Cessation of xylem formation or wood growth (CWG) and onset of foliar senescence (OFS) are key autumn phenological events in temperate deciduous trees. Their timing is fundamental for the development and survival of trees, ecosystem nutrient cycling and the seasonal exchange of matter and energy between the biosphere and atmosphere, and affects the impact and feedback of forests to global change. A large-scale experimental effort and improved observational methods have allowed us to compare the timing of CWG and OFS for different deciduous tree species in Western Europe, particularly in silver birch, a pioneer species, and European beech, a late-succession species, at stands of different latitudes, of different levels of site fertility, for 2 years with contrasting meteorological and drought conditions, i.e., the low moderately dry 2017 and the extremely dry 2018. Specifically, we tested whether foliar senescence started before, after or concurrently with CWG. Onset of foliar senescence and CWG occurred generally between late September and early November, with larger differences across species and sites for OFS. Foliar senescence started concurrently with CWG in most cases, except for the drier 2018 and, for beech, at the coldest site, where OFS occurred significantly later than CWG. The behavior of beech in Spain, the southern edge of its European distribution, was unclear, with no CWG, but very low wood growth at the time of OFS. Our study suggests that OFS is generally triggered by the same drivers of CWG or when wood growth decreases in late summer, indicating an overarching mechanism of sink limitation as a possible regulator of the timing of foliar senescence.
", "keywords": ["0106 biological sciences", "listna senescenca", "nastajanje lesa", "cambium", "info:eu-repo/classification/udc/630*18:630*8", "autumn phenology", " xylem formation", " foliar senescence", " cambium", " chlorophyll", " radial growth", " wood", " decidiuous trees", " common aspen", " common beech", " pedunculate oak", " silver birch", "01 natural sciences", "jesenska fenologija", " nastajanje lesa", " listna senescenca", " kambij", " klorofil", " debelinska rast", " les", " listavci", " trepetlika", " navadna bukev", " dob", " navadna breza", "trepetlika", "Trees", "navadna bukev", "klorofil", "les", "chlorophyll", "pedunculate oak", "Biology", "info:eu-repo/classification/udc/630*1", "Ecosystem", "xylem formation", "kambij", "silver birch", "Temperature", "sink limitation", "04 agricultural and veterinary sciences", "dob", "navadna breza", "15. Life on land", "debelinska rast", "common beech", "listavci", "[SDE.BE] Environmental Sciences/Biodiversity and Ecology", "Europe", "Plant Leaves", "radial growth", "jesenska fenologija", "common aspen", "Spain", "13. Climate action", "foliar senescence", "wood growth", "0401 agriculture", " forestry", " and fisheries", "Seasons", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology", "autumn phenology", "decidiuous trees", "wood"]}, "links": [{"href": "https://doi.org/10.1093/treephys/tpaa058"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Tree%20Physiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1093/treephys/tpaa058", "name": "item", "description": "10.1093/treephys/tpaa058", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1093/treephys/tpaa058"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-04-27T00:00:00Z"}}, {"id": "10.1016/j.jhazmat.2014.03.017", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:17:15Z", "type": "Journal Article", "created": "2014-03-22", "title": "A Three-Year Experiment Confirms Continuous Immobilization Of Cadmium And Lead In Contaminated Paddy Field With Biochar Amendment", "description": "Heavy metal contamination in croplands has been a serious concern because of its high health risk through soil-food chain transfer. A field experiment was conducted in 2010-2012 in a contaminated rice paddy in southern China to determine if bioavailability of soil Cd and Pb could be reduced while grain yield was sustained over 3 years after a single soil amendment of wheat straw biochar. Contaminated biochar particles were separated from the biochar amended soil and microscopically analyzed to help determine where, and how, metals were immobilized with biochar. Biochar soil amendment (BSA) consistently and significantly increased soil pH, total organic carbon and decreased soil extractable Cd and Pb over the 3 year period. While rice plant tissues' Cd content was significantly reduced, depending on biochar application rate, reduction in plant Pb concentration was found only in root tissue. Analysis of the fresh and contaminated biochar particles indicated that Cd and Pb had probably been bonded with the mineral phases of Al, Fe and P on and around and inside the contaminated biochar particle. Immobilization of the Pb and Cd also occurred to cation exchange on the porous carbon structure.", "keywords": ["China", "anzsrc-for: 4105 Pollution and Contamination", "Soil remediation", "0211 other engineering and technologies", "4102 Ecological Applications", "Aged biochar", "02 engineering and technology", "41 Environmental Sciences", "01 natural sciences", "630", "anzsrc-for: 41 Environmental Sciences", "4105 Pollution and Contamination", "anzsrc-for: 40 Engineering", "Soil", "anzsrc-for: 34 Chemical sciences", "Metals", " Heavy", "Soil Pollutants", "Biomass", "Organic Chemicals", "anzsrc-for: 03 Chemical Sciences", "0105 earth and related environmental sciences", "2. Zero hunger", "anzsrc-for: 05 Environmental Sciences", "Oryza", "Heavy", "Hydrogen-Ion Concentration", "Heavy metal pollution", "anzsrc-for: 4102 Ecological Applications", "Carbon", "6. Clean water", "Biochar", "Lead", "Metals", "13. Climate action", "Charcoal", "Rice paddy", "Adsorption", "anzsrc-for: 09 Engineering", "Cadmium"]}, "links": [{"href": "https://doi.org/10.1016/j.jhazmat.2014.03.017"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Hazardous%20Materials", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.jhazmat.2014.03.017", "name": "item", "description": "10.1016/j.jhazmat.2014.03.017", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.jhazmat.2014.03.017"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2014-05-01T00:00:00Z"}}, {"id": "10.1016/j.scitotenv.2022.156582", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:17:32Z", "type": "Journal Article", "created": "2022-06-14", "title": "Potential of visible and near infrared spectroscopy coupled with machine learning for predicting soil metal concentrations at the regional scale", "description": "Chemical analytical methods for metal analysis in soils are laborious, time-consuming and costly. This paper aims to evaluate the potential of short-range (SR) and full-range (FR) visible and infrared spectroscopy (vis-NIR) combined with linear and nonlinear calibration methods to estimate concentrations of nickel (Ni), cobalt (Co), cadmium (Cd), lead (Pb) and copper (Cu) in soils. A total of 435 soil samples were collected over agricultural sites, forest (7 %), pasture (5 %) and fallow land across a region in the northern part of Belgium. Generally, better predictions were obtained when using partial least squares regression (PLSR) and nonlinear calibration method [i.e., random forest (RF)] for processing of the spectral data, than when using support vector machine (SVM). FR generally outperformed SR and provided the best prediction results for Ni (R2p = 0.76), Co (R2p = 0.77), Cd (R2p = 0.64) and Pb (R2p = 0.65), when using PLSR and RF. SVM produced the best prediction result only for Pb (R2p = 0.57) using the SR spectra. The metals Ni, Co, Cd and Pb can be predicted successfully (good accuracy) from the FR vis-NIR spectra using PLSR for Co, and RF for Ni, Cd, Pb and Cu. Compared to the FR spectrophotometer, improvement in accuracy was obtained for Cd and Co, using the SR spectra when combined with PLSR and RF, respectively. It is concluded that the SR spectrometer can be used successfully for the prediction of Co with RF (R2p = 0.70), while it best predicted Cd with PLSR with an R2p value of 0.67, which is of value for regional survey.", "keywords": ["Spectroscopy", " Near-Infrared", "Support Vector Machine", "RANGE", "Machine", "Machine learning modelling", "learning modelling", "REFLECTANCE SPECTROSCOPY", "CONTAMINATION", "Soil", "Lead", "Soil contamination", "Nickel", "Metals", "Earth and Environmental Sciences", "Soil Pollutants", "Chemometrics", "Cadmium", "Near-infrared spectra"]}, "links": [{"href": "https://doi.org/10.1016/j.scitotenv.2022.156582"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Science%20of%20The%20Total%20Environment", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.scitotenv.2022.156582", "name": "item", "description": "10.1016/j.scitotenv.2022.156582", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.scitotenv.2022.156582"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-10-01T00:00:00Z"}}, {"id": "10.1016/j.soilbio.2005.10.020", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:17:37Z", "type": "Journal Article", "created": "2006-01-05", "title": "Response Of Microbial Activity And Microbial Community Composition In Soils To Long-Term Arsenic And Cadmium Exposure", "description": "Abstract Arsenic (As) and cadmium (Cd) in soils can affect soil microbial function and community composition and, therefore, may have effects on soil ecosystem functioning. The aim of our study was to assess the effects of long-term As and Cd contamination on soil microbial community composition and soil enzyme activities. We analyzed soils that have been contaminated 25 years ago and at present still show enhanced levels of either As, 18 and 39\u00a0mg\u00a0kg\u22121, or Cd, 34 and 134\u00a0mg\u00a0kg\u22121. Soil without heavy metal addition served as control. Polymerase chain reaction (PCR) followed by denaturing gradient gel electrophoresis (DGGE) showed that bacterial community composition in As and Cd contaminated soils differed from that in the control soil. The same was true for the microbial community composition assessed by analysis of respiratory quinones. Soil fungi and Proteobacteria appeared to be tolerant towards As and Cd, while other groups of bacteria were reduced. The decline in alkaline phosphatase, arylsulphatase, protease and urease activities in the As- and Cd-contaminated soils was correlated with a decrease of respiratory quinones occuring in Actinobacteria and Firmicutes. Xylanase activity was unaffected or elevated in the contaminated soils which was correlated with a higher abundance of fungal quinones, and quinones found in Proteobacteria.", "keywords": ["2. Zero hunger", "quinones", "cadmium", "arsenic", "microbial community composition", "denaturing gradient gel electrophoresis", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "333", "6. Clean water", "enzyme activities", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "0105 earth and related environmental sciences"]}, "links": [{"href": "https://doi.org/10.1016/j.soilbio.2005.10.020"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Soil%20Biology%20and%20Biochemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.soilbio.2005.10.020", "name": "item", "description": "10.1016/j.soilbio.2005.10.020", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.soilbio.2005.10.020"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2006-06-01T00:00:00Z"}}, {"id": "10.1039/d0mt00043d", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:18:49Z", "type": "Journal Article", "created": "2020-05-20", "title": "Biomolecular approaches to understanding metal tolerance and hyperaccumulation in plants", "description": "AbstractTrace metal elements are essential for plant growth but become toxic at high concentrations, while some non-essential elements, such as Cd and As, show toxicity even in traces. Thus, metal homeostasis is tightly regulated in plants. Plant species colonising metalliferous soils have evolved mechanisms to hypertolerate metals and, in rare cases, can hyperaccumulate them in excess amounts in their shoots. The molecular mechanisms of metal hypertolerance and hyperaccumulation are likely derived from alterations in the basic mechanisms involved in general metal homeostasis. Genes involved in metal transport, synthesis of metal chelators and oxidative stress responses are constitutively and highly expressed in metal hypertolerant and hyperaccumulator species. Plant specialized metabolites and cell wall components have been proposed as major players in these mechanisms. In addition, the high intra-specific natural variation of metal hypertolerance and hyperaccumulation suggests that various molecular mechanisms might be involved in the evolution of these traits. To date, the potential of wild plant populations as systems to study metal tolerance and hyperaccumulation has not been fully exploited. The advent of next-generation sequencing (NGS) has enabled the study of non-model species, providing an opportunity to study natural populations and new tolerant and/or hyperaccumulating species, and will provide new insights into metal tolerance and hyperaccumulation. In this review we highlight background knowledge about metal tolerance and hyperaccumulation in plants and the current state-of-the-art techniques to study and identify the underlying mechanisms of metal hypertolerance and hyperaccumulation. We also outline for the reader the importance of the multidisciplinarity of this research field and how the integration of multiomic approaches will benefit facing the future scientific challenges.It is a plausible hypothesis that parallel adaptation events to the same environmental challenge should result in genetic changes of similar or identical effects, depending on the underlying fitness landscapes. However, systematic testing of this is scarce. Here we examine this hypothesis in two closely related plant species,Arabidopsis halleriandArabidopsis arenosa, which co-occur at two calamine metalliferous (M) sites harbouring toxic levels of the heavy metals zinc and cadmium. We conduct individual genome resequencing alongside soil elemental analysis for 64 plants from eight populations on M and non-metalliferous (NM) soils, and identify genomic footprints of selection and local adaptation. Selective sweep and environmental association analyses indicate a modest degree of gene as well as functional network convergence, whereby the proximal molecular factors mediating this convergence mostly differ between site pairs and species. Notably, we observe repeated selection on identical single nucleotide polymorphisms in severalA. hallerigenes at two independently colonized M sites. Our data suggest that species-specific metal handling and other biological features could explain a low degree of convergence between species. The parallel establishment of plant populations on calamine M soils involves convergent evolution, which will probably be more pervasive across sites purposely chosen for maximal similarity in soil composition.
This article is part of the theme issue \uffe2\uff80\uff98Convergent evolution in the genomics era: new insights and directions\uffe2\uff80\uff99.We explored the timing of spring xylogenesis and its potential drivers in homogeneous mature forest stands in a temperate European region. Three species with contrasting leaf development dynamics and wood anatomy were studied: European beech, silver birch and pedunculate oak. Detailed phenological observations of xylogenesis and leaf phenology were performed from summer 2017 until spring 2018. Cambium reactivation (CR) occurred before the buds of oak and birch were swollen, whereas these two phenological phases were concurrent for beech. On the other hand, initial earlywood vessels were fully differentiated (FDIEV) after leaf unfolding for all three species. Timing of CR was correlated to average ring-width of the last 10\uffc2\uffa0years (2008\uffe2\uff80\uff9317), tree diameter and, partially, with tree age. In addition, the timing of FDIEV was correlated to tree age and previous year\uffe2\uff80\uff99s autumn phenology, i.e., timing of wood growth cessation and onset of leaf senescence. Multivariate models could explain up to 68% of the variability of CR and 55% of the variability of FDIEV. In addition to the \uffe2\uff80\uff98species\uffe2\uff80\uff99 factor, the variability could be explained by ca 30% by tree characteristics and previous year\uffe2\uff80\uff99s autumn phenology for both CR and FDIEV. These findings are important to better identify which factors (other than environment) can be driving the onset of the growing season, and highlight the influence of tree growth characteristics and previous year\uffe2\uff80\uff99s phenology on spring wood phenology, wood formation and, potentially, forest production.
", "keywords": ["580", "0106 biological sciences", "Fagus sylvatica", "cambium", "04 agricultural and veterinary sciences", "15. Life on land", "01 natural sciences", "seasonal growth", "Trees", "hardwood species", "[SDE.BE] Environmental Sciences/Biodiversity and Ecology", "Plant Leaves", "Quercus", "Betula pendula", "Fagus", "0401 agriculture", " forestry", " and fisheries", "Seasons", "[SDE.BE]Environmental Sciences/Biodiversity and Ecology", "Quercus robur", "Biology"]}, "links": [{"href": "http://academic.oup.com/treephys/article-pdf/41/7/1161/38861331/tpaa171.pdf"}, {"href": "https://doi.org/10.1093/treephys/tpaa171"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Tree%20Physiology", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1093/treephys/tpaa171", "name": "item", "description": "10.1093/treephys/tpaa171", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1093/treephys/tpaa171"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-12-24T00:00:00Z"}}, {"id": "10.1111/tpj.15544", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:20:27Z", "type": "Journal Article", "created": "2021-10-20", "title": "Constitutively enhanced genome integrity maintenance and direct stress mitigation characterize transcriptome of extreme stress\u2010adapted Arabidopsis halleri", "description": "SUMMARYHeavy metal\uffe2\uff80\uff90rich toxic soils and ordinary soils are both natural habitats of Arabidopsis halleri, a diploid perennial and obligate outcrosser in the sister clade of the genetic model plant Arabidopsis thaliana. The molecular divergence underlying survival in sharply contrasting environments is unknown. Here we comparatively address metal physiology and transcriptomes of A. halleri originating from the most highly heavy metal\uffe2\uff80\uff90contaminated soil in Europe, Ponte Nossa, Italy (Noss), and from non\uffe2\uff80\uff90metalliferous (NM) soils. Plants from Noss exhibit enhanced hypertolerance and attenuated accumulation of cadmium (Cd), and their transcriptomic Cd responsiveness is decreased, compared to plants of NM soil origin. Among the condition\uffe2\uff80\uff90independent transcriptome characteristics of Noss, the most highly overrepresented functional class of \uffe2\uff80\uff98meiotic cell cycle\uffe2\uff80\uff99 comprises 21 transcripts with elevated abundance in vegetative tissues, in particular Argonaute 9 (AGO9) and the synaptonemal complex transverse filament protein\uffe2\uff80\uff90encoding ZYP1a/b. Increased AGO9 transcript levels in Noss are accompanied by decreased long terminal repeat retrotransposon expression. Similar to Noss, plants from other highly metalliferous sites in Poland and Germany share elevated somatic AGO9 transcript levels in comparison to plants originating from NM soils in their respective geographic regions. Transcript levels of Iron\uffe2\uff80\uff90Regulated Transporter 1 (IRT1) are very low and transcript levels of Heavy Metal ATPase 2 (HMA2) are strongly elevated in Noss, which can account for its altered Cd handling. We conclude that in plants adapted to the most extreme abiotic stress, broadly enhanced functions comprise genes with likely roles in somatic genome integrity maintenance, accompanied by few alterations in stress\uffe2\uff80\uff90specific functional networks. The cadmium (Cd) concentration of wood ash (1–30 mg\uffc2\uffb7kg–1) is higher than allowed for agriculture fertilizers (3 mg\uffc2\uffb7kg–1). Therefore, the objectives of this field study were to test if the Cd of wood ash has the potential to affect the coniferous forest humus microflora and if Cd enters the human food chain. These objectives were tested with ash (A) and Cd-spiked ash (ACd, 400 mg Cd\uffc2\uffb7kg–1) at a fertilization rate of 3 t\uffc2\uffb7ha–1. Microbial community structure, respiration, needle litter decomposition, growth rates and Cd tolerance of bacteria, and the bioavailability of Cd were measured. Also, Cd concentrations of humus, soil percolation water, mushrooms, fruits and leaves of berries, and needles were determined. The amount of Cd in the percolation water or bioavailable Cd, measured with a bacterial biosensor, and Cd tolerance of bacteria did not increase, although the ACd treatment increased the amount of humus total and extractable Cd. Only the ACd and not the A treatment caused Cd concentration increment in Lactarius rufus and berries of Empetrum nigrum. In spite of the high Cd concentration of the spiked ash, it did not have harmful effects on humus microorganisms during this 4-year study. Thus, wood ash is safe to use as a fertilizer in forests.
", "keywords": ["13. Climate action", "puutuhka", "0401 agriculture", " forestry", " and fisheries", "04 agricultural and veterinary sciences", "luonto", "15. Life on land", "kadmium", "630", "6. Clean water", "m\u00e4nnikk\u00f6", "620"], "contacts": [{"organization": "Perki\u00f6m\u00e4ki, J., Kiikkil\u00e4, O., Moilanen, M., Issakainen, J., Tervahauta, A., Fritze, H.,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.1139/x03-169"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Canadian%20Journal%20of%20Forest%20Research", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1139/x03-169", "name": "item", "description": "10.1139/x03-169", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1139/x03-169"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2003-12-01T00:00:00Z"}}, {"id": "10.1897/04-036r.1", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:21:24Z", "type": "Journal Article", "created": "2005-03-19", "title": "Toxicity Of Heavy Metals In Soil Assessed With Various Soil Microbial And Plant Growth Assays: As Comparative Study", "description": "AbstractElevated metal concentrations in soils can disturb the soil ecosystem; thus, researcherss rive to identify the most sensitive assay for detection of the early signs of toxicity. The purpose of the present study was to compare eight different ecotoxicological endpoints on the same set of metal-contaminated soils that were collected from seven series of soils sampled during field trials. The endpoints are based on three microbial assays (potential nitrification rate [PNR], substrate-induced respiration [SIR], and basal respiration [BR]) and two plant growth tests, one of which included symbiotic N fixation. The overall sensitivity of the endpoints to detect statistically significant adverse effects ranked as follows: PNR > SIR (lag time) > plant yield and N fixation > SIR (respiration after 24 and 48 h) > BR. The lowest adverse effect concentrations were found with the PNR at 7 mg kg\uffe2\uff88\uff921 of Cd and 107 mg kg\uffe2\uff88\uff921 of Zn. The variability of these endpoints among different uncontaminated soils was additionally assessed on 14 soil samples. That variability showed a strong correlation with sensitivity scores, illustrating that metal-sensitive endpoints have a large natural variability. We question the ecological relevance of highly sensitive microbial assays, because they tend to have a large natural variability. The identification of toxicity in the field requires endpoints that are highly sensitive and that do not vary greatly among soils (i.e., robust); however, no such endpoint was found in the present study. The endpoints that combined average sensitivity and robustness were SIR (lag time), clover yield, and N fixation in clover.
", "keywords": ["Hungary", "Sewage", "04 agricultural and veterinary sciences", "15. Life on land", "6. Clean water", "Zinc", "Nitrogen Fixation", "London", "Lolium", "Soil Pollutants", "0401 agriculture", " forestry", " and fisheries", "Trifolium", "France", "Soil Microbiology", "Cadmium"]}, "links": [{"href": "https://doi.org/10.1897/04-036r.1"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Toxicology%20and%20Chemistry", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1897/04-036r.1", "name": "item", "description": "10.1897/04-036r.1", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1897/04-036r.1"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2005-03-01T00:00:00Z"}}, {"id": "10.2134/jeq2004.0369", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:21:37Z", "type": "Journal Article", "created": "2005-11-08", "title": "Cadmium, Copper, Nickel, And Zinc Availability In A Biosolids-Amended Piedmont Soil Years After Application", "description": "ABSTRACTConcerns over the possible increase in phytoavailability of biosolids\uffe2\uff80\uff90applied trace metals to plants have been raised based on the assumption that decomposition of applied organic matter would increase phytoavailability. The objectives of this study were to assess the effect of time on chemical extractability and concentration of Cd, Cu, Ni, and Zn in plants on plots established by a single application of biosolids with high trace metals content in 1984. Biosolids were applied to 1.5 by 2.3 m confined plots of a Davidson clay loam (clayey, kaolinitic, thermic Rhodic Kandiudults) at 0, 42, 84, 126, 168, and 210 Mg ha\uffe2\uff88\uff921 The highest biosolids application supplied 4.5, 760, 43, and 620 kg ha\uffe2\uff88\uff921 of Cd, Cu, Ni, and Zn, respectively. Radish (Raphanus sativus L.), romaine lettuce (Lactuca sativa L. varlongifolia), and barley (Hordeum vulgare L.) were planted at the site for 3 consecutive years, 17 to 19 yr after biosolids application. Extractable Cd, Cu, Ni, and Zn (as measured by DTPA, CaCl2, and Mehlich\uffe2\uff80\uff901) were determined on 15\uffe2\uff80\uff90cm depth samples from each plot. The DTPA\uffe2\uff80\uff90extractable Cu and Zn decreased by 58 and 42%, respectively, 17 yr after application despite a significant reduction in organic matter content. Biosolids treatments had no significant effect on crop yield. Plant tissue metal concentrations increased with biosolids rate but were within the normal range of these crops. Trace metal concentrations in plants generally correlated well with the concentrations extracted from soil with DTPA, CaCl2, and Mehlich\uffe2\uff80\uff901. Metal concentrations in plant tissue exhibited a plateau response in most cases. The uptake coefficient values generated for the different crops were in agreement with the values set by the Part 503 Rule.
", "keywords": ["2. Zero hunger", "Virginia", "Biological Availability", "Hordeum", "04 agricultural and veterinary sciences", "Pentetic Acid", "15. Life on land", "01 natural sciences", "6. Clean water", "Raphanus", "Refuse Disposal", "Trace Elements", "Calcium Chloride", "Soil", "Zinc", "Nickel", "13. Climate action", "0401 agriculture", " forestry", " and fisheries", "Copper", "Cadmium", "Lactuca", "0105 earth and related environmental sciences"], "contacts": [{"organization": "L. W. Zelazny, Beshr Sukkariyah, Gregory K. Evanylo, Rufus L. Chaney,", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.2134/jeq2004.0369"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Journal%20of%20Environmental%20Quality", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.2134/jeq2004.0369", "name": "item", "description": "10.2134/jeq2004.0369", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.2134/jeq2004.0369"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2005-11-01T00:00:00Z"}}, {"id": "20.500.12123/13911", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:27:45Z", "type": "Journal Article", "created": "2022-08-26", "title": "Phytoextraction of Cu, Cd, Zn and As in four shrubs and trees growing on soil contaminated with mining waste", "description": "Mining activity has degraded large extensions of soil and its waste is composed of metals, anthropogenic chemicals, and sterile rocks. The use of native species in the recovery of polluted soils improves the conditions for the emergence of other species, tending to a process of ecosystem restoration. The objective of this study was to evaluate the bioaccumulation of metal(loid)s in four species of native plants and the effect of their distribution and bioavailability in soil with waste from an abandoned gold mine. Soil samples were taken from two sites in La Planta, San Juan, Argentina: Site 1 and Site 2 (mining waste and reference soil, respectively). In Site 1, vegetative organ samples were taken from Larrea cuneifolia, Bulnesia retama, Plectrocarpa tetracantha, and Prosopis flexuosa. The concentration of metal(loid)s in soil from Site 1 were Zn\u00a0>\u00a0As\u00a0>\u00a0Cu\u00a0>\u00a0Cd, reaching values of 7123, 6516, 240 and 76\u00a0mg\u00a0kg-1, respectively. The contamination indices were among the highest categories of contamination for all four metal(loid)s. The spatial interpolation analysis showed the effect of the vegetation as the lowest concentration of metal(loid)s were found in rhizospheric soil. The maximum concentrations of As, Cu, Cd and Zn found in vegetative organs were 371, 461, 28, and 1331\u00a0mg\u00a0kg-1, respectively. L. cuneifolia and B. retama presented high concentrations of Cu and Zn. The most concentrated metal(loid)s in P. tetracantha and P. flexuosa were Zn, As and Cu. Cd was the least concentrated metal in all four species. The values of BAF and TF were greater than one for all four species. In conclusion, the different phytoextraction capacities and the adaptations to arid environments of these four species are an advantage for future phytoremediation strategies. Their application contributes to the ecological restoration and risk reduction, allowing the recovery of ecosystem services.", "keywords": ["Biodisponibilidad", "Bioavailability", "BIOAVAILABILITY", "01 natural sciences", "Mining", "Trees", "Bioacumulaci\u00f3n", "SOIL POLLUTION", "Soil", "https://purl.org/becyt/ford/1.5", "Metals", " Heavy", "Poluci\u00f3n del Suelo", "Metales", "Soil Pollutants", "https://purl.org/becyt/ford/1", "Ecosystem", "0105 earth and related environmental sciences", "2. Zero hunger", "ABANDONED MINE", "PHYTOREMEDIATION", "BIOACCUMULATION", "15. Life on land", "Bioaccumulation", "6. Clean water", "Phytoremediation", "Zinc", "Biodegradation", " Environmental", "Metals", "13. Climate action", "METAL", "Miner\u00eda", "Fitodecontaminaci\u00f3n", "Gold", "Soil Pollution", "Cadmium", "Environmental Monitoring"]}, "links": [{"href": "https://doi.org/20.500.12123/13911"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Chemosphere", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "20.500.12123/13911", "name": "item", "description": "20.500.12123/13911", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/20.500.12123/13911"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-12-01T00:00:00Z"}}, {"id": "10773/25427", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:27:03Z", "type": "Journal Article", "created": "2018-01-07", "title": "Toxicokinetics of Zn and Cd in the earthworm Eisenia andrei exposed to metal-contaminated soils under different combinations of air temperature and soil moisture content", "description": "This study evaluated how different combinations of air temperature (20\u202f\u00b0C and 25\u202f\u00b0C) and soil moisture content (50% and 30% of the soil water holding capacity, WHC), reflecting realistic climate change scenarios, affect the bioaccumulation kinetics of Zn and Cd in the earthworm Eisenia andrei. Earthworms were exposed for 21\u202fd to two metal-contaminated soils (uptake phase), followed by 21\u202fd incubation in non-contaminated soil (elimination phase). Body Zn and Cd concentrations were checked in time and metal uptake (k1) and elimination (k2) rate constants determined; metal bioaccumulation factor (BAF) was calculated as k1/k2. Earthworms showed extremely fast uptake and elimination of Zn, regardless of the exposure level. Climate conditions had no major impacts on the bioaccumulation kinetics of Zn, although a tendency towards lower k1 and k2 values was observed at 25\u00a0\u00b0C\u00a0+\u00a030% WHC. Earthworm Cd concentrations gradually increased with time upon exposure to metal-contaminated soils, especially at 50% WHC, and remained constant or slowly decreased following transfer to non-contaminated soil. Different combinations of air temperature and soil moisture content changed the bioaccumulation kinetics of Cd, leading to higher k1 and k2 values for earthworms incubated at 25\u00a0\u00b0C\u00a0+\u00a050% WHC and slower Cd kinetics at 25\u00a0\u00b0C\u00a0+\u00a030% WHC. This resulted in greater BAFs for Cd at warmer and drier environments which could imply higher toxicity risks but also of transfer of Cd within the food chain under the current global warming perspective.", "keywords": ["Soil invertebrates", "Bioavailability", "Climate Change", "0211 other engineering and technologies", "02 engineering and technology", "Global Warming", "01 natural sciences", "Soil", "Metals", " Heavy", "SDG 13 - Climate Action", "Climate change", "Animals", "Soil Pollutants", "Oligochaeta", "0105 earth and related environmental sciences", "2. Zero hunger", "Triazines", "Temperature", "Water", "Bioaccumulation", "Mining wastes", "Toxicokinetics", "Zinc", "Heavy metals", "Metals", "13. Climate action", "Environmental Pollution", "Cadmium"]}, "links": [{"href": "https://doi.org/10773/25427"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Chemosphere", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10773/25427", "name": "item", "description": "10773/25427", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10773/25427"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2018-04-01T00:00:00Z"}}, {"id": "10.5281/zenodo.4643557", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:25:20Z", "type": "Dataset", "title": "Cd K-edge XAS spectra of Cd reference compounds relevant to the soil/plant system", "description": "Here we present a library of Cd reference compounds Cd K-edge XAS spectra relevant to soil and plant samples. We reported mu (eV) .txt files for each reference as well as a .pdf file that gives details on the preparation of the references and on the acquisition of the spectra. Additional information can be found in Pons et al., 2021, Environmental Pollution. https://doi.org/10.1016/j.envpol.2021.116897", "keywords": ["XAS spectroscopy", "reference compounds", "13. Climate action", "X-ray absorption spectroscopy", "Cadmium"], "contacts": [{"organization": "Pons, Marie-Laure", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5281/zenodo.4643557"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.4643557", "name": "item", "description": "10.5281/zenodo.4643557", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.4643557"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-03-29T00:00:00Z"}}, {"id": "10.5281/zenodo.4643558", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:25:20Z", "type": "Dataset", "title": "Cd K-edge XAS spectra of Cd reference compounds relevant to the soil/plant system", "description": "Here we present a library of Cd reference compounds Cd K-edge XAS spectra relevant to soil and plant samples. We reported mu (eV) .txt files for each reference as well as a .pdf file that gives details on the preparation of the references and on the acquisition of the spectra. Additional information can be found in Pons et al., 2021, Environmental Pollution. https://doi.org/10.1016/j.envpol.2021.116897", "keywords": ["XAS spectroscopy", "reference compounds", "13. Climate action", "X-ray absorption spectroscopy", "Cadmium"], "contacts": [{"organization": "Pons, Marie-Laure", "roles": ["creator"]}]}, "links": [{"href": "https://doi.org/10.5281/zenodo.4643558"}, {"rel": "self", "type": "application/geo+json", "title": "10.5281/zenodo.4643558", "name": "item", "description": "10.5281/zenodo.4643558", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.5281/zenodo.4643558"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-03-29T00:00:00Z"}}, {"id": "10261/372385", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:26:53Z", "type": "Journal Article", "created": "2021-10-20", "title": "Constitutively enhanced genome integrity maintenance and direct stress mitigation characterize transcriptome of extreme stress\u2010adapted Arabidopsis halleri", "description": "SUMMARYHeavy metal\uffe2\uff80\uff90rich toxic soils and ordinary soils are both natural habitats of Arabidopsis halleri , a diploid perennial and obligate outcrosser in the sister clade of the genetic model plant Arabidopsis thaliana . The molecular divergence underlying survival in sharply contrasting environments is unknown. Here we comparatively address metal physiology and transcriptomes of A. halleri originating from the most highly heavy metal\uffe2\uff80\uff90contaminated soil in Europe, Ponte Nossa, Italy (Noss), and from non\uffe2\uff80\uff90metalliferous (NM) soils. Plants from Noss exhibit enhanced hypertolerance and attenuated accumulation of cadmium (Cd), and their transcriptomic Cd responsiveness is decreased, compared to plants of NM soil origin. Among the condition\uffe2\uff80\uff90independent transcriptome characteristics of Noss, the most highly overrepresented functional class of \uffe2\uff80\uff98meiotic cell cycle\uffe2\uff80\uff99 comprises 21 transcripts with elevated abundance in vegetative tissues, in particular Argonaute 9 ( AGO9 ) and the synaptonemal complex transverse filament protein\uffe2\uff80\uff90encoding ZYP1a/b . Increased AGO9 transcript levels in Noss are accompanied by decreased long terminal repeat retrotransposon expression. Similar to Noss, plants from other highly metalliferous sites in Poland and Germany share elevated somatic AGO9 transcript levels in comparison to plants originating from NM soils in their respective geographic regions. Transcript levels of Iron\uffe2\uff80\uff90Regulated Transporter 1 ( IRT1 ) are very low and transcript levels of Heavy Metal ATPase 2 ( HMA2 ) are strongly elevated in Noss, which can account for its altered Cd handling. We conclude that in plants adapted to the most extreme abiotic stress, broadly enhanced functions comprise genes with likely roles in somatic genome integrity maintenance, accompanied by few alterations in stress\uffe2\uff80\uff90specific functional networks. 2p = 0.76), Co (R2p = 0.77), Cd (R2p = 0.64) and Pb (R2p = 0.65), when using PLSR and RF. SVM produced the best prediction result only for Pb (R2p = 0.57) using the SR spectra. The metals Ni, Co, Cd and Pb can be predicted successfully (good accuracy) from the FR vis-NIR spectra using PLSR for Co, and RF for Ni, Cd, Pb and Cu. Compared to the FR spectrophotometer, improvement in accuracy was obtained for Cd and Co, using the SR spectra when combined with PLSR and RF, respectively. It is concluded that the SR spectrometer can be used successfully for the prediction of Co with RF (R2p = 0.70), while it best predicted Cd with PLSR with an R2p value of 0.67, which is of value for regional survey.", "keywords": ["Spectroscopy", " Near-Infrared", "Support Vector Machine", "RANGE", "Machine", "Machine learning modelling", "learning modelling", "REFLECTANCE SPECTROSCOPY", "CONTAMINATION", "Soil", "Lead", "Soil contamination", "Nickel", "Metals", "Earth and Environmental Sciences", "Soil Pollutants", "Chemometrics", "Cadmium", "Near-infrared spectra"]}, "links": [{"href": "https://doi.org/1854/LU-01GM39KW0F5ENNMCF40YD35GFY"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Science%20of%20The%20Total%20Environment", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "1854/LU-01GM39KW0F5ENNMCF40YD35GFY", "name": "item", "description": "1854/LU-01GM39KW0F5ENNMCF40YD35GFY", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/1854/LU-01GM39KW0F5ENNMCF40YD35GFY"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-10-01T00:00:00Z"}}, {"id": "1854/LU-8720112", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:27:26Z", "type": "Journal Article", "created": "2021-09-09", "title": "Diagnosis of cadmium contamination in urban and suburban soils using visible-to-near-infrared spectroscopy", "description": "Previous studies have mostly focused on using visible-to-near-infrared spectral technique to quantitatively estimate soil cadmium (Cd) content, whereas little attention has been paid to identifying soil Cd contamination from a perspective of spectral classification. Here, we developed a framework to compare the potential of two spectral transformations (i.e., raw reflectance and continuum removal [CR]), three optimization strategies (i.e., full-spectrum, Boruta feature selection, and synthetic minority over-sampling technique [SMOTE]), and three classification algorithms (i.e., partial least squares discriminant analysis, random forest [RF], and support vector machine) for diagnosing soil Cd contamination. A total of 536 soil samples were collected from urban and suburban areas located in Wuhan City, China. Specifically, Boruta and SMOTE strategies were aimed at selecting the most informative predictors and obtaining balanced training datasets, respectively. Results indicated that soils contaminated by Cd induced decrease in spectral reflectance magnitude. Classification models developed after Boruta and SMOTE strategies out-performed to those from full-spectrum. A diagnose model combining CR preprocessing, SMOTE strategy, and RF algorithm achieved the highest validation accuracy for soil Cd (Kappa = 0.74). This study provides a theoretical reference for rapid identification of and monitoring of soil Cd contamination in urban and suburban areas.", "keywords": ["DIFFUSE-REFLECTANCE SPECTROSCOPY", "HUMAN HEALTH", "PREDICTION", "POTENTIALLY TOXIC ELEMENTS", "Boruta algorithm", "01 natural sciences", "Visible-to-near-infrared spectroscopy", "NIR SPECTROSCOPY", "Soil", "ORGANIC-CARBON", "Machine learning", "11. Sustainability", "Soil Pollutants", "Least-Squares Analysis", "0105 earth and related environmental sciences", "Spectroscopy", " Near-Infrared", "RANDOM FOREST", "Urban and suburban soil Cd contamination", "04 agricultural and veterinary sciences", "15. Life on land", "QUANTITATIVE-ANALYSIS", "6. Clean water", "RIVER DELTA", "13. Climate action", "Earth and Environmental Sciences", "Synthetic minority over-sampling technique", "0401 agriculture", " forestry", " and fisheries", "HEAVY-METAL CONCENTRATIONS", "Cadmium"]}, "links": [{"href": "https://doi.org/1854/LU-8720112"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Pollution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "1854/LU-8720112", "name": "item", "description": "1854/LU-8720112", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/1854/LU-8720112"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-12-01T00:00:00Z"}}, {"id": "20.500.11850/345383", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:27:41Z", "type": "Journal Article", "created": "2019-06-03", "title": "Convergent evolution in Arabidopsis halleri and Arabidopsis arenosa on calamine metalliferous soils", "description": "
It is a plausible hypothesis that parallel adaptation events to the same environmental challenge should result in genetic changes of similar or identical effects, depending on the underlying fitness landscapes. However, systematic testing of this is scarce. Here we examine this hypothesis in two closely related plant species, Arabidopsis halleri and Arabidopsis arenosa , which co-occur at two calamine metalliferous (M) sites harbouring toxic levels of the heavy metals zinc and cadmium. We conduct individual genome resequencing alongside soil elemental analysis for 64 plants from eight populations on M and non-metalliferous (NM) soils, and identify genomic footprints of selection and local adaptation. Selective sweep and environmental association analyses indicate a modest degree of gene as well as functional network convergence, whereby the proximal molecular factors mediating this convergence mostly differ between site pairs and species. Notably, we observe repeated selection on identical single nucleotide polymorphisms in several A. halleri genes at two independently colonized M sites. Our data suggest that species-specific metal handling and other biological features could explain a low degree of convergence between species. The parallel establishment of plant populations on calamine M soils involves convergent evolution, which will probably be more pervasive across sites purposely chosen for maximal similarity in soil composition.
This article is part of the theme issue \uffe2\uff80\uff98Convergent evolution in the genomics era: new insights and directions\uffe2\uff80\uff99.Trace metal elements are essential for plant growth but become toxic at high concentrations, while some non-essential elements, such as Cd and As, show toxicity even in traces. Thus, metal homeostasis is tightly regulated in plants. Plant species colonising metalliferous soils have evolved mechanisms to hypertolerate metals and, in rare cases, can hyperaccumulate them in excess amounts in their shoots. The molecular mechanisms of metal hypertolerance and hyperaccumulation are likely derived from alterations in the basic mechanisms involved in general metal homeostasis. Genes involved in metal transport, synthesis of metal chelators and oxidative stress responses are constitutively and highly expressed in metal hypertolerant and hyperaccumulator species. Plant specialized metabolites and cell wall components have been proposed as major players in these mechanisms. In addition, the high intra-specific natural variation of metal hypertolerance and hyperaccumulation suggests that various molecular mechanisms might be involved in the evolution of these traits. To date, the potential of wild plant populations as systems to study metal tolerance and hyperaccumulation has not been fully exploited. The advent of next-generation sequencing (NGS) has enabled the study of non-model species, providing an opportunity to study natural populations and new tolerant and/or hyperaccumulating species, and will provide new insights into metal tolerance and hyperaccumulation. In this review we highlight background knowledge about metal tolerance and hyperaccumulation in plants and the current state-of-the-art techniques to study and identify the underlying mechanisms of metal hypertolerance and hyperaccumulation. We also outline for the reader the importance of the multidisciplinarity of this research field and how the integration of multiomic approaches will benefit facing the future scientific challenges.Heavy metal\uffe2\uff80\uff90rich toxic soils and ordinary soils are both natural habitats of Arabidopsis halleri, a diploid perennial and obligate outcrosser in the sister clade of the genetic model plant Arabidopsis thaliana. The molecular divergence underlying survival in sharply contrasting environments is unknown. Here we comparatively address metal physiology and transcriptomes of A. halleri originating from the most highly heavy metal\uffe2\uff80\uff90contaminated soil in Europe, Ponte Nossa, Italy (Noss), and from non\uffe2\uff80\uff90metalliferous (NM) soils. Plants from Noss exhibit enhanced hypertolerance and attenuated accumulation of cadmium (Cd), and their transcriptomic Cd responsiveness is decreased, compared to plants of NM soil origin. Among the condition\uffe2\uff80\uff90independent transcriptome characteristics of Noss, the most highly overrepresented functional class of \uffe2\uff80\uff98meiotic cell cycle\uffe2\uff80\uff99 comprises 21 transcripts with elevated abundance in vegetative tissues, in particular Argonaute 9 (AGO9) and the synaptonemal complex transverse filament protein\uffe2\uff80\uff90encoding ZYP1a/b. Increased AGO9 transcript levels in Noss are accompanied by decreased long terminal repeat retrotransposon expression. Similar to Noss, plants from other highly metalliferous sites in Poland and Germany share elevated somatic AGO9 transcript levels in comparison to plants originating from NM soils in their respective geographic regions. Transcript levels of Iron\uffe2\uff80\uff90Regulated Transporter 1 (IRT1) are very low and transcript levels of Heavy Metal ATPase 2 (HMA2) are strongly elevated in Noss, which can account for its altered Cd handling. We conclude that in plants adapted to the most extreme abiotic stress, broadly enhanced functions comprise genes with likely roles in somatic genome integrity maintenance, accompanied by few alterations in stress\uffe2\uff80\uff90specific functional networks.50% for S.\u00a0nigrum). We suggest that Cd is partly complexed by organic acids for transportation in the sap.", "keywords": ["[SDE] Environmental Sciences", "0106 biological sciences", "570", "[CHIM.ANAL] Chemical Sciences/Analytical chemistry", "http://aims.fao.org/aos/agrovoc/c_28566", "cadmium", "http://aims.fao.org/aos/agrovoc/c_2219", "Speciation", "Plant Roots", "01 natural sciences", "[SDV.BV.BOT] Life Sciences [q-bio]/Vegetal Biology/Botanics", "d\u00e9toxification", "[SDU.STU.GC] Sciences of the Universe [physics]/Earth Sciences/Geochemistry", "[SDE.ES] Environmental Sciences/Environment and Society", "Soil Pollutants", "http://aims.fao.org/aos/agrovoc/c_32389", "Solanum melongena", "http://aims.fao.org/aos/agrovoc/c_5383", "Solanaceae", "Solanum nigrum", "0105 earth and related environmental sciences", "580", "Toxicity", "thiol", "X-Ray absorption spectroscopy", "[SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics", "3. Good health", "http://aims.fao.org/aos/agrovoc/c_7731", "bioaccumulation", "Biodegradation", " Environmental", "X-Ray Absorption Spectroscopy", "acide organique", "13. Climate action", "http://aims.fao.org/aos/agrovoc/c_7218", "[SDE]Environmental Sciences", "http://aims.fao.org/aos/agrovoc/c_32250", "[SDU.STU] Sciences of the Universe [physics]/Earth Sciences", "spectroscopie aux rayons x", "H50 - Troubles divers des plantes", "P02 - Pollution", "http://aims.fao.org/aos/agrovoc/c_1178", "Sulfur", "Cadmium"]}, "links": [{"href": "https://doi.org/3137244153"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Pollution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "3137244153", "name": "item", "description": "3137244153", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/3137244153"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-01-01T00:00:00Z"}}, {"id": "33774364", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:28:53Z", "type": "Journal Article", "created": "2021-03-13", "title": "X-ray absorption spectroscopy evidence of sulfur-bound cadmium in the Cd-hyperaccumulator Solanum nigrum and the non-accumulator Solanum melongena", "description": "It has been proposed that non-protein thiols and organic acids play a major role in cadmium phytoavailability and distribution in plants. In the Cd-hyperaccumulator Solanum nigrum and non-accumulator Solanum melongena, the role of these organic ligands in the accumulation and detoxification mechanisms of Cd are debated. In this study, we used X-ray absorption spectroscopy to investigate Cd speciation in these plants (roots, stem, leaves) and in the soils used for their culture to unravel the plants responses to Cd exposure. The results show that Cd in the 100\u00a0mg\u00a0kg-1 Cd-doped clayey loam soil is sorbed onto iron oxyhydroxides. In both S.\u00a0nigrum and S.\u00a0melongena, Cd in roots and fresh leaves is mainly bound to thiol ligands, with a small contribution of inorganic S ligands in S.\u00a0nigrum leaves. We interpret the Cd binding to sulfur ligands as detoxification mechanisms, possibly involving the sequestration of Cd complexed with glutathione or phytochelatins in the plant vacuoles. In the stems, results show an increase binding of Cd to -O ligands (>50% for S.\u00a0nigrum). We suggest that Cd is partly complexed by organic acids for transportation in the sap.", "keywords": ["[SDE] Environmental Sciences", "0106 biological sciences", "570", "[CHIM.ANAL] Chemical Sciences/Analytical chemistry", "http://aims.fao.org/aos/agrovoc/c_28566", "cadmium", "http://aims.fao.org/aos/agrovoc/c_2219", "Speciation", "Plant Roots", "01 natural sciences", "[SDV.BV.BOT] Life Sciences [q-bio]/Vegetal Biology/Botanics", "d\u00e9toxification", "[SDU.STU.GC] Sciences of the Universe [physics]/Earth Sciences/Geochemistry", "[SDE.ES] Environmental Sciences/Environment and Society", "Soil Pollutants", "http://aims.fao.org/aos/agrovoc/c_32389", "Solanum melongena", "http://aims.fao.org/aos/agrovoc/c_5383", "Solanaceae", "Solanum nigrum", "0105 earth and related environmental sciences", "580", "Toxicity", "thiol", "X-Ray absorption spectroscopy", "[SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics", "3. Good health", "http://aims.fao.org/aos/agrovoc/c_7731", "bioaccumulation", "Biodegradation", " Environmental", "X-Ray Absorption Spectroscopy", "acide organique", "13. Climate action", "http://aims.fao.org/aos/agrovoc/c_7218", "[SDE]Environmental Sciences", "http://aims.fao.org/aos/agrovoc/c_32250", "[SDU.STU] Sciences of the Universe [physics]/Earth Sciences", "spectroscopie aux rayons x", "H50 - Troubles divers des plantes", "P02 - Pollution", "http://aims.fao.org/aos/agrovoc/c_1178", "Sulfur", "Cadmium"]}, "links": [{"href": "https://doi.org/33774364"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Environmental%20Pollution", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "33774364", "name": "item", "description": "33774364", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/33774364"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2021-01-01T00:00:00Z"}}, {"id": "32432639", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-03T16:28:48Z", "type": "Journal Article", "created": "2020-05-20", "title": "Biomolecular approaches to understanding metal tolerance and hyperaccumulation in plants", "description": "Abstract
Trace metal elements are essential for plant growth but become toxic at high concentrations, while some non-essential elements, such as Cd and As, show toxicity even in traces. Thus, metal homeostasis is tightly regulated in plants. Plant species colonising metalliferous soils have evolved mechanisms to hypertolerate metals and, in rare cases, can hyperaccumulate them in excess amounts in their shoots. The molecular mechanisms of metal hypertolerance and hyperaccumulation are likely derived from alterations in the basic mechanisms involved in general metal homeostasis. Genes involved in metal transport, synthesis of metal chelators and oxidative stress responses are constitutively and highly expressed in metal hypertolerant and hyperaccumulator species. Plant specialized metabolites and cell wall components have been proposed as major players in these mechanisms. In addition, the high intra-specific natural variation of metal hypertolerance and hyperaccumulation suggests that various molecular mechanisms might be involved in the evolution of these traits. To date, the potential of wild plant populations as systems to study metal tolerance and hyperaccumulation has not been fully exploited. The advent of next-generation sequencing (NGS) has enabled the study of non-model species, providing an opportunity to study natural populations and new tolerant and/or hyperaccumulating species, and will provide new insights into metal tolerance and hyperaccumulation. In this review we highlight background knowledge about metal tolerance and hyperaccumulation in plants and the current state-of-the-art techniques to study and identify the underlying mechanisms of metal hypertolerance and hyperaccumulation. We also outline for the reader the importance of the multidisciplinarity of this research field and how the integration of multiomic approaches will benefit facing the future scientific challenges.