mitochondrial Proteins", "Mice", "Mice", " Neurologic Mutants", "03 medical and health sciences", "Animals", "Humans", "Calcium", "Female", "Amino Acid Sequence", "Cells", " Cultured", "Crosses", " Genetic"]}, "links": [{"href": "https://doi.org/10.1038/nature02052"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Nature", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1038/nature02052", "name": "item", "description": "10.1038/nature02052", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1038/nature02052"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2003-10-01T00:00:00Z"}}, {"id": "10.1094/mpmi-03-24-0024-r", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:19:08Z", "type": "Journal Article", "created": "2024-06-21", "title": "Rhizobial Secretion of Truncated Exopolysaccharides Severely Impairs the Mesorhizobium-Lotus Symbiosis", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p> The symbiosis between Mesorhizobium japonicum R7A and Lotus japonicus Gifu is an important model system for investigating the role of bacterial exopolysaccharides (EPS) in plant-microbe interactions. Previously, we showed that R7A exoB mutants that are affected at an early stage of EPS synthesis and in lipopolysaccharide (LPS) synthesis induce effective nodules on L. japonicus Gifu after a delay, whereas exoU mutants affected in the biosynthesis of the EPS side chain induce small uninfected nodule primordia and are impaired in infection. The presence of a halo around the exoU mutant when grown on Calcofluor-containing media suggested the mutant secreted a truncated version of R7A EPS. A nonpolar \u0394 exoA mutant defective in the addition of the first glucose residue to the EPS backbone was also severely impaired symbiotically. Here, we used a suppressor screen to show that the severe symbiotic phenotype of the exoU mutant was due to the secretion of an acetylated pentasaccharide, as both monomers and oligomers, by the same Wzx/Wzy system that transports wild-type exopolysaccharide. We also present evidence that the \u0394 exoA mutant secretes an oligosaccharide by the same transport system, contributing to its symbiotic phenotype. In contrast, \u0394 exoYF and polar exoA and exoL mutants have a similar phenotype to exoB mutants, forming effective nodules after a delay. These studies provide substantial evidence that secreted incompatible EPS is perceived by the plant, leading to abrogation of the infection process. </p><p> [Formula: see text] Copyright \u00a9 2024 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license . </p></article>", "keywords": ["0301 basic medicine", "0303 health sciences", "exo mutants", "exopolysaccharide secretion", "Polysaccharides", " Bacterial", "Botany", "Mesorhizobium", "Microbiology", "QR1-502", "03 medical and health sciences", "Bacterial Proteins", "QK1-989", "Mutation", "Mesorhizobium-Lotus symbiosis", "Lotus", "truncated exopolysaccharide", "Symbiosis", "Root Nodules", " Plant"]}, "links": [{"href": "https://doi.org/10.1094/mpmi-03-24-0024-r"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Molecular%20Plant-Microbe%20Interactions%C2%AE", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1094/mpmi-03-24-0024-r", "name": "item", "description": "10.1094/mpmi-03-24-0024-r", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1094/mpmi-03-24-0024-r"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-09-01T00:00:00Z"}}, {"id": "10.1073/pnas.2201072119", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:18:46Z", "type": "Journal Article", "created": "2022-07-18", "title": "Ethylene inhibits rice root elongation in compacted soil via ABA- and auxin-mediated mechanisms", "description": "<p>             Soil compaction represents a major agronomic challenge, inhibiting root elongation and impacting crop yields. Roots use ethylene to sense soil compaction as the restricted air space causes this gaseous signal to accumulate around root tips. Ethylene inhibits root elongation and promotes radial expansion in compacted soil, but its mechanistic basis remains unclear. Here, we report that ethylene promotes abscisic acid (ABA) biosynthesis and cortical cell radial expansion. Rice mutants of ABA biosynthetic genes had attenuated cortical cell radial expansion in compacted soil, leading to better penetration. Soil compaction-induced ethylene also up-regulates the auxin biosynthesis gene             OsYUC8             . Mutants lacking OsYUC8 are better able to penetrate compacted soil. The auxin influx transporter OsAUX1 is also required to mobilize auxin from the root tip to the elongation zone during a root compaction response. Moreover,             osaux1             mutants penetrate compacted soil better than the wild-type roots and do not exhibit cortical cell radial expansion. We conclude that ethylene uses auxin and ABA as downstream signals to modify rice root cell elongation and radial expansion, causing root tips to swell and reducing their ability to penetrate compacted soil.           </p", "keywords": ["roots", "0301 basic medicine", "570", "Cell biology", "Arabidopsis", "Biophysics", "Plant Science", "Plant Roots", "Biochemistry", "Gene", "Catalysis", "Mixed Function Oxygenases", "Molecular Mechanisms of Plant Development and Regulation", "soil compaction", "Agricultural and Biological Sciences", "Soil", "Abscisic acid", "Ethylene", "03 medical and health sciences", "aba", "ethylene", "Auxin", "Elongation", "Biology", "Plant Proteins", "580", "2. Zero hunger", "0303 health sciences", "Multidisciplinary", "Indoleacetic Acids", "Mutant", "Life Sciences", "Oryza", "Plant Nutrient Uptake and Signaling Pathways", "Biological Sciences", "Ethylenes", "15. Life on land", "Materials science", "Root Aeration", "Chemistry", "ABA", "Plant Responses to Flooding Stress", "Ultimate tensile strength", "Mutation", "Metallurgy", "auxin", "Abscisic Acid"]}, "links": [{"href": "https://pnas.org/doi/pdf/10.1073/pnas.2201072119"}, {"href": "https://doi.org/10.1073/pnas.2201072119"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Proceedings%20of%20the%20National%20Academy%20of%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1073/pnas.2201072119", "name": "item", "description": "10.1073/pnas.2201072119", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1073/pnas.2201072119"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-07-18T00:00:00Z"}}, {"id": "10.3389/fpls.2023.1326766", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:21:35Z", "type": "Journal Article", "created": "2024-01-05", "title": "A collection of novel Lotus japonicus LORE1 mutants perturbed in the nodulation program induced by the Agrobacterium pusense strain IRBG74", "description": "<p>The Lotus japonicus population carrying new Lotus retrotransposon 1 (LORE1) insertions represents a valuable biological resource for genetic research. New insertions were generated by activation of the endogenous retroelement LORE1a in the germline of the G329-3 plant line and arranged in a 2-D system for reverse genetics. LORE1 mutants identified in this collection contributes substantially to characterize candidate genes involved in symbiotic association of L. japonicus with its cognate symbiont, the nitrogen-fixing bacteria Mesorhizobium loti that infects root nodules intracellularly. In this study we aimed to identify novel players in the poorly explored intercellular infection induced by Agrobacterium pusense IRBG74 sp. For this purpose, a forward screen of &amp;gt; 200,000 LORE1 seedlings, obtained from bulk propagation of G329-3 plants, inoculated with IRBG74 was performed. Plants with perturbed nodulation were scored and the offspring were further tested on plates to confirm the symbiotic phenotype. A total of 110 Lotus mutants with impaired nodulation after inoculation with IRBG74 were obtained. A comparative analysis of nodulation kinetics in a subset of 20 mutants showed that most of the lines were predominantly affected in nodulation by IRBG74. Interestingly, additional defects in the main root growth were observed in some mutant lines. Sequencing of LORE1 flanking regions in 47 mutants revealed that 92 Lotus genes were disrupted by novel LORE1 insertions in these lines. In the IM-S34 mutant, one of the insertions was located in the 5\uffc2\uffb4UTR of the LotjaGi5g1v0179800 gene, which encodes the AUTOPHAGY9 protein. Additional mutant alleles, named atg9-2 and atg9-3, were obtained in the reverse genetic collection. Nodule formation was significantly reduced in these mutant alleles after M. loti and IRBG74 inoculation, confirming the effectiveness of the mutant screening. This study describes an effective forward genetic approach to obtain novel mutants in Lotus with a phenotype of interest and to identify the causative gene(s).</p", "keywords": ["0301 basic medicine", "autophagy", "0303 health sciences", "03 medical and health sciences", "Lotus japonicus", "legume (nodules)", "Plant culture", "Plant Science", "mutant screening", "symbiosis", "intercellular infection", "SB1-1110"]}, "links": [{"href": "https://doi.org/10.3389/fpls.2023.1326766"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Plant%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.3389/fpls.2023.1326766", "name": "item", "description": "10.3389/fpls.2023.1326766", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.3389/fpls.2023.1326766"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-01-05T00:00:00Z"}}, {"id": "11104/0341036", "type": "Feature", "geometry": null, "properties": {"updated": "2026-06-23T16:25:56Z", "type": "Journal Article", "created": "2022-07-18", "title": "Ethylene inhibits rice root elongation in compacted soil via ABA- and auxin-mediated mechanisms", "description": "<p>             Soil compaction represents a major agronomic challenge, inhibiting root elongation and impacting crop yields. Roots use ethylene to sense soil compaction as the restricted air space causes this gaseous signal to accumulate around root tips. Ethylene inhibits root elongation and promotes radial expansion in compacted soil, but its mechanistic basis remains unclear. Here, we report that ethylene promotes abscisic acid (ABA) biosynthesis and cortical cell radial expansion. Rice mutants of ABA biosynthetic genes had attenuated cortical cell radial expansion in compacted soil, leading to better penetration. Soil compaction-induced ethylene also up-regulates the auxin biosynthesis gene             OsYUC8             . Mutants lacking OsYUC8 are better able to penetrate compacted soil. The auxin influx transporter OsAUX1 is also required to mobilize auxin from the root tip to the elongation zone during a root compaction response. Moreover,             osaux1             mutants penetrate compacted soil better than the wild-type roots and do not exhibit cortical cell radial expansion. We conclude that ethylene uses auxin and ABA as downstream signals to modify rice root cell elongation and radial expansion, causing root tips to swell and reducing their ability to penetrate compacted soil.           </p", "keywords": ["roots", "0301 basic medicine", "570", "Cell biology", "Arabidopsis", "Biophysics", "Plant Science", "Plant Roots", "Biochemistry", "Gene", "Catalysis", "Mixed Function Oxygenases", "Molecular Mechanisms of Plant Development and Regulation", "soil compaction", "Agricultural and Biological Sciences", "Soil", "Abscisic acid", "Ethylene", "03 medical and health sciences", "aba", "ethylene", "Auxin", "Elongation", "Biology", "Plant Proteins", "580", "2. Zero hunger", "0303 health sciences", "Multidisciplinary", "Indoleacetic Acids", "Mutant", "Life Sciences", "Oryza", "Plant Nutrient Uptake and Signaling Pathways", "Biological Sciences", "Ethylenes", "15. Life on land", "Materials science", "Root Aeration", "Chemistry", "ABA", "Plant Responses to Flooding Stress", "Ultimate tensile strength", "Mutation", "Metallurgy", "auxin", "Abscisic Acid"]}, "links": [{"href": "https://pnas.org/doi/pdf/10.1073/pnas.2201072119"}, {"href": "https://doi.org/11104/0341036"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Proceedings%20of%20the%20National%20Academy%20of%20Sciences", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "11104/0341036", "name": "item", "description": "11104/0341036", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/11104/0341036"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-07-18T00:00:00Z"}}, {"id": "38904752", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:27:39Z", "type": "Journal Article", "created": "2024-06-21", "title": "Rhizobial Secretion of Truncated Exopolysaccharides Severely Impairs the Mesorhizobium-Lotus Symbiosis", "description": "<?xml version='1.0' encoding='UTF-8'?><article><p> The symbiosis between Mesorhizobium japonicum R7A and Lotus japonicus Gifu is an important model system for investigating the role of bacterial exopolysaccharides (EPS) in plant-microbe interactions. Previously, we showed that R7A exoB mutants that are affected at an early stage of EPS synthesis and in lipopolysaccharide (LPS) synthesis induce effective nodules on L. japonicus Gifu after a delay, whereas exoU mutants affected in the biosynthesis of the EPS side chain induce small uninfected nodule primordia and are impaired in infection. The presence of a halo around the exoU mutant when grown on Calcofluor-containing media suggested the mutant secreted a truncated version of R7A EPS. A nonpolar \u0394 exoA mutant defective in the addition of the first glucose residue to the EPS backbone was also severely impaired symbiotically. Here, we used a suppressor screen to show that the severe symbiotic phenotype of the exoU mutant was due to the secretion of an acetylated pentasaccharide, as both monomers and oligomers, by the same Wzx/Wzy system that transports wild-type exopolysaccharide. We also present evidence that the \u0394 exoA mutant secretes an oligosaccharide by the same transport system, contributing to its symbiotic phenotype. In contrast, \u0394 exoYF and polar exoA and exoL mutants have a similar phenotype to exoB mutants, forming effective nodules after a delay. These studies provide substantial evidence that secreted incompatible EPS is perceived by the plant, leading to abrogation of the infection process. </p><p> [Formula: see text] Copyright \u00a9 2024 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license . </p></article>", "keywords": ["0301 basic medicine", "0303 health sciences", "exo mutants", "exopolysaccharide secretion", "Polysaccharides", " Bacterial", "Botany", "Mesorhizobium", "Microbiology", "QR1-502", "03 medical and health sciences", "Bacterial Proteins", "QK1-989", "Mutation", "Mesorhizobium-Lotus symbiosis", "Lotus", "truncated exopolysaccharide", "Symbiosis", "Root Nodules", " Plant"]}, "links": [{"href": "https://doi.org/38904752"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Molecular%20Plant-Microbe%20Interactions%C2%AE", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "38904752", "name": "item", "description": "38904752", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/38904752"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-09-01T00:00:00Z"}}, {"id": "PMC10796720", "type": "Feature", "geometry": null, "properties": {"license": "Open Access", "updated": "2026-06-23T16:29:41Z", "type": "Journal Article", "created": "2024-01-05", "title": "A collection of novel Lotus japonicus LORE1 mutants perturbed in the nodulation program induced by the Agrobacterium pusense strain IRBG74", "description": "<p>The Lotus japonicus population carrying new Lotus retrotransposon 1 (LORE1) insertions represents a valuable biological resource for genetic research. New insertions were generated by activation of the endogenous retroelement LORE1a in the germline of the G329-3 plant line and arranged in a 2-D system for reverse genetics. LORE1 mutants identified in this collection contributes substantially to characterize candidate genes involved in symbiotic association of L. japonicus with its cognate symbiont, the nitrogen-fixing bacteria Mesorhizobium loti that infects root nodules intracellularly. In this study we aimed to identify novel players in the poorly explored intercellular infection induced by Agrobacterium pusense IRBG74 sp. For this purpose, a forward screen of &amp;gt; 200,000 LORE1 seedlings, obtained from bulk propagation of G329-3 plants, inoculated with IRBG74 was performed. Plants with perturbed nodulation were scored and the offspring were further tested on plates to confirm the symbiotic phenotype. A total of 110 Lotus mutants with impaired nodulation after inoculation with IRBG74 were obtained. A comparative analysis of nodulation kinetics in a subset of 20 mutants showed that most of the lines were predominantly affected in nodulation by IRBG74. Interestingly, additional defects in the main root growth were observed in some mutant lines. Sequencing of LORE1 flanking regions in 47 mutants revealed that 92 Lotus genes were disrupted by novel LORE1 insertions in these lines. In the IM-S34 mutant, one of the insertions was located in the 5\uffc2\uffb4UTR of the LotjaGi5g1v0179800 gene, which encodes the AUTOPHAGY9 protein. Additional mutant alleles, named atg9-2 and atg9-3, were obtained in the reverse genetic collection. Nodule formation was significantly reduced in these mutant alleles after M. loti and IRBG74 inoculation, confirming the effectiveness of the mutant screening. This study describes an effective forward genetic approach to obtain novel mutants in Lotus with a phenotype of interest and to identify the causative gene(s).</p", "keywords": ["0301 basic medicine", "autophagy", "0303 health sciences", "03 medical and health sciences", "Lotus japonicus", "legume (nodules)", "Plant culture", "Plant Science", "mutant screening", "symbiosis", "intercellular infection", "SB1-1110"]}, "links": [{"href": "https://doi.org/PMC10796720"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Frontiers%20in%20Plant%20Science", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "PMC10796720", "name": "item", "description": "PMC10796720", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/PMC10796720"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2024-01-05T00:00:00Z"}}], "links": [{"rel": "self", "type": "application/geo+json", "title": "This document as GeoJSON", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Mutant&f=json", "hreflang": "en-US"}, {"rel": "alternate", "type": "text/html", "title": "This document as HTML", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Mutant&f=html", "hreflang": "en-US"}, {"rel": "collection", "type": "application/json", "title": "Collection URL", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main", "hreflang": "en-US"}, {"type": "application/geo+json", "rel": "first", "title": "items (first)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Mutant&", "hreflang": "en-US"}, {"rel": "last", "type": "application/geo+json", "title": "items (last)", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items?keywords=Mutant&offset=7", "hreflang": "en-US"}], "numberMatched": 7, "numberReturned": 7, "distributedFeatures": [], "timeStamp": "2026-06-23T22:38:43.648579Z"}