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Zarco-Tejada PJ, Poblete T, Camino C, Gonzalez-Dugo V, Calderon R, Hornero A, Hernandez-Clemente R, Román-Écija M, Velasco-Amo MP, Landa BB, Beck PSA, Saponari M, Boscia D, Navas-Cortes JA. Divergent abiotic spectral pathways unravel pathogen stress signals across species. Nat Commun 2021; 12:6088. [PMID: 34667165 PMCID: PMC8526582 DOI: 10.1038/s41467-021-26335-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2021] [Accepted: 10/01/2021] [Indexed: 11/30/2022] Open
Abstract
Plant pathogens pose increasing threats to global food security, causing yield losses that exceed 30% in food-deficit regions. Xylella fastidiosa (Xf) represents the major transboundary plant pest and one of the world's most damaging pathogens in terms of socioeconomic impact. Spectral screening methods are critical to detect non-visual symptoms of early infection and prevent spread. However, the subtle pathogen-induced physiological alterations that are spectrally detectable are entangled with the dynamics of abiotic stresses. Here, using airborne spectroscopy and thermal scanning of areas covering more than one million trees of different species, infections and water stress levels, we reveal the existence of divergent pathogen- and host-specific spectral pathways that can disentangle biotic-induced symptoms. We demonstrate that uncoupling this biotic-abiotic spectral dynamics diminishes the uncertainty in the Xf detection to below 6% across different hosts. Assessing these deviating pathways against another harmful vascular pathogen that produces analogous symptoms, Verticillium dahliae, the divergent routes remained pathogen- and host-specific, revealing detection accuracies exceeding 92% across pathosystems. These urgently needed hyperspectral methods advance early detection of devastating pathogens to reduce the billions in crop losses worldwide.
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Affiliation(s)
- P J Zarco-Tejada
- School of Agriculture and Food (SAF-FVAS) and Faculty of Engineering and Information Technology (IE-FEIT), University of Melbourne, Melbourne, VIC, Australia.
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avda. Menéndez Pidal s/n, 14004, Córdoba, Spain.
| | - T Poblete
- School of Agriculture and Food (SAF-FVAS) and Faculty of Engineering and Information Technology (IE-FEIT), University of Melbourne, Melbourne, VIC, Australia
| | - C Camino
- European Commission, Joint Research Centre (JRC), Ispra, Italy
| | - V Gonzalez-Dugo
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avda. Menéndez Pidal s/n, 14004, Córdoba, Spain
| | - R Calderon
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell AgriTech, Cornell University, Geneva, NY, USA
| | - A Hornero
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avda. Menéndez Pidal s/n, 14004, Córdoba, Spain
- Department of Geography, Swansea University, Swansea, SA2 8PP, UK
| | | | - M Román-Écija
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avda. Menéndez Pidal s/n, 14004, Córdoba, Spain
| | - M P Velasco-Amo
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avda. Menéndez Pidal s/n, 14004, Córdoba, Spain
| | - B B Landa
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avda. Menéndez Pidal s/n, 14004, Córdoba, Spain
| | - P S A Beck
- European Commission, Joint Research Centre (JRC), Ispra, Italy
| | - M Saponari
- CNR, Istituto per la Protezione Sostenibile delle Piante, Bari, Italy
| | - D Boscia
- CNR, Istituto per la Protezione Sostenibile delle Piante, Bari, Italy
| | - J A Navas-Cortes
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avda. Menéndez Pidal s/n, 14004, Córdoba, Spain
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Mérida-García R, Liu G, He S, Gonzalez-Dugo V, Dorado G, Gálvez S, Solís I, Zarco-Tejada PJ, Reif JC, Hernandez P. Genetic dissection of agronomic and quality traits based on association mapping and genomic selection approaches in durum wheat grown in Southern Spain. PLoS One 2019; 14:e0211718. [PMID: 30811415 PMCID: PMC6392243 DOI: 10.1371/journal.pone.0211718] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2018] [Accepted: 01/19/2019] [Indexed: 01/12/2023] Open
Abstract
Climatic conditions affect the growth, development and final crop production. As wheat is of paramount importance as a staple crop in the human diet, there is a growing need to study its abiotic stress adaptation through the performance of key breeding traits. New and complementary approaches, such as genome-wide association studies (GWAS) and genomic selection (GS), are used for the dissection of different agronomic traits. The present study focused on the dissection of agronomic and quality traits of interest (initial agronomic score, yield, gluten index, sedimentation index, specific weight, whole grain protein and yellow colour) assessed in a panel of 179 durum wheat lines (Triticum durum Desf.), grown under rainfed conditions in different Mediterranean environments in Southern Spain (Andalusia). The findings show a total of 37 marker-trait associations (MTAs) which affect phenotype expression for three quality traits (specific weight, gluten and sedimentation indexes). MTAs could be mapped on the A and B durum wheat subgenomes (on chromosomes 1A, 1B, 2A, 2B and 3A) through the recently available bread wheat reference assembly (IWGSC RefSeqv1). Two of the MTAs found for quality traits (gluten index and SDS) corresponded to the known Glu-B1 and Glu-A1 loci, for which candidate genes corresponding to high molecular weight glutenin subunits could be located. The GS prediction ability values obtained from the breeding materials analyzed showed promising results for traits as grain protein content, sedimentation and gluten indexes, which can be used in plant breeding programs.
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Affiliation(s)
- Rosa Mérida-García
- Instituto de Agricultura Sostenible (IAS) Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, Córdoba, Spain
| | - Guozheng Liu
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstraße 3, Stadt Seeland, Germany
| | - Sang He
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstraße 3, Stadt Seeland, Germany
| | - Victoria Gonzalez-Dugo
- Instituto de Agricultura Sostenible (IAS) Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, Córdoba, Spain
| | - Gabriel Dorado
- Departamento de Bioquímica y Biología Molecular, Campus Rabanales C6-1-E17, Campus de Excelencia Internacional Agroalimentario (ceiA3), Universidad de Córdoba, Córdoba, Spain
| | - Sergio Gálvez
- Universidad de Málaga, Andalucía Tech, ETSI Informática, Campus de Teatinos s/n, Málaga, Spain
| | - Ignacio Solís
- ETSIA (University of Seville), Ctra de Utrera km1, Seville, Spain
| | - Pablo J. Zarco-Tejada
- Instituto de Agricultura Sostenible (IAS) Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, Córdoba, Spain
| | - Jochen C. Reif
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstraße 3, Stadt Seeland, Germany
| | - Pilar Hernandez
- Instituto de Agricultura Sostenible (IAS) Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, Córdoba, Spain
- * E-mail:
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3
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Gálvez S, Mérida-García R, Camino C, Borrill P, Abrouk M, Ramírez-González RH, Biyiklioglu S, Amil-Ruiz F, Dorado G, Budak H, Gonzalez-Dugo V, Zarco-Tejada PJ, Appels R, Uauy C, Hernandez P. Hotspots in the genomic architecture of field drought responses in wheat as breeding targets. Funct Integr Genomics 2018; 19:295-309. [PMID: 30446876 PMCID: PMC6394720 DOI: 10.1007/s10142-018-0639-3] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2018] [Accepted: 10/01/2018] [Indexed: 12/21/2022]
Abstract
Wheat can adapt to most agricultural conditions across temperate regions. This success is the result of phenotypic plasticity conferred by a large and complex genome composed of three homoeologous genomes (A, B, and D). Although drought is a major cause of yield and quality loss in wheat, the adaptive mechanisms and gene networks underlying drought responses in the field remain largely unknown. Here, we addressed this by utilizing an interdisciplinary approach involving field water status phenotyping, sampling, and gene expression analyses. Overall, changes at the transcriptional level were reflected in plant spectral traits amenable to field-level physiological measurements, although changes in photosynthesis-related pathways were found likely to be under more complex post-transcriptional control. Examining homoeologous genes with a 1:1:1 relationship across the A, B, and D genomes (triads), we revealed a complex genomic architecture for drought responses under field conditions, involving gene homoeolog specialization, multiple gene clusters, gene families, miRNAs, and transcription factors coordinating these responses. Our results provide a new focus for genomics-assisted breeding of drought-tolerant wheat cultivars.
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Affiliation(s)
- Sergio Gálvez
- Departamento de Lenguajes y Ciencias de la Computación, ETSI Informática, Campus de Teatinos, Universidad de Málaga, 29071, Málaga, Spain.
| | - Rosa Mérida-García
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, 14004, Córdoba, Spain
| | - Carlos Camino
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, 14004, Córdoba, Spain
| | | | - Michael Abrouk
- Institute of Experimental Botany, Centre of Plant Structural and Functional Genomics, CZ-78371, Olomouc, Czech Republic
- Biological and Environmental Science & Engineering Division, King Abdullah University of Science and Technology, Thuwal, 23955-6900, Kingdom of Saudi Arabia
| | | | - Sezgi Biyiklioglu
- Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, MT, 59717-3150, USA
| | - Francisco Amil-Ruiz
- Bioinformatics Unit, SCAI, Campus Rabanales, University of Córdoba, 14014, Córdoba, Spain
| | - Gabriel Dorado
- Departamento de Bioquímica y Biología Molecular, Campus de Excelencia Internacional Agroalimentario (ceiA3), Universidad de Córdoba, Campus Rabanales C6-1-E17, 14071, Córdoba, Spain
| | - Hikmet Budak
- Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, MT, 59717-3150, USA
| | - Victoria Gonzalez-Dugo
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, 14004, Córdoba, Spain
| | - Pablo J Zarco-Tejada
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, 14004, Córdoba, Spain.
| | - Rudi Appels
- Veterinary and Agricultural Sciences, University of Melbourne, Gratten St, Parkville, Victoria, 3010, Australia
- Department of Economic Development, AgriBio, Centre for AgriBioscience, Jobs, Transport and Resources, La Trobe University, 5 Ring Rd, Bundoora, Victoria, 3083, Australia
| | - Cristobal Uauy
- John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK.
| | - Pilar Hernandez
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo s/n, 14004, Córdoba, Spain.
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Zarco-Tejada PJ, Camino C, Beck PSA, Calderon R, Hornero A, Hernández-Clemente R, Kattenborn T, Montes-Borrego M, Susca L, Morelli M, Gonzalez-Dugo V, North PRJ, Landa BB, Boscia D, Saponari M, Navas-Cortes JA. Previsual symptoms of Xylella fastidiosa infection revealed in spectral plant-trait alterations. Nat Plants 2018; 4:432-439. [PMID: 29942047 DOI: 10.1038/s41477-018-0189-7] [Citation(s) in RCA: 48] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2017] [Accepted: 05/29/2018] [Indexed: 05/24/2023]
Abstract
Plant pathogens cause significant losses to agricultural yields and increasingly threaten food security1, ecosystem integrity and societies in general2-5. Xylella fastidiosa is one of the most dangerous plant bacteria worldwide, causing several diseases with profound impacts on agriculture and the environment6. Primarily occurring in the Americas, its recent discovery in Asia and Europe demonstrates that X. fastidiosa's geographic range has broadened considerably, positioning it as a reemerging global threat that has caused socioeconomic and cultural damage7,8. X. fastidiosa can infect more than 350 plant species worldwide9, and early detection is critical for its eradication8. In this article, we show that changes in plant functional traits retrieved from airborne imaging spectroscopy and thermography can reveal X. fastidiosa infection in olive trees before symptoms are visible. We obtained accuracies of disease detection, confirmed by quantitative polymerase chain reaction, exceeding 80% when high-resolution fluorescence quantified by three-dimensional simulations and thermal stress indicators were coupled with photosynthetic traits sensitive to rapid pigment dynamics and degradation. Moreover, we found that the visually asymptomatic trees originally scored as affected by spectral plant-trait alterations, developed X. fastidiosa symptoms at almost double the rate of the asymptomatic trees classified as not affected by remote sensing. We demonstrate that spectral plant-trait alterations caused by X. fastidiosa infection are detectable previsually at the landscape scale, a critical requirement to help eradicate some of the most devastating plant diseases worldwide.
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Affiliation(s)
- P J Zarco-Tejada
- European Commission, Joint Research Centre, Directorate D-Sustainable Resources, Ispra, Italy.
| | - C Camino
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas, Córdoba, Spain
| | - P S A Beck
- European Commission, Joint Research Centre, Directorate D-Sustainable Resources, Ispra, Italy
| | - R Calderon
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas, Córdoba, Spain
| | - A Hornero
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas, Córdoba, Spain
- Department of Geography, Swansea University, Swansea, UK
| | | | - T Kattenborn
- Institute of Geography and Geoecology, Karlsruhe Institute of Technology , Karlsruhe, Germany
| | - M Montes-Borrego
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas, Córdoba, Spain
| | - L Susca
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti dell'Università di Bari, Bari, Italy
| | - M Morelli
- CNR, Istituto per la Protezione Sostenibile delle Piante, Bari, Italy
| | - V Gonzalez-Dugo
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas, Córdoba, Spain
| | - P R J North
- Department of Geography, Swansea University, Swansea, UK
| | - B B Landa
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas, Córdoba, Spain
| | - D Boscia
- CNR, Istituto per la Protezione Sostenibile delle Piante, Bari, Italy
| | - M Saponari
- CNR, Istituto per la Protezione Sostenibile delle Piante, Bari, Italy
| | - J A Navas-Cortes
- Instituto de Agricultura Sostenible, Consejo Superior de Investigaciones Científicas, Córdoba, Spain
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Fereres E, Orgaz F, Gonzalez-Dugo V, Testi L, Villalobos FJ. Balancing crop yield and water productivity tradeoffs in herbaceous and woody crops. Funct Plant Biol 2014; 41:1009-1018. [PMID: 32481054 DOI: 10.1071/fp14042] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2014] [Accepted: 05/26/2014] [Indexed: 06/11/2023]
Abstract
The links between water and crop yield are well known. In agricultural systems, maximum yield and maximum water productivity (WP; yield divided by water use) are not always compatible goals. In water-limited situations, optimal solutions must be reached by finding a compromise between the levels of crop production and WP. The tradeoffs between production and WP are reviewed here and the dominant effects of the environment on WP are examined. Genetic improvement for WP generally has yield tradeoffs, whereas management measures devised to improve WP also enhance yield. It is shown that partial closure of the stomata in response to environmental stimuli has a variable impact on canopy transpiration, depending on the degree of coupling between the canopy and the atmosphere. In contrast to the behaviour of the major herbaceous crops, WP increases in some woody crops in response to water stress, suggesting that biomass and transpiration are not linearly related, and that deficit irrigation should be successful in these species. Avoiding high evaporative demand periods (e.g. through tolerance to low temperatures) is an important option that aims to increase production and WP. A case study is presented for improving sunflower (Helianthus annuus L.) yield and WP in temperate environments.
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Affiliation(s)
- Elías Fereres
- Institute for Sustainable Agriculture, Scientific Research Council of Spain (CSIC), Alameda del Obispo, 14004 Cordoba, Spain
| | - Francisco Orgaz
- Institute for Sustainable Agriculture, Scientific Research Council of Spain (CSIC), Alameda del Obispo, 14004 Cordoba, Spain
| | - Victoria Gonzalez-Dugo
- Institute for Sustainable Agriculture, Scientific Research Council of Spain (CSIC), Alameda del Obispo, 14004 Cordoba, Spain
| | - Luca Testi
- Institute for Sustainable Agriculture, Scientific Research Council of Spain (CSIC), Alameda del Obispo, 14004 Cordoba, Spain
| | - Francisco J Villalobos
- Institute for Sustainable Agriculture, Scientific Research Council of Spain (CSIC), Alameda del Obispo, 14004 Cordoba, Spain
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Abstract
Forecasts on population growth and economic development indicate that there will be substantial increases in food demand for the forthcoming decades. We focus here on the water requirements of food production, on the issue of whether there would be enough water to produce sufficient food in the future, and we offer options to face this challenge based on recent trends observed in some agricultural systems. Given the competition for water faced by the agricultural sector, and the uncertainties associated with climate change, improving the efficiency of water use in both rain-fed and irrigated systems is the main avenue to face the challenge. In rain-fed agriculture, managing the risk associated with rainfall variability is a promising option to increase productivity. In irrigated systems, a case study on the improvements in water productivity in Andalusia, Spain, is used to illustrate some of the opportunities to make progress. Progress in reducing irrigation water use in recent decades has been substantial, but decreasing the consumptive use of crops is a much more difficult challenge. The need for more research and technology transfer on improving water-limited crop production is highlighted, and emphasis is placed on interdisciplinary approaches to gain the insight needed to achieve new breakthroughs that would help in tackling this complex problem.
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Affiliation(s)
- Elías Fereres
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Alameda del Obispo, s/n 14004, Cordoba, Spain.
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Gonzalez-Dugo V. The influence of arbuscular mycorrhizal colonization on soil-root hydraulic conductance in Agrostis stolonifera L. under two water regimes. Mycorrhiza 2010; 20:365-373. [PMID: 20049617 DOI: 10.1007/s00572-009-0294-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2009] [Accepted: 12/14/2009] [Indexed: 05/28/2023]
Abstract
The hypothesis that mycorrhizal colonization improves the soil-root conductance in plants was experimentally tested in a growth chamber using pot cultures of Agrostis stolonifera L. colonized by Glomus intraradices. Plants were grown in 50-l pots filled with autoclaved sand/silt soil (1:1), with and without the mycorrhizal fungus. Within the mycorrhizal treatment, half of the pots remained well watered, while the other half was subjected to a progressive water deficit. Soil water potential (estimated as plant water potential measured at the end of the dark period), xylem water potential measured at the tiller base, transpiration rate, and soil water content were monitored throughout the experiment. Soil-root hydraulic conductance was estimated as the ratio between the instantaneous transpiration rate and the soil and xylem water potential difference. To obtain cultures with similar nutritional status, the P in the modified Hoagland's nutrient solution was withheld from the inoculated pots and applied only once a month. Even though there were no differences on growth or nutrient status for the mycorrhizal treatments, water transport was enhanced by the inoculum presence. Transpiration rate was maintained at lower xylem water potential values in the presence of mycorrhizae. The analysis of the relationship between soil-root hydraulic resistance and soil water content showed that mycorrhizal colonization increased soil-root hydraulic conductance as the soil dried. For these growing conditions, this effect was ascribed to the range of 6-10%.
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Gonzalez-Dugo V, Durand JL, Gastal F, Picon-Cochard C. Short-term response of the nitrogen nutrition status of tall fescue and Italian ryegrass swards under water deficit. ACTA ACUST UNITED AC 2005. [DOI: 10.1071/ar05064] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Grasslands are rarely irrigated, thus water deficits often induce a reduction of the nitrogen nutrition index (NNI) during summer. This is measured using the ratio between the actual N concentration and the minimum N concentration required to achieve the maximum growth rate. NNI is derived from the standing biomass by a simple relationship. This paper details the results of a field experiment, combining 2 levels of irrigation with 2 levels of nitrogen fertilisation during the summer, on 2 commonly cultivated grass species in pure swards (tall fescue, Festuca arundinacea L., and Italian ryegrass, Lolium multiflorum). Plant water status, NNI, root length density (RLD), soil volumetric water content (θv), and mineral nitrogen concentration [N] were followed under water deficit and recovery. In both species, RLD was high (>6 cm/cm3) in the 0–0.25 m soil layer. Whereas the NNI of tall fescue responded strongly to its water status, Italian ryegrass was most often above optimal nitrogen nutrition because of its slow growth in that particular season and its higher superficial RLD. However, its NNI generally followed the θv closely, whereas tall fescue exhibited a delay in response of NNI upon rewatering, suggesting lasting effects of water deficits on the absorption capacity of roots in that species.
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