{"entity": "researcher", "timestamp": "2026-07-15T16:19:07.751Z", "family": "Keech", "given": "Olivier", "initials": "O", "orcid": "0000-0002-0546-7721", "affiliations": ["Department of Plant Physiology, Ume\u00e5 Plant Science Centre, Ume\u00e5 University, 90187, Ume\u00e5, Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/cbfa829eb0b74b67aed7865dda0e15d3.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/cbfa829eb0b74b67aed7865dda0e15d3"}}, "publications": [{"entity": "publication", "iuid": "97dcd02768fa4b35be175ba383846812", "links": {"self": {"href": "https://publications.scilifelab.se/publication/97dcd02768fa4b35be175ba383846812.json"}, "display": {"href": "https://publications.scilifelab.se/publication/97dcd02768fa4b35be175ba383846812"}}, "title": "Comparative Study of the Mitochondrial Proteome From Mesophyll, Vascular, and Guard Cells in Response to Carbon Starvation.", "authors": [{"family": "Boussardon", "given": "Cl\u00e9ment", "initials": "C", "orcid": "0000-0001-8313-3535", "researcher": {"href": "https://publications.scilifelab.se/researcher/63dace73d3684bf3b48c13b58c5f777f.json"}}, {"family": "Hussain", "given": "Shah", "initials": "S", "orcid": "0000-0003-4977-1167", "researcher": {"href": "https://publications.scilifelab.se/researcher/1f9c2bc4a6094b52b13737f26051bbd3.json"}}, {"family": "Keech", "given": "Olivier", "initials": "O", "orcid": "0000-0002-0546-7721", "researcher": {"href": "https://publications.scilifelab.se/researcher/cbfa829eb0b74b67aed7865dda0e15d3.json"}}], "type": "journal article", "published": "2025-08-30", "journal": {"title": "Physiol Plantarum", "issn": "1399-3054", "volume": "177", "issue": "5", "pages": "e70465", "issn-l": "0031-9317"}, "abstract": "A leaf is an organ composed of different tissues that fulfill specific functions. We hypothesized that since cells in vascular or mesophyll tissues as well as in stoma are developmentally tuned to operate their functions, mitochondria from these cells could exhibit significant metabolic differences. Using the IMTACT method, mitochondria were isolated from these three specific cell types, and the subsequent proteomes were analyzed. At steady state, mitochondria from vascular and guard cells had a significantly higher abundance of proteins associated with the mtETC, the TCA cycle, and the metabolic use of amino acids (glutamate, proline, isoleucine, leucine, and valine) as alternative substrates. Intriguingly, the mitochondria from guard cells also had a much lower abundance of proteins involved in the translation machinery, thus raising questions about the efficiency of the mitochondrial protein turnover in these cells. In a second step, we carried out the same comparative analysis, but with plants that were subjected to carbon starvation by placing them in prolonged darkness for three or 6 days. For all cell types studied, an increased abundance of proteins involved in branched-chain amino acid metabolism was detected. However, while guard cell mitochondria underwent a drastic reduction in proteins involved in respiration, translation, and RNA editing, suggesting a sharp downregulation of mitochondrial functions, mitochondrial proteomes from mesophyll and vascular cells did not show many differences, except for an increased arginine/proline/glutamate metabolism. Together, the results reported here support a differential regulation of the mitochondrial metabolism among the cell types constituting a leaf, a difference that is exacerbated upon stress.", "doi": "10.1111/ppl.70465", "pmid": "40873255", "labels": {"Global Proteomics and Proteogenomics": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC12391860"}], "notes": [], "created": "2025-11-27T13:03:24.119Z", "modified": "2025-11-27T13:03:24.590Z"}, {"entity": "publication", "iuid": "f41b7e4ccde445e8a64194739a57ed51", "links": {"self": {"href": "https://publications.scilifelab.se/publication/f41b7e4ccde445e8a64194739a57ed51.json"}, "display": {"href": "https://publications.scilifelab.se/publication/f41b7e4ccde445e8a64194739a57ed51"}}, "title": "Comparison of plastid proteomes points towards a higher plastidial redox turnover in vascular tissues than in mesophyll cells.", "authors": [{"family": "Boussardon", "given": "Cl\u00e9ment", "initials": "C", "orcid": "0000-0001-8313-3535", "researcher": {"href": "https://publications.scilifelab.se/researcher/63dace73d3684bf3b48c13b58c5f777f.json"}}, {"family": "Carrie", "given": "Chris", "initials": "C", "orcid": "0000-0002-4240-4674", "researcher": {"href": "https://publications.scilifelab.se/researcher/7a9f440fc0e94cbe956b35046cc13287.json"}}, {"family": "Keech", "given": "Olivier", "initials": "O", "orcid": "0000-0002-0546-7721", "researcher": {"href": "https://publications.scilifelab.se/researcher/cbfa829eb0b74b67aed7865dda0e15d3.json"}}], "type": "journal article", "published": "2023-08-03", "journal": {"title": "J. Exp. Bot.", "issn": "1460-2431", "volume": "74", "issue": "14", "pages": "4110-4124", "issn-l": "0022-0957"}, "abstract": "Plastids are complex organelles that vary in size and function depending on the cell type. Accordingly, they can be referred to as amyloplasts, chloroplasts, chromoplasts, etioplasts, or proplasts, to only cite a few. Over the past decades, methods based on density gradients and differential centrifugation have been extensively used for the purification of plastids. However, these methods need large amounts of starting material, and hardly provide a tissue-specific resolution. Here, we applied our IPTACT (Isolation of Plastids TAgged in specific Cell Types) method, which involves the biotinylation of plastids in vivo using one-shot transgenic lines expressing the Translocon of the Outer Membrane 64 (TOC64) gene coupled with a biotin ligase receptor particle and the BirA biotin ligase, to isolate plastids from mesophyll and companion cells of Arabidopsis using tissue specific pCAB3 and pSUC2 promoters, respectively. Subsequently, a proteome profiling was performed, which allowed the identification of 1672 proteins, among which 1342 were predicted to be plastidial, and 705 were fully confirmed according to the SUBA5 database. Interestingly, although 92% of plastidial proteins were equally distributed between the two tissues, we observed an accumulation of proteins associated with jasmonic acid biosynthesis, plastoglobuli (e.g. NAD(P)H dehydrogenase C1, vitamin E deficient 1, plastoglobulin of 34 kDa, ABC1-like kinase 1) and cyclic electron flow in plastids originating from vascular tissue. Besides demonstrating the technical feasibility of isolating plastids in a tissue-specific manner, our work provides strong evidence that plastids from vascular tissue have a higher redox turnover to ensure optimal functioning, notably under high solute strength as encountered in vascular cells.", "doi": "10.1093/jxb/erad133", "pmid": "37026385", "labels": {"Global Proteomics and Proteogenomics": "Service", "Integrated Microscopy Technologies Ume\u00e5": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC10400147"}, {"db": "pii", "key": "7110727"}], "notes": [], "created": "2023-06-07T19:03:18.674Z", "modified": "2023-11-29T13:24:39.668Z"}, {"entity": "publication", "iuid": "88e511487ec2450992fda954d9c04889", "links": {"self": {"href": "https://publications.scilifelab.se/publication/88e511487ec2450992fda954d9c04889.json"}, "display": {"href": "https://publications.scilifelab.se/publication/88e511487ec2450992fda954d9c04889"}}, "title": "Metabolic control of arginine and ornithine levels paces the progression of leaf senescence.", "authors": [{"family": "Liebsch", "given": "Daniela", "initials": "D", "orcid": "0000-0003-2457-7376", "researcher": {"href": "https://publications.scilifelab.se/researcher/527361208ab748e3b8655574178fb00c.json"}}, {"family": "Juvany", "given": "Marta", "initials": "M", "orcid": "0000-0003-1093-3317", "researcher": {"href": "https://publications.scilifelab.se/researcher/e1c5bd691038499bbc1a4265b22b192a.json"}}, {"family": "Li", "given": "Zhonghai", "initials": "Z", "orcid": "0000-0002-0558-3298", "researcher": {"href": "https://publications.scilifelab.se/researcher/b434865fc4da4e6f9e596cf39479b261.json"}}, {"family": "Wang", "given": "Hou-Ling", "initials": "HL", "orcid": "0000-0002-9950-6866", "researcher": {"href": "https://publications.scilifelab.se/researcher/f53b2e8d72bb491da64c9e73f269b871.json"}}, {"family": "Ziolkowska", "given": "Agnieszka", "initials": "A", "orcid": "0000-0002-4262-7106", "researcher": {"href": "https://publications.scilifelab.se/researcher/1355ff26d9cf4626bad7b3b93bf0a90d.json"}}, {"family": "Chrobok", "given": "Daria", "initials": "D"}, {"family": "Boussardon", "given": "Cl\u00e9ment", "initials": "C", "orcid": "0000-0001-8313-3535", "researcher": {"href": "https://publications.scilifelab.se/researcher/63dace73d3684bf3b48c13b58c5f777f.json"}}, {"family": "Wen", "given": "Xing", "initials": "X", "orcid": "0000-0002-9322-2272", "researcher": {"href": "https://publications.scilifelab.se/researcher/ee39737b2eda44d590a26a7f1283986b.json"}}, {"family": "Law", "given": "Simon R", "initials": "SR", "orcid": "0000-0003-0389-6650", "researcher": {"href": "https://publications.scilifelab.se/researcher/eec5f3e0d7f640f7948c4caec1f31802.json"}}, {"family": "Jane\u010dkov\u00e1", "given": "Helena", "initials": "H"}, {"family": "Brouwer", "given": "Bastiaan", "initials": "B", "orcid": "0000-0002-6609-982X", "researcher": {"href": "https://publications.scilifelab.se/researcher/fe8be89e1d614381aac8a1311fad1ff6.json"}}, {"family": "Lind\u00e9n", "given": "Pernilla", "initials": "P", "orcid": "0000-0002-8346-1966", "researcher": {"href": "https://publications.scilifelab.se/researcher/0dd4746a02024dceadcbbabcee513281.json"}}, {"family": "Delhomme", "given": "Nicolas", "initials": "N", "orcid": "0000-0002-3053-0796", "researcher": {"href": "https://publications.scilifelab.se/researcher/107fbbd40f1444fb838ad4c0365738fa.json"}}, {"family": "Stenlund", "given": "Hans", "initials": "H", "orcid": "0000-0001-9943-296X", "researcher": {"href": "https://publications.scilifelab.se/researcher/5259d6369f564651ace11d8bff689535.json"}}, {"family": "Moritz", "given": "Thomas", "initials": "T", "orcid": "0000-0002-4258-3190", "researcher": {"href": "https://publications.scilifelab.se/researcher/95ad5b7fe48f42eda1328f54a385e097.json"}}, {"family": "Gardestr\u00f6m", "given": "Per", "initials": "P"}, {"family": "Guo", "given": "Hongwei", "initials": "H", "orcid": "0000-0002-7883-9477", "researcher": {"href": "https://publications.scilifelab.se/researcher/efc00fa0b1df4b9d92ba081d3cfa25c0.json"}}, {"family": "Keech", "given": "Olivier", "initials": "O", "orcid": "0000-0002-0546-7721", "researcher": {"href": "https://publications.scilifelab.se/researcher/cbfa829eb0b74b67aed7865dda0e15d3.json"}}], "type": "journal article", "published": "2022-08-01", "journal": {"title": "Plant Physiol.", "issn": "1532-2548", "volume": "189", "issue": "4", "pages": "1943-1960", "issn-l": "0032-0889"}, "abstract": "Leaf senescence can be induced by stress or aging, sometimes in a synergistic manner. It is generally acknowledged that the ability to withstand senescence-inducing conditions can provide plants with stress resilience. Although the signaling and transcriptional networks responsible for a delayed senescence phenotype, often referred to as a functional stay-green trait, have been actively investigated, very little is known about the subsequent metabolic adjustments conferring this aptitude to survival. First, using the individually darkened leaf (IDL) experimental setup, we compared IDLs of wild-type (WT) Arabidopsis (Arabidopsis thaliana) to several stay-green contexts, that is IDLs of two functional stay-green mutant lines, oresara1-2 (ore1-2) and an allele of phytochrome-interacting factor 5 (pif5), as well as to leaves from a WT plant entirely darkened (DP). We provide compelling evidence that arginine and ornithine, which accumulate in all stay-green contexts-likely due to the lack of induction of amino acids (AAs) transport-can delay the progression of senescence by fueling the Krebs cycle or the production of polyamines (PAs). Secondly, we show that the conversion of putrescine to spermidine (SPD) is controlled in an age-dependent manner. Thirdly, we demonstrate that SPD represses senescence via interference with ethylene signaling by stabilizing the ETHYLENE BINDING FACTOR1 and 2 (EBF1/2) complex. Taken together, our results identify arginine and ornithine as central metabolites influencing the stress- and age-dependent progression of leaf senescence. We propose that the regulatory loop between the pace of the AA export and the progression of leaf senescence provides the plant with a mechanism to fine-tune the induction of cell death in leaves, which, if triggered unnecessarily, can impede nutrient remobilization and thus plant growth and survival.", "doi": "10.1093/plphys/kiac244", "pmid": "35604104", "labels": {"Swedish Metabolomics Centre": "Technology development"}, "xrefs": [{"db": "pmc", "key": "PMC9342962"}, {"db": "pii", "key": "6590664"}], "notes": [], "created": "2022-12-05T08:17:55.163Z", "modified": "2025-10-17T13:03:14.799Z"}, {"entity": "publication", "iuid": "820bcd5dc8a449449c0077bf2fa60e7a", "links": {"self": {"href": "https://publications.scilifelab.se/publication/820bcd5dc8a449449c0077bf2fa60e7a.json"}, "display": {"href": "https://publications.scilifelab.se/publication/820bcd5dc8a449449c0077bf2fa60e7a"}}, "title": "Tissue-specific isolation of Arabidopsis/plant mitochondria - IMTACT (isolation of mitochondria tagged in specific cell types).", "authors": [{"family": "Boussardon", "given": "Cl\u00e9ment", "initials": "C", "orcid": "0000-0001-8313-3535", "researcher": {"href": "https://publications.scilifelab.se/researcher/63dace73d3684bf3b48c13b58c5f777f.json"}}, {"family": "Przybyla-Toscano", "given": "Jonathan", "initials": "J", "orcid": "0000-0002-8053-6037", "researcher": {"href": "https://publications.scilifelab.se/researcher/813a60c6feae4c5da4396dc063650e1a.json"}}, {"family": "Carrie", "given": "Chris", "initials": "C", "orcid": "0000-0002-4240-4674", "researcher": {"href": "https://publications.scilifelab.se/researcher/7a9f440fc0e94cbe956b35046cc13287.json"}}, {"family": "Keech", "given": "Olivier", "initials": "O", "orcid": "0000-0002-0546-7721", "researcher": {"href": "https://publications.scilifelab.se/researcher/cbfa829eb0b74b67aed7865dda0e15d3.json"}}], "type": "journal article", "published": "2020-07-00", "journal": {"title": "Plant J.", "issn": "1365-313X", "issn-l": "0960-7412", "volume": "103", "issue": "1", "pages": "459-473"}, "abstract": "Plant cells contain numerous subcompartments with clearly delineated metabolic functions. Mitochondria represent a very small fraction of the total cell volume and yet are the site of respiration and thus crucial for cells throughout all developmental stages of a plant's life. As such, their isolation from the rest of the cellular components is a basic requirement for numerous biochemical and physiological experiments. Although procedures exist to isolate plant mitochondria from different organs (i.e. leaves, roots, tubers, etc.), they are often tedious and do not provide resolution at the tissue level (i.e. phloem, mesophyll or pollen). Here, we present a novel method called IMTACT (isolation of mitochondria tagged in specific cell types), developed in Arabidopsis thaliana (Arabidopsis) that involves biotinylation of mitochondria in a tissue-specific manner using transgenic lines expressing a synthetic version of the OM64 (Outer Membrane 64) gene combined with BLRP and the BirA biotin ligase gene. Tissue specificity is achieved with cell-specific promoters (e.g. CAB3 and SUC2). Labeled mitochondria from crude extracts are retained by magnetic beads, allowing the simple and rapid isolation of highly pure and intact organelles from organs or specific tissues. For example, we could show that the mitochondrial population from mesophyll cells was significantly larger in size than the mitochondrial population isolated from leaf companion cells. To facilitate the applicability of this method in both wild-type and mutant Arabidopsis plants we generated a set of OM64-BLRP one-shot constructs with different selection markers and tissue-specific promoters.", "doi": "10.1111/tpj.14723", "pmid": "32057155", "labels": {"Integrated Microscopy Technologies Ume\u00e5": "Service"}, "xrefs": [], "notes": [], "created": "2020-12-10T11:23:19.952Z", "modified": "2022-04-01T14:38:12.313Z"}, {"entity": "publication", "iuid": "a6bc07a0f8a546cfa3841bdb3032ec2e", "links": {"self": {"href": "https://publications.scilifelab.se/publication/a6bc07a0f8a546cfa3841bdb3032ec2e.json"}, "display": {"href": "https://publications.scilifelab.se/publication/a6bc07a0f8a546cfa3841bdb3032ec2e"}}, "title": "The Mitogenome of Norway Spruce and a Reappraisal of Mitochondrial Recombination in Plants.", "authors": [{"family": "Sullivan", "given": "Alexis R", "initials": "AR", "orcid": "0000-0003-2182-911X", "researcher": {"href": "https://publications.scilifelab.se/researcher/82ef3b1f7aec4a99864cd60cad55507e.json"}}, {"family": "Eldfjell", "given": "Yrin", "initials": "Y"}, {"family": "Schiffthaler", "given": "Bastian", "initials": "B", "orcid": "0000-0002-9771-467X", "researcher": {"href": "https://publications.scilifelab.se/researcher/12527c57f62e4a46b758e061ba3f80b1.json"}}, {"family": "Delhomme", "given": "Nicolas", "initials": "N", "orcid": "0000-0002-3053-0796", "researcher": {"href": "https://publications.scilifelab.se/researcher/107fbbd40f1444fb838ad4c0365738fa.json"}}, {"family": "Asp", "given": "Torben", "initials": "T", "orcid": "0000-0002-6470-2410", "researcher": {"href": "https://publications.scilifelab.se/researcher/fcb35e5ec7f644848c5bfabc5ed79bc3.json"}}, {"family": "Hebelstrup", "given": "Kim H", "initials": "KH", "orcid": "0000-0002-3984-3633", "researcher": {"href": "https://publications.scilifelab.se/researcher/cfc2c2091d4d4ab0998f76118ae2bbf6.json"}}, {"family": "Keech", "given": "Olivier", "initials": "O", "orcid": "0000-0002-0546-7721", "researcher": {"href": "https://publications.scilifelab.se/researcher/cbfa829eb0b74b67aed7865dda0e15d3.json"}}, {"family": "\u00d6berg", "given": "Lisa", "initials": "L"}, {"family": "M\u00f8ller", "given": "Ian Max", "initials": "IM", "orcid": "0000-0002-7919-7787", "researcher": {"href": "https://publications.scilifelab.se/researcher/ae0f45488d984c95b7c37b57d9b559cb.json"}}, {"family": "Arvestad", "given": "Lars", "initials": "L", "orcid": "0000-0001-5341-1733", "researcher": {"href": "https://publications.scilifelab.se/researcher/27184c3c97f2457893e5232544efee24.json"}}, {"family": "Street", "given": "Nathaniel R", "initials": "NR", "orcid": "0000-0001-6031-005X", "researcher": {"href": "https://publications.scilifelab.se/researcher/cb9ceb237a724046a1454179a32de1b0.json"}}, {"family": "Wang", "given": "Xiao-Ru", "initials": "XR", "orcid": "0000-0002-6150-7046", "researcher": {"href": "https://publications.scilifelab.se/researcher/186f7b1871404673a12544f5bbf7409f.json"}}], "type": "journal article", "published": "2020-01-01", "journal": {"title": "Genome Biol Evol", "issn": "1759-6653", "volume": "12", "issue": "1", "pages": "3586-3598", "issn-l": "1759-6653"}, "abstract": "Plant mitogenomes can be difficult to assemble because they are structurally dynamic and prone to intergenomic DNA transfers, leading to the unusual situation where an organelle genome is far outnumbered by its nuclear counterparts. As a result, comparative mitogenome studies are in their infancy and some key aspects of genome evolution are still known mainly from pregenomic, qualitative methods. To help address these limitations, we combined machine learning and in silico enrichment of mitochondrial-like long reads to assemble the bacterial-sized mitogenome of Norway spruce (Pinaceae: Picea abies). We conducted comparative analyses of repeat abundance, intergenomic transfers, substitution and rearrangement rates, and estimated repeat-by-repeat homologous recombination rates. Prompted by our discovery of highly recombinogenic small repeats in P. abies, we assessed the genomic support for the prevailing hypothesis that intramolecular recombination is predominantly driven by repeat length, with larger repeats facilitating DNA exchange more readily. Overall, we found mixed support for this view: Recombination dynamics were heterogeneous across vascular plants and highly active small repeats (ca. 200 bp) were present in about one-third of studied mitogenomes. As in previous studies, we did not observe any robust relationships among commonly studied genome attributes, but we identify variation in recombination rates as a underinvestigated source of plant mitogenome diversity.", "doi": "10.1093/gbe/evz263", "pmid": "31774499", "labels": {"NGI Uppsala (Uppsala Genome Center)": "Service", "National Genomics Infrastructure": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pii", "key": "5644343"}, {"db": "pmc", "key": "PMC6944214"}], "notes": [], "created": "2020-09-15T06:47:15.995Z", "modified": "2024-01-16T13:48:43.093Z"}, {"entity": "publication", "iuid": "c28dc85e503f4ad8b3fbe19acd8f4bcf", "links": {"self": {"href": "https://publications.scilifelab.se/publication/c28dc85e503f4ad8b3fbe19acd8f4bcf.json"}, "display": {"href": "https://publications.scilifelab.se/publication/c28dc85e503f4ad8b3fbe19acd8f4bcf"}}, "title": "Darkened Leaves Use Different Metabolic Strategies for Senescence and Survival.", "authors": [{"family": "Law", "given": "Simon R", "initials": "SR"}, {"family": "Chrobok", "given": "Daria", "initials": "D", "orcid": "0000-0002-4842-7690", "researcher": {"href": "https://publications.scilifelab.se/researcher/a4db812aeb344bc1b1bd61a149ed163b.json"}}, {"family": "Juvany", "given": "Marta", "initials": "M", "orcid": "0000-0003-1093-3317", "researcher": {"href": "https://publications.scilifelab.se/researcher/e1c5bd691038499bbc1a4265b22b192a.json"}}, {"family": "Delhomme", "given": "Nicolas", "initials": "N", "orcid": "0000-0002-3053-0796", "researcher": {"href": "https://publications.scilifelab.se/researcher/107fbbd40f1444fb838ad4c0365738fa.json"}}, {"family": "Lind\u00e9n", "given": "Pernilla", "initials": "P"}, {"family": "Brouwer", "given": "Bastiaan", "initials": "B", "orcid": "0000-0002-6609-982X", "researcher": {"href": "https://publications.scilifelab.se/researcher/fe8be89e1d614381aac8a1311fad1ff6.json"}}, {"family": "Ahad", "given": "Abdul", "initials": "A"}, {"family": "Moritz", "given": "Thomas", "initials": "T", "orcid": "0000-0002-4258-3190", "researcher": {"href": "https://publications.scilifelab.se/researcher/95ad5b7fe48f42eda1328f54a385e097.json"}}, {"family": "Jansson", "given": "Stefan", "initials": "S", "orcid": "0000-0002-7906-6891", "researcher": {"href": "https://publications.scilifelab.se/researcher/fb9d3c17f4514903b3731d15c622a53d.json"}}, {"family": "Gardestr\u00f6m", "given": "Per", "initials": "P", "orcid": "0000-0001-5900-7395", "researcher": {"href": "https://publications.scilifelab.se/researcher/767df182c20a466c95227f285419407f.json"}}, {"family": "Keech", "given": "Olivier", "initials": "O", "orcid": "0000-0002-0546-7721", "researcher": {"href": "https://publications.scilifelab.se/researcher/cbfa829eb0b74b67aed7865dda0e15d3.json"}}], "type": "journal article", "published": "2018-05-00", "journal": {"title": "Plant Physiol.", "issn": "1532-2548", "volume": "177", "issue": "1", "pages": "132-150", "issn-l": "0032-0889"}, "abstract": "In plants, an individually darkened leaf initiates senescence much more rapidly than a leaf from a whole darkened plant. Combining transcriptomic and metabolomic approaches in Arabidopsis ( Arabidopsis thaliana), we present an overview of the metabolic strategies that are employed in response to different darkening treatments. Under darkened plant conditions, the perception of carbon starvation drove a profound metabolic readjustment in which branched-chain amino acids and potentially monosaccharides released from cell wall loosening became important substrates for maintaining minimal ATP production. Concomitantly, the increased accumulation of amino acids with a high nitrogen-carbon ratio may provide a safety mechanism for the storage of metabolically derived cytotoxic ammonium and a pool of nitrogen for use upon returning to typical growth conditions. Conversely, in individually darkened leaf, the metabolic profiling that followed our 13C-enrichment assays revealed a temporal and differential exchange of metabolites, including sugars and amino acids, between the darkened leaf and the rest of the plant. This active transport could be the basis for a progressive metabolic shift in the substrates fueling mitochondrial activities, which are central to the catabolic reactions facilitating the retrieval of nutrients from the senescing leaf. We propose a model illustrating the specific metabolic strategies employed by leaves in response to these two darkening treatments, which support either rapid senescence or a strong capacity for survival.", "doi": "10.1104/pp.18.00062", "pmid": "29523713", "labels": {"Swedish Metabolomics Centre": "Service"}, "xrefs": [{"db": "pii", "key": "pp.18.00062"}, {"db": "pmc", "key": "PMC5933110"}], "notes": [], "created": "2019-01-10T10:01:37.175Z", "modified": "2025-10-17T13:03:18.171Z"}]}