1
|
Zotti M. Checklist of Macrofungi Associated with Nine Different Habitats of Taburno-Camposauro Massif in Campania, Southern Italy. J Fungi (Basel) 2024; 10:275. [PMID: 38667946 PMCID: PMC11050982 DOI: 10.3390/jof10040275] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2024] [Revised: 03/25/2024] [Accepted: 04/03/2024] [Indexed: 04/28/2024] Open
Abstract
The checklist serves as an informative method for evaluating the diversity, geography, and ecology of established and reproducing macrofungi. Additionally, considering macrofungi as bioindicator species, their census should be incorporated into efforts to monitor the state of health of ecosystems and directly applied to conservation policies. Between 2019 and 2023, a census of macrofungal species was conducted in Taburno-Camposauro Regional Park (Campania, Italy) across nine distinct habitats. A total of 453 fungal taxa were identified, including several new records for the Campania region. The fungal diversity exhibited significant variations based on the dominant plant species in each habitat. Fagacean tree species and Carpinus spp. shared similar fungal communities. Equally, coniferous tree species displayed a comparable fungal composition. In Abies alba and mixed broad-leaved forests, low levels of ectomycorrhizal taxa were observed alongside a concurrent increase in saprotrophs, indicating a disturbed habitat and a reduction in the Gadgil effect. Notably, lower fungal diversity was documented in the grassland habitat, suggesting the potential implications of wildlife imbalance and excessive grazing. The provided checklist constitutes a valuable resource for local management authorities, providing insights to formulate specific management policies.
Collapse
Affiliation(s)
- Maurizio Zotti
- Department of Agricultural Sciences, University of Naples Federico II, Via Università, 100, 80055 Portici, Italy
| |
Collapse
|
2
|
Idbella M, Bonanomi G, De Filippis F, Foscari A, Zotti M, Abd-ElGawad AM, Fechtali T, Incerti G, Mazzoleni S. Negative plant-soil feedback in Arabidopsis thaliana: Disentangling the effects of soil chemistry, microbiome, and extracellular self-DNA. Microbiol Res 2024; 281:127634. [PMID: 38308902 DOI: 10.1016/j.micres.2024.127634] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Revised: 01/20/2024] [Accepted: 01/29/2024] [Indexed: 02/05/2024]
Abstract
Nutrient deficiency, natural enemies and litter autotoxicity have been proposed as possible mechanisms to explain species-specific negative plant-soil feedback (PSF). Another potential contributor to negative PSF is the plant released extracellular self-DNA during litter decay. In this study, we sought to comprehensively investigate these hypotheses by using Arabidopsis thaliana (L.) Heynh as a model plant in a feedback experiment. The experiment comprised a conditioning phase and a response phase in which the conditioned soils underwent four treatments: (i) addition of activated carbon, (ii) washing with tap water, (iii) sterilization by autoclaving, and (iv) control without any treatment. We evaluated soil chemical properties, microbiota by shotgun sequencing and the amount of A. thaliana extracellular DNA in the differently treated soils. Our results showed that washing and sterilization treatments mitigated the negative PSF effect. While shifts in soil chemical properties were not pronounced, significant changes in soil microbiota were observed, especially after sterilization. Notably, plant biomass was inversely associated with the content of plant self-DNA in the soil. Our results suggest that the negative PSF observed in the conditioned soil was associated to increased amounts of soilborne pathogens and plant self-DNA. However, fungal pathogens were not limited to negative conditions, butalso found in soils enhancing A.thaliana growth. In-depth multivariate analysis highlights that the hypothesis of negative PSF driven solely by pathogens lacks consistency. Instead, we propose a multifactorial explanation for the negative PSF buildup, in which the accumulation of self-DNA weakens the plant's root system, making it more susceptible to pathogens.
Collapse
Affiliation(s)
- Mohamed Idbella
- Department of Agricultural Sciences, University of Federico II, Via Università 100, 80055, Portici, Italy; Southwest Florida Research and Education Center, Department of Soil, Water, and Ecosystem Sciences, Institute of Food and Agricultural Sciences, University of Florida, 2685 State Rd 29N, Immokalee, FL 34142, USA
| | - Giuliano Bonanomi
- Department of Agricultural Sciences, University of Federico II, Via Università 100, 80055, Portici, Italy; Task Force on Microbiome Studies, University of Federico II, Naples, Italy
| | - Francesca De Filippis
- Department of Agricultural Sciences, University of Federico II, Via Università 100, 80055, Portici, Italy; Task Force on Microbiome Studies, University of Federico II, Naples, Italy
| | | | - Maurizio Zotti
- Department of Agricultural Sciences, University of Federico II, Via Università 100, 80055, Portici, Italy
| | - Ahmed M Abd-ElGawad
- Plant Production Department, College of Food & Agriculture Sciences, King Saud University, P.O. Box 2460 Riyadh 11451, Saudi Arabia
| | - Taoufiq Fechtali
- Laboratory of Biosciences, Faculty of Sciences and Techniques, Hassan II University, Casablanca, Morocco
| | - Guido Incerti
- Department of Agri-Food, Animal and Environmental Sciences, University of Udine, Italy
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Federico II, Via Università 100, 80055, Portici, Italy; Task Force on Microbiome Studies, University of Federico II, Naples, Italy.
| |
Collapse
|
3
|
Delory BM, Callaway RM, Semchenko M. A trait-based framework linking the soil metabolome to plant-soil feedbacks. THE NEW PHYTOLOGIST 2024; 241:1910-1921. [PMID: 38124274 DOI: 10.1111/nph.19490] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2023] [Accepted: 11/30/2023] [Indexed: 12/23/2023]
Abstract
By modifying the biotic and abiotic properties of the soil, plants create soil legacies that can affect vegetation dynamics through plant-soil feedbacks (PSF). PSF are generally attributed to reciprocal effects of plants and soil biota, but these interactions can also drive changes in the identity, diversity and abundance of soil metabolites, leading to more or less persistent soil chemical legacies whose role in mediating PSF has rarely been considered. These chemical legacies may interact with microbial or nutrient legacies to affect species coexistence. Given the ecological importance of chemical interactions between plants and other organisms, a better understanding of soil chemical legacies is needed in community ecology. In this Viewpoint, we aim to: highlight the importance of belowground chemical interactions for PSF; define and integrate soil chemical legacies into PSF research by clarifying how the soil metabolome can contribute to PSF; discuss how functional traits can help predict these plant-soil interactions; propose an experimental approach to quantify plant responses to the soil solution metabolome; and describe a testable framework relying on root economics and seed dispersal traits to predict how plant species affect the soil metabolome and how they could respond to soil chemical legacies.
Collapse
Affiliation(s)
- Benjamin M Delory
- Institute of Ecology, Leuphana University of Lüneburg, Lüneburg, 21335, Germany
- Copernicus Institute of Sustainable Development, Utrecht University, Utrecht, 3584 CB, the Netherlands
| | - Ragan M Callaway
- Division of Biological Sciences and Institute on Ecosystems, University of Montana, Missoula, MT, 59812, USA
| | - Marina Semchenko
- Institute of Ecology and Earth Sciences, University of Tartu, Liivi 2, 50409, Tartu, Estonia
| |
Collapse
|
4
|
Iuorio A, Baudena M, Eppinga MB, Giannino F, Rietkerk M, Veerman F. Travelling waves due to negative plant-soil feedbacks in a model including tree life-stages. Math Biosci 2024; 368:109128. [PMID: 38135247 DOI: 10.1016/j.mbs.2023.109128] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Revised: 11/06/2023] [Accepted: 12/08/2023] [Indexed: 12/24/2023]
Abstract
The emergence and maintenance of tree species diversity in tropical forests is commonly attributed to the Janzen-Connell (JC) hypothesis, which states that growth of seedlings is suppressed in the proximity of conspecific adult trees. As a result, a JC distribution due to a density-dependent negative feedback emerges in the form of a (transient) pattern where conspecific seedling density is highest at intermediate distances away from parent trees. Several studies suggest that the required density-dependent feedbacks behind this pattern could result from interactions between trees and soil-borne pathogens. However, negative plant-soil feedback may involve additional mechanisms, including the accumulation of autotoxic compounds generated through tree litter decomposition. An essential task therefore consists in constructing mathematical models incorporating both effects showing the ability to support the emergence of JC distributions. In this work, we develop and analyse a novel reaction-diffusion-ODE model, describing the interactions within tropical tree species across different life stages (seeds, seedlings, and adults) as driven by negative plant-soil feedback. In particular, we show that under strong negative plant-soil feedback travelling wave solutions exist, creating transient distributions of adult trees and seedlings that are in agreement with the Janzen-Connell hypothesis. Moreover, we show that these travelling wave solutions are pulled fronts and a robust feature as they occur over a broad parameter range. Finally, we calculate their linear spreading speed and show its (in)dependence on relevant nondimensional parameters.
Collapse
Affiliation(s)
- Annalisa Iuorio
- University of Vienna, Faculty of Mathematics, Oskar-Morgenstern-Platz 1, Vienna, 1090, Austria; Parthenope University of Naples, Department of Engineering, Centro Direzionale - Isola C4, Naples, 80143, Italy.
| | - Mara Baudena
- Utrecht University, Copernicus Institute of Sustainable Development, Environmental Sciences Group, Utrecht, 3508 TC, The Netherlands; National Research Council of Italy, Institute of Atmospheric Sciences and Climate (CNR-ISAC), Corso Fiume 4, Torino, 10133, Italy; National Biodiversity Future Center, Piazza Marina, 61, Palermo, 90133, Italy.
| | - Maarten B Eppinga
- University of Zurich, Department of Geography, Winterthurerstrasse 190, Zürich, 8057, Switzerland.
| | - Francesco Giannino
- University of Naples Federico II, Department of Agricultural Sciences, via Università 100, Portici, 80055, Italy.
| | - Max Rietkerk
- Utrecht University, Copernicus Institute of Sustainable Development, Environmental Sciences Group, Utrecht, 3508 TC, The Netherlands.
| | - Frits Veerman
- Leiden University, Mathematical Institute, Niels Bohrweg 1, Leiden, 2300 RA, The Netherlands.
| |
Collapse
|
5
|
de Alteriis E, Incerti G, Cartenì F, Chiusano ML, Colantuono C, Palomba E, Termolino P, Monticolo F, Esposito A, Bonanomi G, Capparelli R, Iannaccone M, Foscari A, Landi C, Parascandola P, Sanchez M, Tirelli V, de Falco B, Lanzotti V, Mazzoleni S. Extracellular DNA secreted in yeast cultures is metabolism-specific and inhibits cell proliferation. MICROBIAL CELL (GRAZ, AUSTRIA) 2023; 10:292-295. [PMID: 38053574 PMCID: PMC10695634 DOI: 10.15698/mic2023.12.810] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/28/2023] [Revised: 10/20/2023] [Accepted: 11/03/2023] [Indexed: 12/07/2023]
Abstract
Extracellular DNA (exDNA) can be actively released by living cells and different putative functions have been attributed to it. Further, homologous exDNA has been reported to exert species-specific inhibitory effects on several organisms. Here, we demonstrate by different experimental evidence, including 1H-NMR metabolomic fingerprint, that the growth rate decline in Saccharomyces cerevisiae fed-batch cultures is determined by the accumulation of exDNA in the medium. Sequencing of such secreted exDNA represents a portion of the entire genome, showing a great similarity with extrachromosomal circular DNA (eccDNA) already reported inside yeast cells. The recovered DNA molecules were mostly single strands and specifically associated to the yeast metabolism displayed during cell growth. Flow cytometric analysis showed that the observed growth inhibition by exDNA corresponded to an arrest in the S phase of the cell cycle. These unprecedented findings open a new scenario on the functional role of exDNA produced by living cells.
Collapse
Affiliation(s)
- Elisabetta de Alteriis
- Department of Biology, University of Naples “Federico II”, Via Cinthia 26, 80126 Naples, Italy
| | - Guido Incerti
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100 Udine, Italy
| | - Fabrizio Cartenì
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
| | - Maria Luisa Chiusano
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
| | - Chiara Colantuono
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
| | - Emanuela Palomba
- Institute of Biosciences and Bioresources CNR, Via Università 133, 80055 Portici (NA), Italy
| | - Pasquale Termolino
- Institute of Biosciences and Bioresources CNR, Via Università 133, 80055 Portici (NA), Italy
| | - Francesco Monticolo
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
- Cutaneous Biology Research Center, Massachusetts General Hospital, Boston, MA, USA
| | - Alfonso Esposito
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
| | - Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
- Task Force Microbiome - University of Naples “Federico II“
| | - Rosanna Capparelli
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
| | - Marco Iannaccone
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
- Laboratory of Biotechnological Processes for Energy and Industry, ENEA, Via Anguillarese, 301, - 00123 Rome, Italy
| | - Alessandro Foscari
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100 Udine, Italy
| | - Carmine Landi
- Department of Industrial Engineering, Università degli Studi di Salerno, Via Giovanni Paolo II 132, 84084 Fisciano, SA, Italy-
| | - Palma Parascandola
- Department of Industrial Engineering, Università degli Studi di Salerno, Via Giovanni Paolo II 132, 84084 Fisciano, SA, Italy-
| | - Massimo Sanchez
- Istituto Superiore di Sanità (ISS) Core Facilities, Viale Regina Elena 299, 00161 Rome, Italy
| | - Valentina Tirelli
- Istituto Superiore di Sanità (ISS) Core Facilities, Viale Regina Elena 299, 00161 Rome, Italy
| | - Bruna de Falco
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
| | - Virginia Lanzotti
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples “Federico II”, via Università 100, 80055 Portici (NA), Italy
- Task Force Microbiome - University of Naples “Federico II“
| |
Collapse
|
6
|
Salvatori N, Moreno M, Zotti M, Iuorio A, Cartenì F, Bonanomi G, Mazzoleni S, Giannino F. Process based modelling of plants-fungus interactions explains fairy ring types and dynamics. Sci Rep 2023; 13:19918. [PMID: 37963907 PMCID: PMC10646123 DOI: 10.1038/s41598-023-46006-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2022] [Accepted: 10/26/2023] [Indexed: 11/16/2023] Open
Abstract
Many mushroom-forming fungi can develop circular colonies affecting the vegetation in a phenomenon named fairy rings. Since the nineteenth century, several hypotheses have been proposed to explain how fairy ring fungi form ring-like shapes instead of disks and why they produce negative or positive effects on the surrounding vegetation. In this context, we present a novel process-based mathematical model aimed at reproducing the mycelial spatial configuration of fairy rings and test different literature-supported hypotheses explaining the suppressive and stimulating effects of fungi on plants. Simulations successfully reproduced the shape of fairy rings through the accumulation of fungal self-inhibitory compounds. Moreover, regarding the negative effects of fungi on vegetation, results suggest that fungal-induced soil hydrophobicity is sufficient to reproduce all observed types of fairy rings, while the potential production of phytotoxins is not. In relation to the positive effects of fungi on plants, results show that the release of phytostimulants is needed to reproduce the vegetation patterns associated to some fairy ring types. Model outputs can guide future experiments and field work to corroborate the considered hypotheses and provide more information for further model improvements.
Collapse
Affiliation(s)
- Nicole Salvatori
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, Italy
- 1DI4A, Department of Agri-Food, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100, Udine, Italy
- Department of Life Sciences, University of Trieste, 34127, Trieste, Italy
| | - Mauro Moreno
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, Italy
| | - Maurizio Zotti
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, Italy.
| | - Annalisa Iuorio
- Faculty of Mathematics, University of Vienna, Oskar-Morgenstern-Platz 1, 1090, Vienna, Austria
- Parthenope University of Naples, Department of Engineering, Centro Direzionale-Isola C4, 80143, Naples, Italy
| | - Fabrizio Cartenì
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, Italy
| | - Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, Italy
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, Italy
| | - Francesco Giannino
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, Italy
| |
Collapse
|
7
|
Iuorio A, Eppinga MB, Baudena M, Veerman F, Rietkerk M, Giannino F. Modelling how negative plant-soil feedbacks across life stages affect the spatial patterning of trees. Sci Rep 2023; 13:19128. [PMID: 37926717 PMCID: PMC10625994 DOI: 10.1038/s41598-023-44867-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2023] [Accepted: 10/12/2023] [Indexed: 11/07/2023] Open
Abstract
In this work, we theoretically explore how litter decomposition processes and soil-borne pathogens contribute to negative plant-soil feedbacks, in particular in transient and stable spatial organisation of tropical forest trees and seedlings known as Janzen-Connell distributions. By considering soil-borne pathogens and autotoxicity both separately and in combination in a phenomenological model, we can study how both factors may affect transient dynamics and emerging Janzen-Connell distributions. We also identify parameter regimes associated with different long-term behaviours. Moreover, we compare how the strength of negative plant-soil feedbacks was mediated by tree germination and growth strategies, using a combination of analytical approaches and numerical simulations. Our interdisciplinary investigation, motivated by an ecological question, allows us to construct important links between local feedbacks, spatial self-organisation, and community assembly. Our model analyses contribute to understanding the drivers of biodiversity in tropical ecosystems, by disentangling the abilities of two potential mechanisms to generate Janzen-Connell distributions. Furthermore, our theoretical results may help guiding future field data analyses by identifying spatial signatures in adult tree and seedling distribution data that may reflect the presence of particular plant-soil feedback mechanisms.
Collapse
Affiliation(s)
- Annalisa Iuorio
- Department of Engineering, Centro Direzionale-Isola C4, Parthenope University of Naples, 80143, Naples, Italy.
- Faculty of Mathematics, University of Vienna, Oskar-Morgenstern-Platz 1, 1090, Vienna, Austria.
| | - Maarten B Eppinga
- Department of Geography, University of Zurich, Winterthurerstrasse 190, 8057, Zurich, Switzerland
| | - Mara Baudena
- Environmental Sciences Group, Copernicus Institute of Sustainable Development, Utrecht University, 3508 TC, Utrecht, The Netherlands
- Institute of Atmospheric Sciences and Climate (CNR-ISAC), National Research Council of Italy, Corso Fiume 4, 10133, Torino, Italy
| | - Frits Veerman
- Mathematical Institute, Leiden University, Niels Bohrweg 1, 2300 RA, Leiden, The Netherlands
| | - Max Rietkerk
- Environmental Sciences Group, Copernicus Institute of Sustainable Development, Utrecht University, 3508 TC, Utrecht, The Netherlands
| | - Francesco Giannino
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, Italy
| |
Collapse
|
8
|
Ma H, Li J, Luo A, Lv H, Ren Z, Yang H, Fang X, Shahzad MA, Qu H, Zhang K, Wang Q, Zheng S. Vanillin, a Newly Discovered Autotoxic Substance in Long-Term Potato Continuous Cropping Soil, Inhibits Plant Growth by Decreasing the Root Auxin Content and Reducing Adventitious Root Numbers. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023. [PMID: 37905798 DOI: 10.1021/acs.jafc.3c05027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/02/2023]
Abstract
Phenolic acids are known to reduce root biomass and hinder plant development, but it is unclear how they affect potato root traits. Over a 10 year field experiment, we found a negative correlation between the potato yield and continuous cropping years. The substantial reduction in adventitious root (AR) numbers was found to be primarily inhibited by soil vanillin accumulation. The study also found that vanillin had a more pronounced inhibitory effect on the potato yield than commonly reported ferulic acid and p-hydroxybenzoic acid. The decrease in yield was attributed to the reduction of root indole-3-acetic acid (IAA) content, which impeded the formation of AR. Exogenous IAA was found to increase the root IAA content and stimulate AR formation under vanillin stress, ultimately leading to an increase in the potato yield. This study provides valuable insights into potential strategies for the degradation of autotoxic substances and breeding of potato cultivars with enhanced resistance to autotoxicity.
Collapse
Affiliation(s)
- Haiyan Ma
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
| | - Junji Li
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
| | - Aihua Luo
- Potato Research Institute of Gansu Academy of Agricultural Sciences, Lanzhou, Gansu 730070, People's Republic of China
| | - Heping Lv
- Potato Research Institute of Gansu Academy of Agricultural Sciences, Lanzhou, Gansu 730070, People's Republic of China
| | - Zhitong Ren
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
| | - Hongkun Yang
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
| | - Xiaoting Fang
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
| | - Muhammad Amir Shahzad
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
| | - Huijuan Qu
- Institute of Biotechnology and Nuclear Technology, Sichuan Academy of Agricultural Sciences, Chengdu, Sichuan 610066, People's Republic of China
| | - Kaiqin Zhang
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
| | - Qiang Wang
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
| | - Shunlin Zheng
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, College of Agronomy, Sichuan Agricultural University, Chengdu, Sichuan 611130, People's Republic of China
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Chengdu, Sichuan 611130, People's Republic of China
- Key Laboratory of Tuber Crop Genetics and Breeding, Ministry of Agriculture, Chengdu Joyson Agricultural Technology Company, Limited, Xindu, Sichuan 610500, People's Republic of China
| |
Collapse
|
9
|
Colombo M, Grauso L, Lanzotti V, Incerti G, Adamo A, Storlazzi A, Gigliotti S, Mazzoleni S. Self-DNA Inhibition in Drosophila melanogaster Development: Metabolomic Evidence of the Molecular Determinants. BIOLOGY 2023; 12:1378. [PMID: 37997977 PMCID: PMC10669329 DOI: 10.3390/biology12111378] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2023] [Revised: 10/24/2023] [Accepted: 10/25/2023] [Indexed: 11/25/2023]
Abstract
We investigated the effects of dietary delivered self-DNA in the model insect Drosophila melanogaster. Self-DNA administration resulted in low but significant lethality in Drosophila larvae and considerably extended the fly developmental time. This was characterized by the abnormal persistence of the larvae in the L2 and L3 stages, which largely accounted for the average 72 h delay observed in pupariation, as compared to controls. In addition, self-DNA exposure affected adult reproduction by markedly reducing both female fecundity and fertility, further demonstrating its impact on Drosophila developmental processes. The effects on the metabolites of D. melanogaster larvae after exposure to self-DNA were studied by NMR, LC-MS, and molecular networking. The results showed that self-DNA feeding reduces the amounts of all metabolites, particularly amino acids and N-acyl amino acids, which are known to act as lipid signal mediators. An increasing amount of phloroglucinol was found after self-DNA exposure and correlated to developmental delay and egg-laying suppression. Pidolate, a known intermediate in the γ-glutamyl cycle, also increased after exposure to self-DNA and correlated to the block of insect oogenesis.
Collapse
Affiliation(s)
- Michele Colombo
- Institute of Biosciences and BioResources, National Research Council, Via Pietro Castellino 111, 80131 Napoli, Italy; (M.C.); (A.A.); (A.S.)
| | - Laura Grauso
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy; (L.G.); (V.L.)
| | - Virginia Lanzotti
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy; (L.G.); (V.L.)
| | - Guido Incerti
- Department of Agri-Food, Animal and Environmental Sciences (DI4A), University of Udine, 33100 Udine, Italy;
| | - Adele Adamo
- Institute of Biosciences and BioResources, National Research Council, Via Pietro Castellino 111, 80131 Napoli, Italy; (M.C.); (A.A.); (A.S.)
| | - Aurora Storlazzi
- Institute of Biosciences and BioResources, National Research Council, Via Pietro Castellino 111, 80131 Napoli, Italy; (M.C.); (A.A.); (A.S.)
| | - Silvia Gigliotti
- Institute of Biosciences and BioResources, National Research Council, Via Pietro Castellino 111, 80131 Napoli, Italy; (M.C.); (A.A.); (A.S.)
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy; (L.G.); (V.L.)
| |
Collapse
|
10
|
Zárate-López MA, Quintana-Rodríguez E, Orona-Tamayo D, Aguilar-Hernández V, Araujo-León JA, Brito-Argáez L, Molina-Torres J, Hernández-Flores JL, Loyola-Vargas VM, Lozoya-Pérez NE, Lozoya-Gloria E. Metabolic Responses of the Microalga Neochloris oleoabundans to Extracellular Self- and Nonself-DNA. Int J Mol Sci 2023; 24:14172. [PMID: 37762475 PMCID: PMC10531809 DOI: 10.3390/ijms241814172] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2023] [Revised: 08/24/2023] [Accepted: 08/29/2023] [Indexed: 09/29/2023] Open
Abstract
Stressed organisms identify intracellular molecules released from damaged cells due to trauma or pathogen infection as components of the innate immune response. These molecules called DAMPs (Damage-Associated Molecular Patterns) are extracellular ATP, sugars, and extracellular DNA, among others. Animals and plants can recognize their own DNA applied externally (self-exDNA) as a DAMP with a high degree of specificity. However, little is known about the microalgae responses to damage when exposed to DAMPs and specifically to self-exDNAs. Here we compared the response of the oilseed microalgae Neochloris oleoabundans to self-exDNA, with the stress responses elicited by nonself-exDNA, methyl jasmonate (MeJA) and sodium bicarbonate (NaHCO3). We analyzed the peroxidase enzyme activity related to the production of reactive oxygen species (ROS), as well as the production of polyphenols, lipids, triacylglycerols, and phytohormones. After 5 min of addition, self-exDNA induced peroxidase enzyme activity higher than the other elicitors. Polyphenols and lipids were increased by self-exDNA at 48 and 24 h, respectively. Triacylglycerols were increased with all elicitors from addition and up to 48 h, except with nonself-exDNA. Regarding phytohormones, self-exDNA and MeJA increased gibberellic acid, isopentenyladenine, and benzylaminopurine at 24 h. Results show that Neochloris oleoabundans have self-exDNA specific responses.
Collapse
Affiliation(s)
- Mónica A. Zárate-López
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Irapuato, Km 9.6 Carretera Irapuato-León, Irapuato 36824, Guanajuato, Mexico; (M.A.Z.-L.); (J.M.-T.); (J.L.H.-F.)
- Centro de Innovación Aplicada en Tecnologías Competitivas (CIATEC), Omega # 201 Col. Industrial Delta, León 37545, Guanajuato, Mexico; (D.O.-T.); (N.E.L.-P.)
| | - Elizabeth Quintana-Rodríguez
- Centro de Innovación Aplicada en Tecnologías Competitivas (CIATEC), Omega # 201 Col. Industrial Delta, León 37545, Guanajuato, Mexico; (D.O.-T.); (N.E.L.-P.)
| | - Domancar Orona-Tamayo
- Centro de Innovación Aplicada en Tecnologías Competitivas (CIATEC), Omega # 201 Col. Industrial Delta, León 37545, Guanajuato, Mexico; (D.O.-T.); (N.E.L.-P.)
| | - Víctor Aguilar-Hernández
- Centro de Investigación Científica de Yucatán, A.C. (CICY), Calle 43 # 130, Chuburná de Hidalgo, Mérida 97205, Yucatán, Mexico; (V.A.-H.); (J.A.A.-L.); (L.B.-A.); (V.M.L.-V.)
| | - Jesús A. Araujo-León
- Centro de Investigación Científica de Yucatán, A.C. (CICY), Calle 43 # 130, Chuburná de Hidalgo, Mérida 97205, Yucatán, Mexico; (V.A.-H.); (J.A.A.-L.); (L.B.-A.); (V.M.L.-V.)
| | - Ligia Brito-Argáez
- Centro de Investigación Científica de Yucatán, A.C. (CICY), Calle 43 # 130, Chuburná de Hidalgo, Mérida 97205, Yucatán, Mexico; (V.A.-H.); (J.A.A.-L.); (L.B.-A.); (V.M.L.-V.)
| | - Jorge Molina-Torres
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Irapuato, Km 9.6 Carretera Irapuato-León, Irapuato 36824, Guanajuato, Mexico; (M.A.Z.-L.); (J.M.-T.); (J.L.H.-F.)
| | - José Luis Hernández-Flores
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Irapuato, Km 9.6 Carretera Irapuato-León, Irapuato 36824, Guanajuato, Mexico; (M.A.Z.-L.); (J.M.-T.); (J.L.H.-F.)
| | - Víctor M. Loyola-Vargas
- Centro de Investigación Científica de Yucatán, A.C. (CICY), Calle 43 # 130, Chuburná de Hidalgo, Mérida 97205, Yucatán, Mexico; (V.A.-H.); (J.A.A.-L.); (L.B.-A.); (V.M.L.-V.)
| | - Nancy E. Lozoya-Pérez
- Centro de Innovación Aplicada en Tecnologías Competitivas (CIATEC), Omega # 201 Col. Industrial Delta, León 37545, Guanajuato, Mexico; (D.O.-T.); (N.E.L.-P.)
| | - Edmundo Lozoya-Gloria
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Irapuato, Km 9.6 Carretera Irapuato-León, Irapuato 36824, Guanajuato, Mexico; (M.A.Z.-L.); (J.M.-T.); (J.L.H.-F.)
| |
Collapse
|
11
|
Fernández-Milmanda GL. It's not you, it's me: Extracellular self-DNA signals through the jasmonic acid pathway. PLANT PHYSIOLOGY 2023; 192:2233-2234. [PMID: 37099487 PMCID: PMC10315287 DOI: 10.1093/plphys/kiad252] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2023] [Revised: 04/21/2023] [Accepted: 04/21/2023] [Indexed: 06/19/2023]
Affiliation(s)
- Guadalupe L Fernández-Milmanda
- Plant Physiology, American Society of Plant Biologists, USA
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- VIB, Center for Plant Systems Biology, 9052 Ghent, Belgium
| |
Collapse
|
12
|
Bonanomi G, Bobrovskikh A, Cartenì F, Mazzoleni S, Giannino F. Adult conspecific density affects Janzen-Connell patterns by modulating the recruitment exclusion zones. FRONTIERS IN PLANT SCIENCE 2023; 14:1079975. [PMID: 37441185 PMCID: PMC10333542 DOI: 10.3389/fpls.2023.1079975] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/25/2022] [Accepted: 04/21/2023] [Indexed: 07/15/2023]
Abstract
Plant-soil negative feedback (NF) is a well-established phenomenon that, by preventing the dominance of a single species, allows species coexistence and promotes the maintenance of biodiversity. At community scale, localized NF may cause the formation of exclusion zones under adult conspecifics leading to Janzen-Connell (JC) distribution. In this study, we explore the connection between adult density, either conspecifics or heterospecifics, on the probability of occurrence of JC distributions. Using an individual-based modelling approach, we simulated the formation of exclusion zones due to the build-up of NF in proximity of conspecific adult plants and assessed the frequency of JC distribution in relation to conspecifics and heterospecifics density ranging from isolated trees to closed forest stands. We found that JC recruitment distribution is very common in the case of an isolated tree when NF was strong and capable to form an exclusion zone under the parent tree. At very low NF intensity, a prevalence of the decreasing pattern was observed because, under such conditions, the inhibitory effect due to the presence of the mother tree was unable to overcome the clustering effect of the seed dispersal kernel. However, if NF is strong the JC frequency suddenly decreases in stands with a continuous conspecific cover likely as a result of progressive expansion of the exclusion zone surrounding all trees in closed forest stands. Finally, our simulations showed that JC distribution should not be frequent in the case of rare species immersed in a matrix of heterospecific adults. Overall, the model shows that a plant suffering from strong NF in monospecific stands can rarely exhibit a recruitment pattern fitting the JC model. Such counterintuitive results would provide the means to reconcile the well-established NF framework with part the forest ecologists' community that is still skeptical towards the JC model. Synthesis Our model highlights the complex interconnection between NF intensity, stand density, and recruitment patterns explaining where and why the JC distribution occurs. Moreover, predicting the occurrence of JC in relation to stand density we clarify the relevance of this ecological phenomenon for future integration in plant community frameworks.
Collapse
Affiliation(s)
- Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
- Task Force of Microbiome Studies, University of Naples Federico II, Naples, Italy
| | - Aleksandr Bobrovskikh
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
- Laboratory of Plant Growth Biomechanics, Institute of Cytology and Genetics Siberian Branch of Russian Academy of Sciences (SB RAS), Novosibirsk, Russia
| | - Fabrizio Cartenì
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
- Task Force of Computational and Quantitative Biology, University of Naples Federico II, Naples, Italy
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
- Task Force of Microbiome Studies, University of Naples Federico II, Naples, Italy
- Task Force of Computational and Quantitative Biology, University of Naples Federico II, Naples, Italy
| | - Francesco Giannino
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
- Task Force of Computational and Quantitative Biology, University of Naples Federico II, Naples, Italy
| |
Collapse
|
13
|
Zotti M, Bonanomi G, Saulino L, Allevato E, Saracino A, Mazzoleni S, Idbella M. Shifts of Leaf Litter-Induced Plant-Soil Feedback from Negative to Positive Driven by Ectomycorrhizal Symbiosis between Quercus ilex and Pisolithus arrhizus. Microorganisms 2023; 11:1394. [PMID: 37374896 DOI: 10.3390/microorganisms11061394] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Revised: 05/18/2023] [Accepted: 05/23/2023] [Indexed: 06/29/2023] Open
Abstract
Ectomycorrhizas (ECM) are a common symbiotic association between fungi and various plant species in forest ecosystems, affecting community assemblages at the landscape level. ECMs benefit host plants by increasing the surface area for nutrient uptake, defending against pathogens, and decomposing organic matter in the soil. ECM-symbiotic seedlings are also known to perform better in conspecific soils than other species unable to carry the symbiosis, in a process referred to as plant-soil feedback (PSF). In this study, we tested the effects of different leaf litter amendments on ECM and non-ECM seedlings of Quercus ilex inoculated with Pisolithus arrhizus and how they altered the litter-induced PSF. Our experiment showed that the ECM symbiont induced a shift from negative PSF to positive PSF in Q. ilex seedlings by analysing plant and root growth parameters. However, non-ECM seedlings performed better than ECM seedlings in a no-litter condition, indicating an autotoxic effect when litter is present without ECM symbionts. Conversely, ECM seedlings with litter performed better at different decomposition stages, suggesting a possible role of the symbiosis of P. arrhizus and Q. ilex in recycling autotoxic compounds released from conspecific litter, transforming them into nutrients that are transferred to the plant host.
Collapse
Affiliation(s)
- Maurizio Zotti
- Department of Agricultural Sciences, University of Naples Federico II, Via Università, 100, 80055 Portici, Italy
| | - Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, Via Università, 100, 80055 Portici, Italy
- Task Force on Microbiome Studies, University of Naples Federico II, 80138 Naples, Italy
| | - Luigi Saulino
- Department of Agricultural Sciences, University of Naples Federico II, Via Università, 100, 80055 Portici, Italy
| | - Emilia Allevato
- Department of Agricultural Sciences, University of Naples Federico II, Via Università, 100, 80055 Portici, Italy
| | - Antonio Saracino
- Department of Agricultural Sciences, University of Naples Federico II, Via Università, 100, 80055 Portici, Italy
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples Federico II, Via Università, 100, 80055 Portici, Italy
| | - Mohamed Idbella
- Department of Agricultural Sciences, University of Naples Federico II, Via Università, 100, 80055 Portici, Italy
| |
Collapse
|
14
|
Vega-Muñoz I, Herrera-Estrella A, Martínez-de la Vega O, Heil M. ATM and ATR, two central players of the DNA damage response, are involved in the induction of systemic acquired resistance by extracellular DNA, but not the plant wound response. Front Immunol 2023; 14:1175786. [PMID: 37256140 PMCID: PMC10225592 DOI: 10.3389/fimmu.2023.1175786] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Accepted: 04/27/2023] [Indexed: 06/01/2023] Open
Abstract
Background The plant immune response to DNA is highly self/nonself-specific. Self-DNA triggered stronger responses by early immune signals such as H2O2 formation than nonself-DNA from closely related plant species. Plants lack known DNA receptors. Therefore, we aimed to investigate whether a differential sensing of self-versus nonself DNA fragments as damage- versus pathogen-associated molecular patterns (DAMPs/PAMPs) or an activation of the DNA-damage response (DDR) represents the more promising framework to understand this phenomenon. Results We treated Arabidopsis thaliana Col-0 plants with sonicated self-DNA from other individuals of the same ecotype, nonself-DNA from another A. thaliana ecotype, or nonself-DNA from broccoli. We observed a highly self/nonself-DNA-specific induction of H2O2 formation and of jasmonic acid (JA, the hormone controlling the wound response to chewing herbivores) and salicylic acid (SA, the hormone controlling systemic acquired resistance, SAR, to biotrophic pathogens). Mutant lines lacking Ataxia Telangiectasia Mutated (ATM) or ATM AND RAD3-RELATED (ATR) - the two DDR master kinases - retained the differential induction of JA in response to DNA treatments but completely failed to induce H2O2 or SA. Moreover, we observed H2O2 formation in response to in situ-damaged self-DNA from plants that had been treated with bleomycin or SA or infected with virulent bacteria Pseudomonas syringae pv. tomato DC3000 or pv. glycinea carrying effector avrRpt2, but not to DNA from H2O2-treated plants or challenged with non-virulent P. syringae pv. glycinea lacking avrRpt2. Conclusion We conclude that both ATM and ATR are required for the complete activation of the plant immune response to extracellular DNA whereas an as-yet unknown mechanism allows for the self/nonself-differential activation of the JA-dependent wound response.
Collapse
Affiliation(s)
- Isaac Vega-Muñoz
- Laboratorio de Ecología de Plantas, Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados (CINVESTAV)—Unidad Irapuato, Irapuato, GTO, Mexico
| | - Alfredo Herrera-Estrella
- Laboratorio Nacional de Genómica para la Biodiversidad, Centro de Investigación y de Estudios Avanzados (CINVESTAV)—Unidad de Genómica Avanzada, Irapuato, GTO, Mexico
| | - Octavio Martínez-de la Vega
- Laboratorio Nacional de Genómica para la Biodiversidad, Centro de Investigación y de Estudios Avanzados (CINVESTAV)—Unidad de Genómica Avanzada, Irapuato, GTO, Mexico
| | - Martin Heil
- Laboratorio de Ecología de Plantas, Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados (CINVESTAV)—Unidad Irapuato, Irapuato, GTO, Mexico
| |
Collapse
|
15
|
Ronchi A, Foscari A, Zaina G, De Paoli E, Incerti G. Self-DNA Early Exposure in Cultivated and Weedy Setaria Triggers ROS Degradation Signaling Pathways and Root Growth Inhibition. PLANTS (BASEL, SWITZERLAND) 2023; 12:1288. [PMID: 36986976 PMCID: PMC10058795 DOI: 10.3390/plants12061288] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/24/2022] [Revised: 03/07/2023] [Accepted: 03/08/2023] [Indexed: 06/19/2023]
Abstract
The accumulation of fragmented extracellular DNA reduces conspecific seed germination and plantlet growth in a concentration-dependent manner. This self-DNA inhibition was repeatedly reported, but the underlying mechanisms are not fully clarified. We investigated the species-specificity of self-DNA inhibition in cultivated vs. weed congeneric species (respectively, Setaria italica and S. pumila) and carried out a targeted real-time qPCR analysis under the hypothesis that self-DNA elicits molecular pathways that are responsive to abiotic stressors. The results of a cross-factorial experiment on root elongation of seedlings exposed to self-DNA, congeneric DNA, and heterospecific DNA from Brassica napus and Salmon salar confirmed a significantly higher inhibition by self-DNA as compared to non-self-treatments, with the latter showing a magnitude of the effect consistent with the phylogenetic distance between the DNA source and the target species. Targeted gene expression analysis highlighted an early activation of genes involved in ROS degradation and management (FSD2, ALDH22A1, CSD3, MPK17), as well as deactivation of scaffolding molecules acting as negative regulators of stress signaling pathways (WD40-155). While being the first exploration of early response to self-DNA inhibition at molecular level on C4 model plants, our study highlights the need for further investigation of the relationships between DNA exposure and stress signaling pathways by discussing potential applications for species-specific weed control in agriculture.
Collapse
Affiliation(s)
- Alessia Ronchi
- Department of Life Sciences, University of Trieste, via Giorgieri 5, 34100 Trieste, Italy
- Department of Agrifood, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100 Udine, Italy
| | - Alessandro Foscari
- Department of Agrifood, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100 Udine, Italy
| | - Giusi Zaina
- Department of Agrifood, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100 Udine, Italy
| | - Emanuele De Paoli
- Department of Agrifood, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100 Udine, Italy
| | - Guido Incerti
- Department of Agrifood, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100 Udine, Italy
| |
Collapse
|
16
|
Malusà E, Vassilev N, Neri D, Xu X. Editorial: Plant root interaction with associated microbiomes to improve plant resiliency and crop biodiversity, volume II. FRONTIERS IN PLANT SCIENCE 2023; 14:1143657. [PMID: 36866362 PMCID: PMC9971992 DOI: 10.3389/fpls.2023.1143657] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2023] [Accepted: 01/31/2023] [Indexed: 06/18/2023]
Affiliation(s)
- E. Malusà
- Department of Plant Protection, National Institute of Horticultural Research, Skierniewice, Poland
- Council for Agricultural Research and Economics - Center for Viticulture and Enology, Conegliano, Italy
| | - N. Vassilev
- Department of Chemical Engineering, Institute of Biotechnology, University of Granada, Granada, Spain
| | - D. Neri
- Dipartimento di Scienze Agrarie, Alimentari ed Ambientali, Università Politecnica delle Marche, Ancona, Italy
| | - X. Xu
- NIAB, West Malling, United Kingdom
| |
Collapse
|
17
|
Idbella M, Abd‐ElGawad AM, Mazzoleni S, Bonanomi G. Microclimate, soil chemistry, and microbiota fail to explain
Euphorbia dendroides
Janzen‐Connell
pattern in a shrubland. Ecosphere 2022. [DOI: 10.1002/ecs2.4296] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Affiliation(s)
- Mohamed Idbella
- Department of Agricultural Sciences University of Naples Federico II Naples Italy
- Laboratory of Biosciences, Faculty of Sciences and Techniques Hassan II University Casablanca Morocco
| | - Ahmed M. Abd‐ElGawad
- Department of Botany, Faculty of Sciences Mansoura University Mansoura Egypt
- Plant Production Department, College of Food and Agriculture Sciences King Saud University Riyadh Saudi Arabia
| | - Stefano Mazzoleni
- Department of Agricultural Sciences University of Naples Federico II Naples Italy
- Task Force on Microbiome Studies University of Naples Federico II Naples Italy
| | - Giuliano Bonanomi
- Department of Agricultural Sciences University of Naples Federico II Naples Italy
- Task Force on Microbiome Studies University of Naples Federico II Naples Italy
| |
Collapse
|
18
|
Abrahão A, Marhan S, Boeddinghaus RS, Nawaz A, Wubet T, Hölzel N, Klaus VH, Kleinebecker T, Freitag M, Hamer U, Oliveira RS, Lambers H, Kandeler E. Microbial drivers of plant richness and productivity in a grassland restoration experiment along a gradient of land-use intensity. THE NEW PHYTOLOGIST 2022; 236:1936-1950. [PMID: 36128644 DOI: 10.1111/nph.18503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2022] [Accepted: 08/22/2022] [Indexed: 06/15/2023]
Abstract
Plant-soil feedbacks (PSFs) underlying grassland plant richness and productivity are typically coupled with nutrient availability; however, we lack understanding of how restoration measures to increase plant diversity might affect PSFs. We examined the roles of sward disturbance, seed addition and land-use intensity (LUI) on PSFs. We conducted a disturbance and seed addition experiment in 10 grasslands along a LUI gradient and characterized plant biomass and richness, soil microbial biomass, community composition and enzyme activities. Greater plant biomass at high LUI was related to a decrease in the fungal to bacterial ratios, indicating highly productive grasslands to be dominated by bacteria. Lower enzyme activity per microbial biomass at high plant species richness indicated a slower carbon (C) cycling. The relative abundance of fungal saprotrophs decreased, while pathogens increased with LUI and disturbance. Both fungal guilds were negatively associated with plant richness, indicating the mechanisms underlying PSFs depended on LUI. We show that LUI and disturbance affect fungal functional composition, which may feedback on plant species richness by impeding the establishment of pathogen-sensitive species. Therefore, we highlight the need to integrate LUI including its effects on PSFs when planning for practices that aim to optimize plant diversity and productivity.
Collapse
Affiliation(s)
- Anna Abrahão
- Department of Soil Biology, Institute of Soil Science and Land Evaluation, University of Hohenheim, 70599, Stuttgart, Germany
- Department of Biology, Science Center, Federal University of Ceará - UFC, Fortaleza, CE, 60440-900, Brazil
| | - Sven Marhan
- Department of Soil Biology, Institute of Soil Science and Land Evaluation, University of Hohenheim, 70599, Stuttgart, Germany
| | - Runa S Boeddinghaus
- Department of Soil Biology, Institute of Soil Science and Land Evaluation, University of Hohenheim, 70599, Stuttgart, Germany
- Landwirtschaftliches Technologiezentrum Augustenberg, 76227, Karlsruhe, Germany
| | - Ali Nawaz
- Department of Community Ecology, UFZ - Helmholtz Center for Environmental Research, 06120, Halle (Saale), Germany
- Department of Civil, Geo and Environmental Engineering, Technical University of Munich, Am Coulombwall 3, 85748, Garching, Germany
| | - Tesfaye Wubet
- Department of Community Ecology, UFZ - Helmholtz Center for Environmental Research, 06120, Halle (Saale), Germany
- German Center for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103, Leipzig, Germany
| | - Norbert Hölzel
- Institute of Landscape Ecology, University of Münster, Heisenbergstr. 2, D-48149, Münster, Germany
| | - Valentin H Klaus
- Institute of Agricultural Sciences, ETH Zürich, Universitätstr. 2, 8092, Zürich, Switzerland
| | - Till Kleinebecker
- Institute of Landscape Ecology and Resources Management, Justus-Liebig-Universität Gießen, Heinrich-Buff-Ring 26-32, D-35392, Gießen, Germany
- Center for International Development and Environmental Research (ZEU), Justus Liebig University Giessen, Senckenbergstrasse 3, 35390, Giessen, Germany
| | - Martin Freitag
- Institute of Landscape Ecology, University of Münster, Heisenbergstr. 2, D-48149, Münster, Germany
| | - Ute Hamer
- Institute of Landscape Ecology, University of Münster, Heisenbergstr. 2, D-48149, Münster, Germany
| | - Rafael S Oliveira
- Departamento de Biologia Vegetal, Universidade Estadual de Campinas, 13083-970, Campinas, Brazil
| | - Hans Lambers
- School of Biological Sciences, University of Western Australia, Crawley, Perth, WA, 6009, Australia
| | - Ellen Kandeler
- Department of Soil Biology, Institute of Soil Science and Land Evaluation, University of Hohenheim, 70599, Stuttgart, Germany
| |
Collapse
|
19
|
Lanzotti V, Grauso L, Mangoni A, Termolino P, Palomba E, Anzano A, Incerti G, Mazzoleni S. Metabolomics and molecular networking analyses in Arabidopsis thaliana show that extracellular self-DNA affects nucleoside/nucleotide cycles with accumulation of cAMP, cGMP and N6-methyl-AMP. PHYTOCHEMISTRY 2022; 204:113453. [PMID: 36174718 DOI: 10.1016/j.phytochem.2022.113453] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2022] [Revised: 09/07/2022] [Accepted: 09/21/2022] [Indexed: 06/16/2023]
Abstract
Extracellular DNA (exDNA) widely occurs in the environment due to release by either cell lysis or active secretion. The role of exDNA in plant-soil interactions has been investigated and inhibitory effects on the growth of conspecific individuals by their self-DNA have been reported. Transcriptome analysis in the model plant Arabidopsis thaliana showed a clear recognition by the plant roots of self- and nonself-exDNA, with inhibition occurring only after exposure to the former. In this study, an untargeted metabolomics approach was used to assess at molecular level the plant reactions to exDNA exposure. Thus, the effects on the metabolites profile of A. thaliana after exposure to self- and nonself-exDNA from plants and fish, were studied by NMR, LC-MS, chemometrics and molecular networking analyses. Results show that self-DNA significantly induces the accumulation of RNA constituents (nucleobases, ribonucleosides, dinucleotide and trinucleotide oligomers). Interestingly, AMP and GMP are found along with their cyclic analogues cAMP and cGMP, and in form of cyclic dimers (c-di-AMP and c-di-GMP). Also methylated adenosine monophosphate (m6AMP) and the dimeric dinucleotide N-methyladenylyl-(3'→5') cytidine (m6ApC) increased only in the self-DNA treatment. Such striking evidence of self-DNA effects highlights a major role of exDNA in plant sensing of its environment.
Collapse
Affiliation(s)
- Virginia Lanzotti
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055, Portici, Italy.
| | - Laura Grauso
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055, Portici, Italy.
| | - Alfonso Mangoni
- Department of Pharmacy, University of Naples Federico II, Via D. Montesano 49, 80131, Napoli, Italy.
| | - Pasquale Termolino
- Institute of Biosciences and Bioresources (IBBR), National Research Council of Italy (CNR), 80055, Portici, Italy.
| | - Emanuela Palomba
- Institute of Biosciences and Bioresources (IBBR), National Research Council of Italy (CNR), 80055, Portici, Italy.
| | - Attilio Anzano
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055, Portici, Italy.
| | - Guido Incerti
- Department of Agri-Food, Animal and Environmental Sciences, University of Udine, 33100, Udine, Italy.
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055, Portici, Italy.
| |
Collapse
|
20
|
Yang K, Wang L, Cao X, Gu Z, Zhao G, Ran M, Yan Y, Yan J, Xu L, Gao C, Yang M. The Origin, Function, Distribution, Quantification, and Research Advances of Extracellular DNA. Int J Mol Sci 2022; 23:13690. [PMID: 36430193 PMCID: PMC9698649 DOI: 10.3390/ijms232213690] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Revised: 11/01/2022] [Accepted: 11/02/2022] [Indexed: 11/09/2022] Open
Abstract
In nature, DNA is ubiquitous, existing not only inside but also outside of the cells of organisms. Intracellular DNA (iDNA) plays an essential role in different stages of biological growth, and it is defined as the carrier of genetic information. In addition, extracellular DNA (eDNA) is not enclosed in living cells, accounting for a large proportion of total DNA in the environment. Both the lysis-dependent and lysis-independent pathways are involved in eDNA release, and the released DNA has diverse environmental functions. This review provides an insight into the origin as well as the multiple ecological functions of eDNA. Furthermore, the main research advancements of eDNA in the various ecological environments and the various model microorganisms are summarized. Furthermore, the major methods for eDNA extraction and quantification are evaluated.
Collapse
Affiliation(s)
- Kaixin Yang
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Lishuang Wang
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Xinghong Cao
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Zhaorui Gu
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Guowei Zhao
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Mengqu Ran
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Yunjun Yan
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Jinyong Yan
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Li Xu
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Chunhui Gao
- State Key Laboratory of Agricultural Microbiology, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Min Yang
- Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| |
Collapse
|
21
|
Bonanomi G, Zotti M, Idbella M, Termolino P, De Micco V, Mazzoleni S. Field evidence for litter and self-DNA inhibitory effects on Alnus glutinosa roots. THE NEW PHYTOLOGIST 2022; 236:399-412. [PMID: 35852010 PMCID: PMC9805126 DOI: 10.1111/nph.18391] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Accepted: 07/06/2022] [Indexed: 06/02/2023]
Abstract
Litter decomposition releases nutrients beneficial to plants but also induces phytotoxicity. Phytotoxicity can result from either labile allelopathic compounds or species specific and caused by conspecific DNA. Aquatic plants in flowing water generally do not suffer phytotoxicity because litter is regularly removed. In stagnant water or in litter packs an impact on root functionality can occur. So far, studies on water plant roots have been carried out in laboratory and never in field conditions. The effect of conspecific vs heterospecific litter and purified DNA were assessed on aquatic roots of the riparian woody species Alnus glutinosa L. using a novel method, using closed and open plastic tubes fixed to single roots in the field with closed tubes analogous to stagnant water. Four fresh and four decomposed litter types were used and analysed on extractable C, cellulose, lignin, N content and using 13 C-CPMAS NMR spectroscopy. Inhibitory effects were observed with fresh litter in closed systems, with a positive correlation with extractable C and negative with lignin and lignin : N ratio. Alnus self-DNA, but not heterologous one, caused acute toxic effects in the closed system. Our results demonstrate the first field-based evidence for self-DNA inhibition as causal factor of negative feedback between plants and substrate.
Collapse
Affiliation(s)
- Giuliano Bonanomi
- Department of Agricultural SciencesUniversity of Naples Federico IIvia Università 10080055Portici (Naples)Italy
- Task Force on Microbiome StudiesUniversity of Naples Federico II80100NaplesItaly
| | - Maurizio Zotti
- Department of Agricultural SciencesUniversity of Naples Federico IIvia Università 10080055Portici (Naples)Italy
| | - Mohamed Idbella
- Department of Agricultural SciencesUniversity of Naples Federico IIvia Università 10080055Portici (Naples)Italy
| | - Pasquale Termolino
- CNR‐IBBR institute of Bioscience and BioResourcesVia Università 13380055Portici (Naples)Italy
| | - Veronica De Micco
- Department of Agricultural SciencesUniversity of Naples Federico IIvia Università 10080055Portici (Naples)Italy
| | - Stefano Mazzoleni
- Department of Agricultural SciencesUniversity of Naples Federico IIvia Università 10080055Portici (Naples)Italy
- Task Force on Microbiome StudiesUniversity of Naples Federico II80100NaplesItaly
| |
Collapse
|
22
|
Kim D, Riu M, Oh SK, Ryu CM. Extracellular self-RNA: A danger elicitor in pepper induces immunity against bacterial and viral pathogens in the field. FRONTIERS IN PLANT SCIENCE 2022; 13:864086. [PMID: 36226289 PMCID: PMC9549290 DOI: 10.3389/fpls.2022.864086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/28/2022] [Accepted: 08/08/2022] [Indexed: 06/16/2023]
Abstract
Plants and animals serve as hosts for microbes. To protect themselves from microbe-induced damage, plants and animals need to differentiate self-molecules/signals from non-self, microbe-derived molecules. Damage-associated molecular patterns (DAMPs) are danger signals released from the damaged host tissue or present on the surface of stressed cells. Although a self-extracellular DNA has previously been shown to act as a DAMP in different plant species, the existence of a self-extracellular RNA (eRNA) as a danger signal in plants remains unknown. Here, we firstly evaluated the ability of a pepper self-eRNA to activate immunity against viral and bacterial pathogens under field conditions. Pepper leaves pre-infiltrated with self-eRNA exhibited reduced titer of the naturally occurring Tomato spotted wilt virus and diminished symptoms of Xanthomonas axonopodis pv. vesicatoria infection through eliciting defense priming of abscisic acid signaling. At the end of the growing season at 90 days after transplanting, pepper plants treated with self- and non-self-eRNAs showed no difference in fruit yield. Taken together, our discovery demonstrated that self-eRNA can successfully activate plant systemic immunity without any growth penalty, indicating its potential as a novel disease management agent against a broad range of pathogenic microbes.
Collapse
Affiliation(s)
- Doyeon Kim
- Molecular Phytobacteriology Laboratory, Infectious Disease Research Center, KRIBB, Daejeon, South Korea
- Department of Biosystems and Bioengineering, KRIBB School of Biotechnology, University of Science and Technology, Daejeon, South Korea
| | - Myoungjoo Riu
- Molecular Phytobacteriology Laboratory, Infectious Disease Research Center, KRIBB, Daejeon, South Korea
- Department of Applied Biology, College of Agriculture & Life Sciences, Chungnam National University, Daejeon, South Korea
| | - Sang-Keun Oh
- Department of Applied Biology, College of Agriculture & Life Sciences, Chungnam National University, Daejeon, South Korea
| | - Choong-Min Ryu
- Molecular Phytobacteriology Laboratory, Infectious Disease Research Center, KRIBB, Daejeon, South Korea
- Department of Biosystems and Bioengineering, KRIBB School of Biotechnology, University of Science and Technology, Daejeon, South Korea
| |
Collapse
|
23
|
Jiang M, He L, Fan B, Wang T, Yang N, Liu Y, Xu Y, Dong K, Hao G, Chen L, Ren A, Zhao N, Wang J, Gao Y. Intraspecific more than interspecific diversity plays an important role on Inner Mongolia grassland ecosystem functions: A microcosm experiment. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 826:154134. [PMID: 35219658 DOI: 10.1016/j.scitotenv.2022.154134] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Revised: 02/21/2022] [Accepted: 02/21/2022] [Indexed: 06/14/2023]
Abstract
Biodiversity changes in terrestrial communities continue in the context of global changes. However, the interactive effects of the changes in diversity at inter- and intraspecific levels as well as cascading effects from plant to soil microorganisms on ecosystem functioning under climate changes remains largely unexplored. Using grassland species in the semi-arid Inner Mongolia Steppe, we conducted a microcosm experiment to assess how drought treatment (non-drought and drought conditions), species diversity (2, 4, and 7 species) and genotypic diversity of the dominant species Leymus chinensis (1, 3, and 6 genotypes) affected ecosystem functions directly or indirectly via regulating plant community functional structure [community-weighted mean (CWM) and functional dispersion (FDis)] and soil microbial diversity (Shannon-Wiener index). Drought treatment, species and genotypic diversity significantly and interactively affected soil N, P cycle and soil multifunctionality as well as soil microbial diversity. Drought treatment significantly affected biomass, soil C cycle, CWM and soil microbial diversity. Species diversity significantly affected soil N cycle, CWM and FDis, and genotypic diversity significantly affected all soil functions and soil microbial diversity. CWM regulated the responses of all ecosystem functions except soil N cycle to the changes in soil moisture and species diversity, which supports the mass ratio hypothesis. The cascading effect from genotypic diversity to soil microbial diversity was significant on belowground biomass but not on any of the other ecosystem functions observed in this study. These findings highlight the importance of genotypic diversity of the dominant species L. chinensis in affecting belowground ecosystem functioning as well as soil microbial diversity, which should not be ignored for grassland protection and management. This study provides further insights into biodiversity and ecosystem functioning mechanisms in semi-arid grasslands in the context of global climate changes.
Collapse
Affiliation(s)
- Man Jiang
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Luoyang He
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Baijie Fan
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Tao Wang
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Nan Yang
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Yulin Liu
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Yujuan Xu
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Ke Dong
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Guang Hao
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Lei Chen
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Anzhi Ren
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| | - Nianxi Zhao
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China.
| | - Jinlong Wang
- College of Agronomy & Resources and Environment, Tianjin Agricultural University, No. 22 Jinjing Road, Tianjin 300384, PR China
| | - Yubao Gao
- Department of Plant Biology and Ecology, College of Life Science, Nankai University, No. 94 Weijin Road, Tianjin 300071, PR China
| |
Collapse
|
24
|
Holík J, Janík D. Seed and seedling predation by vertebrates mediates the effects of adult trees in two temperate tree species. Oecologia 2022; 199:625-636. [PMID: 35661249 DOI: 10.1007/s00442-022-05203-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2022] [Accepted: 05/24/2022] [Indexed: 11/25/2022]
Abstract
Specialised natural enemies can locally suppress seeds and seedlings near conspecific adults more than far from them. Whilst this is thought to facilitate species coexistence, the relative contribution of multiple enemies to whether heterospecific seeds and seedlings rather than conspecifics perform better beneath a particular adult species remains less clear, especially in regions with spatially extensive monodominant stands. We designed a field exclusion experiment to separate the effects of fungi, insects and vertebrates on the seedling establishment and early survival of two temperate tree species, Fagus sylvatica and Picea abies, in the adult tree monocultures of these species. Our experiment demonstrates the key role of vertebrates in mediating the effects of adult trees on seeds and seedlings. Due to vertebrates and partly insects, Fagus sylvatica seedlings survived worse beneath conspecific than heterospecific adults and were also outperformed by Picea abies seedlings beneath their own adults. Picea abies seedling establishment was higher beneath conspecific than heterospecific adults, but Fagus sylvatica seedlings outperformed them beneath their own adults. The impact of enemies on Picea abies establishment beneath conspecific adults was less clear. Fungi did not influence seedling establishment and survival. Our findings highlight the need to compare enemy impacts on each seedling species beneath conspecific and heterospecific adults with their impacts on conspecific and heterospecific seedlings beneath a particular adult species. Such evaluations can shed more light on the role of enemies in tree communities by identifying the plant-enemy interactions that facilitate species coexistence and those that promote species monodominance.
Collapse
Affiliation(s)
- Jan Holík
- Department of Forest Ecology, The Silva Tarouca Research Institute for Landscape and Ornamental Gardening, Lidická 25/27, 602 00, Brno, Czech Republic.
- Department of Silviculture, Faculty of Forestry and Wood Technology, Mendel University in Brno, Zemědělská 3, 613 00, Brno, Czech Republic.
| | - David Janík
- Department of Forest Ecology, The Silva Tarouca Research Institute for Landscape and Ornamental Gardening, Lidická 25/27, 602 00, Brno, Czech Republic
| |
Collapse
|
25
|
Inderjit, Callaway RM, Meron E. Vegetation patterning and biodiversity of plant communities. Phys Life Rev 2022; 42:29-32. [DOI: 10.1016/j.plrev.2022.05.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2022] [Accepted: 05/23/2022] [Indexed: 11/30/2022]
|
26
|
Palomba E, Chiaiese P, Termolino P, Paparo R, Filippone E, Mazzoleni S, Chiusano ML. Effects of Extracellular Self- and Nonself-DNA on the Freshwater Microalga Chlamydomonas reinhardtii and on the Marine Microalga Nannochloropsis gaditana. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11111436. [PMID: 35684209 PMCID: PMC9183124 DOI: 10.3390/plants11111436] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Revised: 05/19/2022] [Accepted: 05/26/2022] [Indexed: 05/11/2023]
Abstract
The role of extracellular DNA (exDNA) in soil and aquatic environments was mainly discussed in terms of source of mineral nutrients and of genetic material for horizontal gene transfer. Recently, the self-exDNA (conspecific) has been shown to have an inhibitory effect on the growth of that organism, while the same was not evident for nonself-exDNA (non conspecific). The inhibitory effect of self-exDNA was proposed as a universal phenomenon, although evidence is mainly reported for terrestrial species. The current study showed the inhibitory effect of self-exDNA also on photosynthetic aquatic microorganisms. We showed that self-exDNA inhibits the growth of the microalgae Chlamydomonas reinhardtii and Nannochloropsis gaditana, a freshwater and a marine species, respectively. In addition, the study also revealed the phenotypic effects post self-exDNA treatments. Indeed, Chlamydomonas showed the formation of peculiar heteromorphic aggregates of palmelloid cells embedded in an extracellular matrix, favored by the presence of DNA in the environment, that is not revealed after exposure to nonself-exDNA. The differential effect of self and nonself-exDNA on both microalgae, accompanied by the inhibitory growth effect of self-exDNA are the first pieces of evidence provided for species from aquatic environments.
Collapse
Affiliation(s)
- Emanuela Palomba
- Department of Research Infrastructures for Marine Biological Resources, Stazione Zoologica “Anton Dohrn”, 80121 Naples, Italy;
| | - Pasquale Chiaiese
- Department of Agricultural Sciences, Università degli Studi di Napoli Federico II, 80055 Portici, Italy; (P.C.); (E.F.); (S.M.)
| | - Pasquale Termolino
- Institute of Biosciences and Bioresources, National Research Council, 80055 Portici, Italy; (P.T.); (R.P.)
| | - Rosa Paparo
- Institute of Biosciences and Bioresources, National Research Council, 80055 Portici, Italy; (P.T.); (R.P.)
| | - Edgardo Filippone
- Department of Agricultural Sciences, Università degli Studi di Napoli Federico II, 80055 Portici, Italy; (P.C.); (E.F.); (S.M.)
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, Università degli Studi di Napoli Federico II, 80055 Portici, Italy; (P.C.); (E.F.); (S.M.)
| | - Maria Luisa Chiusano
- Department of Research Infrastructures for Marine Biological Resources, Stazione Zoologica “Anton Dohrn”, 80121 Naples, Italy;
- Department of Agricultural Sciences, Università degli Studi di Napoli Federico II, 80055 Portici, Italy; (P.C.); (E.F.); (S.M.)
- Correspondence: ; Tel.: +39-81-2539492
| |
Collapse
|
27
|
Aldorfová A, Dostálek T, Münzbergová Z. Effects of soil conditioning, root and shoot litter addition interact to determine the intensity of plant–soil feedback. OIKOS 2022. [DOI: 10.1111/oik.09025] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Anna Aldorfová
- Inst. of Botany of the Czech Academy of Sciences Průhonice Czech Republic
- Dept of Botany, Faculty of Science, Charles Univ. in Prague Praha 2 Czech Republic
| | - Tomáš Dostálek
- Inst. of Botany of the Czech Academy of Sciences Průhonice Czech Republic
- Dept of Botany, Faculty of Science, Charles Univ. in Prague Praha 2 Czech Republic
| | - Zuzana Münzbergová
- Inst. of Botany of the Czech Academy of Sciences Průhonice Czech Republic
- Dept of Botany, Faculty of Science, Charles Univ. in Prague Praha 2 Czech Republic
| |
Collapse
|
28
|
Kiselev KV, Suprun AR, Aleynova OA, Ogneva ZV, Kostetsky EY, Dubrovina AS. The Specificity of Transgene Suppression in Plants by Exogenous dsRNA. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11060715. [PMID: 35336598 PMCID: PMC8954795 DOI: 10.3390/plants11060715] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2022] [Revised: 02/16/2022] [Accepted: 03/06/2022] [Indexed: 05/03/2023]
Abstract
The phenomenon of RNA interference (RNAi) is widely used to develop new approaches for crop improvement and plant protection. Recent investigations show that it is possible to downregulate plant transgenes, as more prone sequences to silencing than endogenous genes, by exogenous application of double-stranded RNAs (dsRNAs) and small interfering RNAs (siRNAs). However, there are scarce data on the specificity of exogenous RNAs. In this study, we explored whether plant transgene suppression is sequence-specific to exogenous dsRNAs and whether similar effects can be caused by exogenous DNAs that are known to be perceived by plants and induce certain epigenetic and biochemical changes. We treated transgenic plants of Arabidopsis thaliana bearing the neomycin phosphotransferase II (NPTII) transgene with specific synthetic NPTII-dsRNAs and non-specific dsRNAs, encoding enhanced green fluorescent protein (EGFP), as well as with DNA molecules mimicking the applied RNAs. None of the EGFP-dsRNA doses resulted in a significant decrease in NPTII transgene expression in the NPTII-transgenic plants, while the specific NPTII-dsRNA significantly reduced NPTII expression in a dose-dependent manner. Long DNAs mimicking dsRNAs and short DNA oligonucleotides mimicking siRNAs did not exhibit a significant effect on NPTII transgene expression. Thus, exogenous NPTII-dsRNAs induced a sequence-specific and RNA-specific transgene-suppressing effect, supporting external application of dsRNAs as a promising strategy for plant gene regulation.
Collapse
Affiliation(s)
- Konstantin V. Kiselev
- Laboratory of Biotechnology, Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the Russian Academy of Sciences, 690022 Vladivostok, Russia; (K.V.K.); (A.R.S.); (O.A.A.); (Z.V.O.)
| | - Andrey R. Suprun
- Laboratory of Biotechnology, Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the Russian Academy of Sciences, 690022 Vladivostok, Russia; (K.V.K.); (A.R.S.); (O.A.A.); (Z.V.O.)
| | - Olga A. Aleynova
- Laboratory of Biotechnology, Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the Russian Academy of Sciences, 690022 Vladivostok, Russia; (K.V.K.); (A.R.S.); (O.A.A.); (Z.V.O.)
| | - Zlata V. Ogneva
- Laboratory of Biotechnology, Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the Russian Academy of Sciences, 690022 Vladivostok, Russia; (K.V.K.); (A.R.S.); (O.A.A.); (Z.V.O.)
| | - Eduard Y. Kostetsky
- Department of Biochemistry, Microbiology and Biotechnology, Far Eastern Federal University, 690090 Vladivostok, Russia;
| | - Alexandra S. Dubrovina
- Laboratory of Biotechnology, Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the Russian Academy of Sciences, 690022 Vladivostok, Russia; (K.V.K.); (A.R.S.); (O.A.A.); (Z.V.O.)
- Correspondence:
| |
Collapse
|
29
|
Germoglio M, Adamo A, Incerti G, Cartenì F, Gigliotti S, Storlazzi A, Mazzoleni S. Self-DNA Exposure Induces Developmental Defects and Germline DNA Damage Response in Caenorhabditis elegans. BIOLOGY 2022; 11:262. [PMID: 35205128 PMCID: PMC8869574 DOI: 10.3390/biology11020262] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Revised: 02/03/2022] [Accepted: 02/04/2022] [Indexed: 02/06/2023]
Abstract
All organisms, from bacteria to mammals, sense and respond to foreign nucleic acids to fight infections in order to survive and preserve genome integrity across generations. The innate immune system is an evolutionarily conserved defence strategy. Complex organisms have developed various cellular processes to respond to and recognise not only infections, i.e., pathogen-associated molecular patterns (PAMPs), but also to sense injury and tissue dysfunctions, i.e., damage-associated molecular patterns (DAMPs). Mis-localized self-DNA can be sensed as DAMP by specific DNA-sensing pathways, and self-DNA chronic exposure can be detrimental to the organisms. Here, we investigate the effects of dietary delivered self-DNA in the nematode Caenorhabditis elegans. The hermaphrodite worms were fed on Escherichia coli genomic libraries: a C. elegans library (self) and a legume (Medicago truncatula) library (non-self). We show that the self-library diet affects embryogenesis, larval development and gametogenesis. DNA damage and activation of p53/CEP-1-dependent apoptosis occur in gonadal germ cells. Studies of self-DNA exposure in this model organism were not pursued up to now. The genetic tractability of C. elegans will help to identify the basic molecular pathways involved in such mechanisms. The specificity of the adverse effects associated with a self-DNA enriched diet suggests applications in biological pest control approaches.
Collapse
Affiliation(s)
- Marcello Germoglio
- Institute of Biosciences and BioResources, National Research Council, Via Pietro Castellino 111, 80131 Napoli, Italy; (M.G.); (A.A.); (S.G.)
| | - Adele Adamo
- Institute of Biosciences and BioResources, National Research Council, Via Pietro Castellino 111, 80131 Napoli, Italy; (M.G.); (A.A.); (S.G.)
| | - Guido Incerti
- Department of Agri-Food, Animal and Environmental Sciences (DI4A), University of Udine, 33100 Udine, Italy;
| | - Fabrizio Cartenì
- Department of Agricultural Sciences, Università degli Studi di Napoli Federico II, 80055 Portici, Italy;
| | - Silvia Gigliotti
- Institute of Biosciences and BioResources, National Research Council, Via Pietro Castellino 111, 80131 Napoli, Italy; (M.G.); (A.A.); (S.G.)
| | - Aurora Storlazzi
- Institute of Biosciences and BioResources, National Research Council, Via Pietro Castellino 111, 80131 Napoli, Italy; (M.G.); (A.A.); (S.G.)
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, Università degli Studi di Napoli Federico II, 80055 Portici, Italy;
| |
Collapse
|
30
|
Increased Tea Saponin Content Influences the Diversity and Function of Plantation Soil Microbiomes. Microbiol Spectr 2022; 10:e0232421. [PMID: 35019691 PMCID: PMC8754145 DOI: 10.1128/spectrum.02324-21] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Plant secondary metabolites (PSMs) can affect the structures and functions of soil microbiomes. However, the core bacteria associated with PSMs, and their corresponding functions have not been explored extensively. In this study, soil physicochemical properties, tea saponin (TS) contents, microbial community compositions, and microbial community functions of different-age Camellia oleifera plantation soils from representative regions were analyzed. We evaluated the effects of plantation age increase on PSM accumulation, and the subsequent consequences on the structures and functions of soil microbiomes. Plantation ages increase positively correlated with accumulated TS contents, negative effects on soil physicochemical properties, and soil microbiome structures and functions. Clearly, the core functions of soil microbiomes transitioned to those associated with PSM metabolisms, while microbial pathways involved in cellulose degradation were inhibited. Our study systematically explored the influences of PSMs on soil microbiomes via the investigation of key bacterial populations and their functional pathways. With the increase in planting years, increased TS content simplified soil microbiome diversity, inhibited the degradation of organic matter, and enriched the genes related to the degradation of TS. These findings significantly advance our understanding on PSMs-microbiome interactions and could provide fundamental and important data for sustainable management of Camellia plantations. IMPORTANCE Plant secondary metabolites (PSMs) contained in plant litter will be released into soil with the decomposition process, which will affect the diversity and function of soil microbiomes. The response of soil microbiomes to PSMs in terms of diversity and function can provide an important theoretical basis for plantations to put forward rational soil ecological management measures. The effects of planting years on PSM content, soil physicochemical properties, microbial diversity, and function, as well as the interaction between each index in Camellia oleifera plantation soil are still unclear. We found that, with planting years increased, the accumulation of tea saponin (TS) led to drastic changes in the diversity and function of soil microbiomes, which hindered the decomposition of organic matter and enriched many genes related to PSM degradation. We first found that soil bacteria, represented by Acinetobacter, were significantly associated with TS degradation. Our results provide important data for proposing rational soil management measures for pure forest plantations.
Collapse
|
31
|
Rietkerk M. Spatial pattern formation, community assembly and resilience: Comment on "Belowground feedbacks as drivers of spatial self-organization and community assembly" by Inderjit, Ragan M. Callaway, Ehud Meron. Phys Life Rev 2021; 40:51-53. [PMID: 34823977 DOI: 10.1016/j.plrev.2021.11.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2021] [Accepted: 11/09/2021] [Indexed: 11/12/2022]
Affiliation(s)
- Max Rietkerk
- Copernicus Institute of Sustainable Development, Utrecht University, P.O. Box 80.115, 3508 TC, Utrecht, the Netherlands.
| |
Collapse
|
32
|
Chiusano ML, Incerti G, Colantuono C, Termolino P, Palomba E, Monticolo F, Benvenuto G, Foscari A, Esposito A, Marti L, de Lorenzo G, Vega-Muñoz I, Heil M, Carteni F, Bonanomi G, Mazzoleni S. Arabidopsis thaliana Response to Extracellular DNA: Self Versus Nonself Exposure. PLANTS (BASEL, SWITZERLAND) 2021; 10:plants10081744. [PMID: 34451789 PMCID: PMC8400022 DOI: 10.3390/plants10081744] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/27/2021] [Revised: 08/12/2021] [Accepted: 08/17/2021] [Indexed: 01/14/2023]
Abstract
The inhibitory effect of extracellular DNA (exDNA) on the growth of conspecific individuals was demonstrated in different kingdoms. In plants, the inhibition has been observed on root growth and seed germination, demonstrating its role in plant-soil negative feedback. Several hypotheses have been proposed to explain the early response to exDNA and the inhibitory effect of conspecific exDNA. We here contribute with a whole-plant transcriptome profiling in the model species Arabidopsis thaliana exposed to extracellular self- (conspecific) and nonself- (heterologous) DNA. The results highlight that cells distinguish self- from nonself-DNA. Moreover, confocal microscopy analyses reveal that nonself-DNA enters root tissues and cells, while self-DNA remains outside. Specifically, exposure to self-DNA limits cell permeability, affecting chloroplast functioning and reactive oxygen species (ROS) production, eventually causing cell cycle arrest, consistently with macroscopic observations of root apex necrosis, increased root hair density and leaf chlorosis. In contrast, nonself-DNA enters the cells triggering the activation of a hypersensitive response and evolving into systemic acquired resistance. Complex and different cascades of events emerge from exposure to extracellular self- or nonself-DNA and are discussed in the context of Damage- and Pathogen-Associated Molecular Patterns (DAMP and PAMP, respectively) responses.
Collapse
Affiliation(s)
- Maria Luisa Chiusano
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy; (F.M.); (F.C.); (G.B.)
- Department of Research Infrastructures for Marine Biological Resources (RIMAR), Stazione Zoologica “Anton Dohrn”, 80121 Napoli, Italy;
- Correspondence: (M.L.C.); (S.M.)
| | - Guido Incerti
- Department of Agri-Food, Animal and Environmental Sciences, University of Udine, 33100 Udine, Italy;
| | - Chiara Colantuono
- Telethon Institute of Genetics and Medicine, via campi Flegrei, 34 Pozzuoli, 80078 Napoli, Italy;
| | - Pasquale Termolino
- Institute of Biosciences and Bioresources (IBBR), National Research Council of Italy (CNR), 80055 Portici, Italy;
| | - Emanuela Palomba
- Department of Research Infrastructures for Marine Biological Resources (RIMAR), Stazione Zoologica “Anton Dohrn”, 80121 Napoli, Italy;
| | - Francesco Monticolo
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy; (F.M.); (F.C.); (G.B.)
| | - Giovanna Benvenuto
- Biology and Evolution of Marine Organisms Department (BEOM), Stazione Zoologica “Anton Dohrn”, 80121 Napoli, Italy;
| | - Alessandro Foscari
- Dipartimento di Scienze della Vita, University of Trieste, 34127 Trieste, Italy;
| | - Alfonso Esposito
- Department of Cellular, Computational and Integrative Biology—CIBIO, University of Trento, 38123 Trento, Italy;
| | - Lucia Marti
- Department of Biology and Biotechnology “C. Darwin”, Sapienza University of Rome, 00185 Rome, Italy; (L.M.); (G.d.L.)
| | - Giulia de Lorenzo
- Department of Biology and Biotechnology “C. Darwin”, Sapienza University of Rome, 00185 Rome, Italy; (L.M.); (G.d.L.)
| | - Isaac Vega-Muñoz
- Departemento de Ingeniería Genética, CINVESTAV-Irapuato, Guanajuato 36821, Mexico; (I.V.-M.); (M.H.)
| | - Martin Heil
- Departemento de Ingeniería Genética, CINVESTAV-Irapuato, Guanajuato 36821, Mexico; (I.V.-M.); (M.H.)
| | - Fabrizio Carteni
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy; (F.M.); (F.C.); (G.B.)
| | - Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy; (F.M.); (F.C.); (G.B.)
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy; (F.M.); (F.C.); (G.B.)
- Correspondence: (M.L.C.); (S.M.)
| |
Collapse
|
33
|
Belowground feedbacks as drivers of spatial self-organization and community assembly. Phys Life Rev 2021; 38:1-24. [PMID: 34334324 DOI: 10.1016/j.plrev.2021.07.002] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2021] [Accepted: 07/12/2021] [Indexed: 02/03/2023]
Abstract
Vegetation patterning in water-limited and other resource-limited ecosystems highlights spatial self-organization processes as potentially key drivers of community assembly. These processes provide insight into predictable landscape-level relationships between organisms and their abiotic environment in the form of regular and irregular patterns of biota and resources. However, two aspects have largely been overlooked; the roles played by plant - soil-biota feedbacks and allelopathy in spatial self-organization, and their potential contribution, along with plant-resource feedbacks, to community assembly through spatial self-organization. Here, we expand the drivers of spatial self-organization from a focus on plant-resource feedbacks to include plant - soil-biota feedbacks and allelopathy, and integrate concepts of nonlinear physics and community ecology to generate a new hypothesis. According to this hypothesis, below-ground processes can affect community assemblages through two types of spatial self-organization, global and local. The former occurs simultaneously across whole ecosystems, leading to self-organized patterns of biota, allelochemicals and resources, and niche partitioning. The latter occurs locally in ecotones, and determines ecotone structure and motion, invasion dynamics, and species coexistence. Studies of the two forms of spatial self-organization are important for understanding the organization of plant communities in drier climates which are likely to involve spatial patterning or re-patterning. Such studies are also important for developing new practices of ecosystem management, based on local manipulations at ecotones, to slow invasion dynamics or induce transitions from transitive to intransitive networks of interspecific interactions which increase species diversity.
Collapse
|
34
|
Bednarek PT, Pachota KA, Dynkowska WM, Machczyńska J, Orłowska R. Understanding In Vitro Tissue Culture-Induced Variation Phenomenon in Microspore System. Int J Mol Sci 2021; 22:7546. [PMID: 34299165 PMCID: PMC8304781 DOI: 10.3390/ijms22147546] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2021] [Revised: 06/24/2021] [Accepted: 07/08/2021] [Indexed: 12/13/2022] Open
Abstract
In vitro tissue culture plant regeneration is a complicated process that requires stressful conditions affecting the cell functioning at multiple levels, including signaling pathways, transcriptome functioning, the interaction between cellular organelles (retro-, anterograde), compounds methylation, biochemical cycles, and DNA mutations. Unfortunately, the network linking all these aspects is not well understood, and the available knowledge is not systemized. Moreover, some aspects of the phenomenon are poorly studied. The present review attempts to present a broad range of aspects involved in the tissue culture-induced variation and hopefully would stimulate further investigations allowing a better understanding of the phenomenon and the cell functioning.
Collapse
Affiliation(s)
- Piotr Tomasz Bednarek
- Plant Breeding and Acclimatization Institute—National Research Institute, Radzików, 05-870 Błonie, Poland; (K.A.P.); (W.M.D.); (J.M.); (R.O.)
| | | | | | | | | |
Collapse
|
35
|
Arias Font R, Khamis K, Milner AM, Sambrook Smith GH, Ledger ME. Low flow and heatwaves alter ecosystem functioning in a stream mesocosm experiment. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 777:146067. [PMID: 33677285 DOI: 10.1016/j.scitotenv.2021.146067] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Revised: 02/16/2021] [Accepted: 02/20/2021] [Indexed: 05/12/2023]
Abstract
Climate change is expected to intensify the effect of environmental stressors on riverine ecosystems. Extreme events, such as low flow and heatwaves, could have profound consequences for stream ecosystem functioning, but research on the impact of these stressors and their interaction across multiple processes, remains scarce. Here, we report the results of a two-month stream mesocosm experiment testing the effect of low flow (66% water level reduction, without gravel exposure) and heatwaves (three 8-d episodes of +5 °C above ambient with 10-15 days recovery between each episode) on a suite of ecosystem processes (i.e. detrital decomposition, biofilm accrual, ecosystem metabolism and DOC quantity and quality). Low flow reduced whole system metabolism, suppressing the rates of gross primary production (GPP) and ecosystem respiration (ER), but elevated DOC concentration. Overall, habitat contraction was the main driver of reduced ecosystem functioning in the low flow treatment. By contrast, heatwaves increased decomposition, algal accrual, and humic-like DOC, but reduced leaf decomposition efficiency. Net ecosystem production (NEP) generally decreased across the experiment but was most pronounced for low flow and heatwaves when occurring independently. Assessment of NEP responses to the three successive heatwave events revealed that responses later in the sequence were more reduced (i.e. more similar to controls), suggesting biofilm communities may acclimate to autumn heatwaves. However, when heatwaves co-occurred with low flow, a strong reduction in both ER and GPP was observed, suggesting increased microbial mortality and reduced acclimation. Our study reveals autumn heatwaves potentially elongate the growth season for primary producers and stimulate decomposers. With climate change, river ecosystems may become more heterotrophic, with faster processing of recalcitrant carbon. Further research is required to identify the impacts on higher trophic levels, meta-community dynamics and the potential for legacy effects generated by successive low flows and heatwaves.
Collapse
Affiliation(s)
- Raquel Arias Font
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK.
| | - Kieran Khamis
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK
| | - Alexander M Milner
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK
| | - Gregory H Sambrook Smith
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK
| | - Mark E Ledger
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK
| |
Collapse
|
36
|
Bonanomi G, Zotti M, Idbella M, Mazzoleni S, Abd-ElGawad AM. Microbiota modulation of allelopathy depends on litter chemistry: Mitigation or exacerbation? THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 776:145942. [PMID: 33640554 DOI: 10.1016/j.scitotenv.2021.145942] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2020] [Revised: 12/07/2020] [Accepted: 02/14/2021] [Indexed: 06/12/2023]
Abstract
Having a pivotal role in biogeochemical cycles, litter decomposition affects plant growth and regeneration by inducing the release of allelochemicals. The aim of this study was to assess the role of the microbiota in modulating the allelopathic effects of freshly fallen and decomposed leaf litter. To disentangle the chemical and microbial effects, bioassays were carried out on four target plants in sterile and non-sterile conditions. All litter types were characterized by carbon-13 cross polarization magic-angle spinning nuclear magnetic resonance (13C-CPMAS NMR) spectroscopy, and the associated fungal and bacterial microbiota were described by next-generation sequencing. When the litter extract was sterilized, freshly fallen litter severely inhibited the plant root growth, but during decomposition, the allelopathic effect rapidly decreased. Root growth was negatively correlated with extractable carbon and positively correlated with parameters associated with tissue lignification. In non-sterile conditions, the living microbiota modulated the leaf litter allelopathic effects of mitigation (26.5% of cases) and exacerbation (26.6% of cases). The mitigation effect was more frequent and intense in stressful conditions, i.e., highly phytotoxic freshly fallen litter, than in benign environments, i.e., decomposed litter. Finally, we identified specific bacterial and fungal operational taxonomic units (OTUs) that could be involved in the mediation of the litter allelopathic effect. This study highlights the importance of studying allelopathy in both sterile conditions and in the presence of a living microbiota to assess the role of litter chemistry and the potential impact of plant detritus on the agro-ecosystem and natural plant communities.
Collapse
Affiliation(s)
- Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055 Portici, NA, Italy; Task Force on Microbiome Studies, University of Naples Federico II, Naples, Italy
| | - Maurizio Zotti
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055 Portici, NA, Italy
| | - Mohamed Idbella
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055 Portici, NA, Italy; Biosciences laboratory, Faculty of Sciences and Techniques, Hassan II university of Casablanca, Morocco
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055 Portici, NA, Italy; Task Force on Microbiome Studies, University of Naples Federico II, Naples, Italy
| | - Ahmed M Abd-ElGawad
- Plant Production Department, College of Food & Agriculture Sciences, King Saud University, P.O. Box 2460, Riyadh 11451, Saudi Arabia; Department of Botany, Faculty of Sciences, Mansoura University, Mansoura 35516, Egypt.
| |
Collapse
|
37
|
Meitha K, Esyanti RR, Iriawati, Hanisia RH, Rohyani. Green pesticide: Tapping to the promising roles of plant secreted small RNAs and responses towards extracellular DNA. Noncoding RNA Res 2021; 6:42-50. [PMID: 33778217 PMCID: PMC7970063 DOI: 10.1016/j.ncrna.2021.02.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2020] [Revised: 02/02/2021] [Accepted: 02/07/2021] [Indexed: 12/19/2022] Open
Abstract
The diverse roles of non-coding RNA and DNA in cross-species communication is yet to be revealed. Once thought to only involve intra-specifically in regulating gene expression, the evidence that these genetic materials can also modulate gene expression between species that belong to different kingdoms is accumulating. Plants send small RNAs to the pathogen or parasite when they are being attacked, targeting essential mRNAs for infection or parasitism of the hosts. However, the same survival mechanism is also deployed by the pathogen or parasite to destabilize plant immune responses. In plants, it is suggested that exposure to extracellular self-DNA impedes growth, while to extracellular non-self-DNA induces the modulation of reactive oxygen species, expression of resistance related genes, epigenetic mechanism, or suppression of disease severity. Exploring the potential of secreted RNA and extracellular DNA as a green pesticide could be a promising alternative if we are to provide food for the future global population without further damaging the environment. Hence, some studies on plant secreted RNA and responses towards extracellular DNA are discussed in this review. The precise mode of action of entry and the following cascade of signaling once the plant cell is exposed to secreted RNA or extracellular DNA could be an interesting topic for future research.
Collapse
Affiliation(s)
- Karlia Meitha
- School of Life Sciences and Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung, 40132, West Java, Indonesia
| | - Rizkita Rachmi Esyanti
- School of Life Sciences and Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung, 40132, West Java, Indonesia
| | - Iriawati
- School of Life Sciences and Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung, 40132, West Java, Indonesia
| | - Ristag Hamida Hanisia
- School of Life Sciences and Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung, 40132, West Java, Indonesia
| | - Rohyani
- School of Life Sciences and Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung, 40132, West Java, Indonesia
| |
Collapse
|
38
|
Serrano-Jamaica LM, Villordo-Pineda E, González-Chavira MM, Guevara-González RG, Medina-Ramos G. Effect of Fragmented DNA From Plant Pathogens on the Protection Against Wilt and Root Rot of Capsicum annuum L. Plants. FRONTIERS IN PLANT SCIENCE 2021; 11:581891. [PMID: 33510742 PMCID: PMC7835333 DOI: 10.3389/fpls.2020.581891] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2020] [Accepted: 11/25/2020] [Indexed: 05/29/2023]
Abstract
Chili pepper (Capsicum annuum L.) production is affected by wilt and root rot, the most devastating disease caused by the pathogen complex of oomycete Phytophthora capsici Leon and the fungi Fusarium oxysporum Schlecht and Rhizoctonia solani Kühn, infecting roots, stems, leaves, and fruits. Fungicides are currently inefficient against this disease and have a high environmental impact. The use of elicitors is a sustainable alternative for inducing resistance to wilting and root rot. DNA fragments of an organism's own origin (conspecific or self-DNA) have shown the ability to inhibit growth and activate defense mechanisms in some plant species. In this investigation, the effect of the fragmented DNA mixture of Phytophthora capsici L., Fusarium oxysporum S., and Rhizoctonia solani K. on the protection against wilt and root rot of Capsicum annuum L. plants was evaluated. Changes in plant performance, phenolics, and flavonoids contents, as well as gene expression involved in the production of defense metabolites after the fragmented and unfragmented DNA mixture in three concentrations (20, 60, and 100 μg mL-1) in chili peppers, were studied. The results obtained showed a decrease in plant height in 60 and 100 μg mL-1 concentrations in absence of pathogens. Moreover, the treatment with fragmented DNA 100 μg mL-1 showed significant increase in the content of phenolic compounds and total flavonoids as well as gene expression associated to plant defense in comparison with control plants. Interestingly, foliar application of DNA fragments of the pathogen complex to a concentration of 100 μg mL-1 caused a 40% decrease in the mortality of infected plants with the pathogens at 30 days post-inoculation compared with control plants inoculated with the pathogen complex but not sprayed with DNA fragments. These results suggested a perspective for application of fragmented DNA of these pathogens at the agricultural level in crop protection strategies to cope with wilt and root rot in Capsicum.
Collapse
Affiliation(s)
| | - Emiliano Villordo-Pineda
- Molecular Markers Laboratory, Bajío Experimental Field, National Institute for Forestry, Agriculture and Livestock Research, Celaya, Mexico
| | - Mario Martín González-Chavira
- Molecular Markers Laboratory, Bajío Experimental Field, National Institute for Forestry, Agriculture and Livestock Research, Celaya, Mexico
| | | | - Gabriela Medina-Ramos
- Molecular Plant Pathology Laboratory, Polytechnic University of Guanajuato, Cortazar, Mexico
| |
Collapse
|
39
|
Barbero F, Guglielmotto M, Islam M, Maffei ME. Extracellular Fragmented Self-DNA Is Involved in Plant Responses to Biotic Stress. FRONTIERS IN PLANT SCIENCE 2021; 12:686121. [PMID: 34381477 PMCID: PMC8350447 DOI: 10.3389/fpls.2021.686121] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Accepted: 07/05/2021] [Indexed: 05/17/2023]
Abstract
A growing body of evidence indicates that extracellular fragmented self-DNA (eDNA), by acting as a signaling molecule, triggers inhibitory effects on conspecific plants and functions as a damage-associated molecular pattern (DAMP). To evaluate early and late events in DAMP-dependent responses to eDNA, we extracted, fragmented, and applied the tomato (Solanum lycopersicum) eDNA to tomato leaves. Non-sonicated, intact self-DNA (intact DNA) was used as control. Early event analyses included the evaluation of plasma transmembrane potentials (Vm), cytosolic calcium variations (Ca2+ cy t), the activity and subcellular localization of both voltage-gated and ligand-gated rectified K+ channels, and the reactive oxygen species (ROS) subcellular localization and quantification. Late events included RNA-Seq transcriptomic analysis and qPCR validation of gene expression of tomato leaves exposed to tomato eDNA. Application of eDNA induced a concentration-dependent Vm depolarization which was correlated to an increase in (Ca2+)cyt; this event was associated to the opening of K+ channels, with particular action on ligand-gated rectified K+ channels. Both eDNA-dependent (Ca2+)cyt and K+ increases were correlated to ROS production. In contrast, application of intact DNA produced no effects. The plant response to eDNA was the modulation of the expression of genes involved in plant-biotic interactions including pathogenesis-related proteins (PRPs), calcium-dependent protein kinases (CPK1), heat shock transcription factors (Hsf), heat shock proteins (Hsp), receptor-like kinases (RLKs), and ethylene-responsive factors (ERFs). Several genes involved in calcium signaling, ROS scavenging and ion homeostasis were also modulated by application of eDNA. Shared elements among the transcriptional response to eDNA and to biotic stress indicate that eDNA might be a common DAMP that triggers plant responses to pathogens and herbivores, particularly to those that intensive plant cell disruption or cell death. Our results suggest the intriguing hypothesis that some of the plant reactions to pathogens and herbivores might be due to DNA degradation, especially when associated to the plant cell disruption. Fragmented DNA would then become an important and powerful elicitor able to trigger early and late responses to biotic stress.
Collapse
Affiliation(s)
- Francesca Barbero
- Department of Life Sciences and Systems Biology, University of Turin, Turin, Italy
| | - Michela Guglielmotto
- Neuroscience Institute of Cavalieri Ottolenghi Foundation, University of Turin, Turin, Italy
| | - Monirul Islam
- Plant Physiology Unit, Department of Life Sciences and Systems Biology, University of Turin, Turin, Italy
| | - Massimo E. Maffei
- Plant Physiology Unit, Department of Life Sciences and Systems Biology, University of Turin, Turin, Italy
- *Correspondence: Massimo E. Maffei,
| |
Collapse
|
40
|
Idbella M, Bonanomi G, De Filippis F, Amor G, Chouyia FE, Fechtali T, Mazzoleni S. Contrasting effects of Rhizophagus irregularis versus bacterial and fungal seed endophytes on Trifolium repens plant-soil feedback. MYCORRHIZA 2021; 31:103-115. [PMID: 33185700 DOI: 10.1007/s00572-020-01003-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2020] [Accepted: 11/08/2020] [Indexed: 06/11/2023]
Abstract
Interactions between plants and soil affect plant-plant interactions and community composition by modifying soils conditions in plant-soil feedback, where associated microbes have the most crucial role. Both arbuscular mycorrhizal fungi (AMF) and microbial seed endophytes have been demonstrated to influence, directly or indirectly, biotic or abiotic soil properties, thus affecting subsequent plant growth, and community structure. However, little is known about how plant endophyte communities, individually or in interaction with AMF, affect plant-soil feedback processes. Here, we investigated, through a manipulative experiment, the behavior of endophyte-free and endophyte-associated Trifolium repens plants grown in soils previously conditioned by conspecific endophyte-free and endophyte-associated plants, inoculated or not by Rhizophagus intraradices. Furthermore, we identified microbial endophytes directly from the inner tissues of seeds by high-throughput sequencing, to compare seed fungal and bacterial endophyte composition. Results demonstrated that the outcome of simultaneous occurrence of seed endophytes and AMF on plant behavior depended on matching the endophytic status, i.e., either the presence or absence of seed microbial endophytes, of the conditioning and response phase. Seed fungal endophytes generated strong conspecific negative feedback, while seed bacterial endophytes proved to shift the feedback from negative to positive. Moreover, the simultaneous occurrence of both seed endophytes with AMF could either generate or expand negative plant-soil feedback effects. Our results show that seed and root symbionts can play a significant role on setting conspecific plant-soil feedback.
Collapse
Affiliation(s)
- Mohamed Idbella
- Faculty of Sciences and Techniques, Hassan II University, Casablanca, Morocco.
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, NA, Italy.
| | - Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, NA, Italy
| | - Francesca De Filippis
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, NA, Italy
| | - Ghita Amor
- Faculty of Sciences and Techniques, Hassan II University, Casablanca, Morocco
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, NA, Italy
| | - Fatima Ezzahra Chouyia
- Faculty of Sciences and Techniques, Hassan II University, Casablanca, Morocco
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, NA, Italy
| | - Taoufiq Fechtali
- Faculty of Sciences and Techniques, Hassan II University, Casablanca, Morocco
| | - Stefano Mazzoleni
- Department of Agricultural Sciences, University of Naples Federico II, via Università 100, 80055, Portici, NA, Italy
| |
Collapse
|
41
|
Hülsmann L, Chisholm RA, Hartig F. Is Variation in Conspecific Negative Density Dependence Driving Tree Diversity Patterns at Large Scales? Trends Ecol Evol 2020; 36:151-163. [PMID: 33589047 DOI: 10.1016/j.tree.2020.10.003] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Revised: 09/28/2020] [Accepted: 10/01/2020] [Indexed: 02/06/2023]
Abstract
Half a century ago, Janzen and Connell hypothesized that the high tree species diversity in tropical forests is maintained by specialized natural enemies. Along with other mechanisms, these can cause conspecific negative density dependence (CNDD) and thus maintain species diversity. Numerous studies have measured proxies of CNDD worldwide, but doubt about its relative importance remains. We find ample evidence for CNDD in local populations, but methodological limitations make it difficult to assess if CNDD scales up to control community diversity and thereby local and global biodiversity patterns. A combination of more robust statistical methods, new study designs, and eco-evolutionary models are needed to provide a more definite evaluation of the importance of CNDD for geographic variation in plant species diversity.
Collapse
Affiliation(s)
- Lisa Hülsmann
- Theoretical Ecology, University of Regensburg, Universitätsstraße 31, 93053 Regensburg, Germany.
| | - Ryan A Chisholm
- Department of Biological Sciences, National University of Singapore, 14 Science Drive 4, Singapore 117543, Singapore
| | - Florian Hartig
- Theoretical Ecology, University of Regensburg, Universitätsstraße 31, 93053 Regensburg, Germany
| |
Collapse
|
42
|
Changes in Multi-Level Biodiversity and Soil Features in a Burned Beech Forest in the Southern Italian Coastal Mountain. FORESTS 2020. [DOI: 10.3390/f11090983] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
In the context of global warming and increasing wildfire occurrence, this study aims to examine, for the first time, the changes in multi-level biodiversity and key soil features related to soil functioning in a burned Mediterranean beech forest. Two years after the 2017 wildfire, changes between burned and unburned plots of beech forest were analyzed for plant communities (vascular plant and cover, bryophytes diversity, structural, chorological, and ecological variables) and soil features (main chemical properties, microbial biomass and activity, bacterial community composition, and diversity), through a synchronic study. Fire-induced changes in the micro-environmental conditions triggered a secondary succession process with colonization by many native pioneer plant species. Indeed, higher frequency (e.g., Scrophularia vernalis L., Rubus hirtus Waldst. and Kit. group, and Funaria hygrometrica Hedw.) or coverage (e.g., Verbascum thapsus L. subsp. thapsus and Digitalis micrantha Roth ex Schweigg.) of the species was observed in the burned plots, whereas the typical forest species showed a reduction in frequency, but not in cover, except for Fagus sylvatica subsp. sylvatica. Overall, an increase in plant species and family richness was found in the burned plots, mainly in the herbaceous and bryophyte layers, compared to the unburned plots. Burned plots showed an increase in therophytes, chamaephytes, cosmopolites, steno-Mediterranean and Atlantic species, and a decrease in geophytes and Eurasiatic plants. Significant differences were found in burned vs. control soils for 10 phyla, 40 classes, 79 orders, 145 families, 342 genera, and 499 species of bacteria, with about 50% of each taxon over-represented and 50% under-represented in burned than in control. Changes in bacterial richness within several families (reduction in Acidobacteriaceae, Solibacteraceae, Rhodospirillaceae, and Sinobacteraceae; increase in Micrococcaceae, Comamonadaceae, Oxalobacteraceae, Pseudomonadaceae, Hymenobacteraceae, Sphingomonadaceae, Cytophagaceae, Nocardioidaceae, Opitutaceae, Solirubrobacteraceae, and Bacillaceae) in burned soil were related to fire-induced chemical changes of soil (pH, electrical conductivity, and cation exchange capacity). No evident effect of the wildfire was found on organic C content, microbial biomass (total microbial carbon and fungal mycelium) and activity, and microbial indexes (fungal percentage of microbial C, metabolic quotient, and quotient of mineralization), suggesting that soil functions remained unchanged in the burned area. Therefore, we hypothesize that, without an additional disturbance event, a re-establishment of beech forest can be expected but with an unpredictable time of post-fire succession.
Collapse
|
43
|
Soil Pollution from Micro- and Nanoplastic Debris: A Hidden and Unknown Biohazard. SUSTAINABILITY 2020. [DOI: 10.3390/su12187255] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
The fate, properties and determination of microplastics (MPs) and nanoplastics (NPs) in soil are poorly known. In fact, most of the 300 million tons of plastics produced each year ends up in the environment and the soil acts as a log-term sink for these plastic debris. Therefore, the aim of this review is to discuss MP and NP pollution in soil as well as highlighting the knowledge gaps that are mainly related to the complexity of the soil ecosystem. The fate of MPs and NPs in soil is strongly determined by physical properties of plastics, whereas negligible effect is exerted by their chemical structures. The degradative processes of plastic, termed ageing, besides generating micro-and nano-size debris, can induce marked changes in their chemical and physical properties with relevant effects on their reactivity. Further, these processes could cause the release of toxic oligomeric and monomeric constituents from plastics, as well as toxic additives, which may enter in the food chain, representing a possible hazard to human health and potentially affecting the fauna and flora in the environment. In relation to their persistence in soil, the list of soil-inhabiting, plastic-eating bacteria, fungi and insect is increasing daily. One of the main ecological functions attributable to MPs is related to their function as vectors for microorganisms through the soil. However, the main ecological effect of NPs (limited to the fraction size < than 50 nm) is their capacity to pass through the membrane of both prokaryotic and eukaryotic cells. Soil biota, particularly earthworms and collembola, can be both MPs and NPs carriers through soil profile. The use of molecular techniques, especially omics approaches, can gain insights into the effects of MPs and NPs on composition and activity of microbial communities inhabiting the soil and into those living on MPs surface and in the gut of the soil plastic-ingesting fauna.
Collapse
|
44
|
Toum L, Conti G, Guerriero FC, Conforte VP, Garolla FA, Asurmendi S, Vojnov AA, Gudesblat GE. Single-stranded oligodeoxynucleotides induce plant defence in Arabidopsis thaliana. ANNALS OF BOTANY 2020; 126:413-422. [PMID: 32266377 PMCID: PMC7424753 DOI: 10.1093/aob/mcaa061] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2020] [Accepted: 04/06/2020] [Indexed: 05/12/2023]
Abstract
BACKGROUND AND AIMS Single-stranded DNA oligodeoxynucleotides (ssODNs) have been shown to elicit immune responses in mammals. In plants, RNA and genomic DNA can activate immunity, although the exact mechanism through which they are sensed is not clear. The aim of this work was to study the possible effect of ssODNs on plant immunity. KEY RESULTS The ssODNs IMT504 and 2006 increased protection against the pathogens Pseudomonas syringae pv. tomato DC3000 and Botrytis cinerea but not against tobacco mosaic virus-Cg when infiltrated in Arabidopsis thaliana. In addition, ssODNs inhibited root growth and promoted stomatal closure in a concentration-dependent manner, with half-maximal effective concentrations between 0.79 and 2.06 µm. Promotion of stomatal closure by ssODNs was reduced by DNase I treatment. It was also diminished by the NADPH oxidase inhibitor diphenyleneiodonium and by coronatine, a bacterial toxin that inhibits NADPH oxidase-dependent reactive oxygen species (ROS) synthesis in guard cells. In addition it was found that ssODN-mediated stomatal closure was impaired in bak1-5, bak1-5/bkk1, mpk3 and npr1-3 mutants. ssODNs also induced early expression of MPK3, WRKY33, PROPEP1 and FRK1 genes involved in plant defence, an effect that was reduced in bak1-5 and bak1-5/bkk1 mutants. CONCLUSIONS ssODNs are capable of inducing protection against pathogens through the activation of defence genes and promotion of stomatal closure through a mechanism similar to that of other elicitors of plant immunity, which involves the BAK1 co-receptor, and ROS synthesis.
Collapse
Affiliation(s)
- Laila Toum
- Instituto de Ciencia y Tecnología Dr. César Milstein, Fundación Pablo Cassará, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Saladillo, Argentina
| | - Gabriela Conti
- Instituto de Agrobiotecnología y Biología Molecular (IABIMO), CICVyA – Instituto Nacional de Tecnología Agropecuaria (INTA), Consejo Nacional de Investigaciones Científicas y Tecnológicas (CONICET), Los Reseros y Nicolas Repeto, Hurlingham, Argentina
| | - Francesca Coppola Guerriero
- Departamento de Fisiología, Biología Molecular y Celular ‘Profesor Héctor Maldonado’ – Instituto de Biociencias, Biotecnología y Biología Translacional (IB3), Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Pres. Dr. Raúl Alfonsín S/N, Ciudad Universitaria, Argentina
- Departamento de Biodiversidad y Biología Experimental, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Pres. Dr. Raúl Alfonsín S/N, Ciudad Universitaria, Argentina
- Instituto de Biodiversidad y Biología Experimental y Aplicada (IBBEA), CONICET, Argentina
| | - Valeria P Conforte
- Instituto de Ciencia y Tecnología Dr. César Milstein, Fundación Pablo Cassará, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Saladillo, Argentina
| | - Franco A Garolla
- Departamento de Biodiversidad y Biología Experimental, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Pres. Dr. Raúl Alfonsín S/N, Ciudad Universitaria, Argentina
| | - Sebastián Asurmendi
- Instituto de Agrobiotecnología y Biología Molecular (IABIMO), CICVyA – Instituto Nacional de Tecnología Agropecuaria (INTA), Consejo Nacional de Investigaciones Científicas y Tecnológicas (CONICET), Los Reseros y Nicolas Repeto, Hurlingham, Argentina
| | - Adrián A Vojnov
- Instituto de Ciencia y Tecnología Dr. César Milstein, Fundación Pablo Cassará, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Saladillo, Argentina
| | - Gustavo E Gudesblat
- Departamento de Fisiología, Biología Molecular y Celular ‘Profesor Héctor Maldonado’ – Instituto de Biociencias, Biotecnología y Biología Translacional (IB3), Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Pres. Dr. Raúl Alfonsín S/N, Ciudad Universitaria, Argentina
- Departamento de Biodiversidad y Biología Experimental, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Pres. Dr. Raúl Alfonsín S/N, Ciudad Universitaria, Argentina
- Instituto de Biodiversidad y Biología Experimental y Aplicada (IBBEA), CONICET, Argentina
- For correspondence. E-mail:
| |
Collapse
|
45
|
Zotti M, De Filippis F, Cesarano G, Ercolini D, Tesei G, Allegrezza M, Giannino F, Mazzoleni S, Bonanomi G. One ring to rule them all: an ecosystem engineer fungus fosters plant and microbial diversity in a Mediterranean grassland. THE NEW PHYTOLOGIST 2020; 227:884-898. [PMID: 32266980 DOI: 10.1111/nph.16583] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Accepted: 03/23/2020] [Indexed: 06/11/2023]
Abstract
Species coexistence in grasslands is regulated by several environmental factors and interactions with the soil microbial community. Here, the development of the Basidiomycetes fungus Agaricus arvensis, forming fairy rings, in a species-rich Mediterranean grassland, is described. Effects of the mycelial front on plants, fungi and bacteria were assessed by vegetation survey and next generation sequencing approaches. Our results showed a fungal-dependent shift in the community structure operated by a wave-like spread of fairy rings that decreased plant, fungal and bacterial diversity, indicating a detrimental effect of fairy rings on most species. The fairy rings induced successional processes in plants that enhanced the replacement of a community dominated by perennial plants with short-living and fast-growing plant species. In parallel, fungal and bacterial communities showed evident differences in species composition with several taxa associated within distinct sampling zone across the fairy rings. Notably, bacteria belonging to the Burkholderia genus and fungi of the genus Trichoderma increased in response to the advancing mycelium of A. arvensis. The profound changes in community composition and the overall increase in taxa diversity at ecosystemic scale suggest that fairy ring-forming fungi may act as ecosystem engineer species in Mediterranean grasslands.
Collapse
Affiliation(s)
- Maurizio Zotti
- Dipartimento di Agraria, Università di Napoli Federico II, Via Università, 100, 80055, Portici, Naples, Italy
| | - Francesca De Filippis
- Dipartimento di Agraria, Università di Napoli Federico II, Via Università, 100, 80055, Portici, Naples, Italy
- Task Force on Microbiome Studies, Università di Napoli Federico II, Corso Umberto I, 40, 80138, Naples, Italy
| | - Gaspare Cesarano
- Dipartimento di Agraria, Università di Napoli Federico II, Via Università, 100, 80055, Portici, Naples, Italy
| | - Danilo Ercolini
- Dipartimento di Agraria, Università di Napoli Federico II, Via Università, 100, 80055, Portici, Naples, Italy
- Task Force on Microbiome Studies, Università di Napoli Federico II, Corso Umberto I, 40, 80138, Naples, Italy
| | - Giulio Tesei
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università Politecnica delle Marche, via Brecce, Bianche, 60100, Ancona, Italy
| | - Marina Allegrezza
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università Politecnica delle Marche, via Brecce, Bianche, 60100, Ancona, Italy
| | - Francesco Giannino
- Dipartimento di Agraria, Università di Napoli Federico II, Via Università, 100, 80055, Portici, Naples, Italy
| | - Stefano Mazzoleni
- Dipartimento di Agraria, Università di Napoli Federico II, Via Università, 100, 80055, Portici, Naples, Italy
- Task Force on Microbiome Studies, Università di Napoli Federico II, Corso Umberto I, 40, 80138, Naples, Italy
| | - Giuliano Bonanomi
- Dipartimento di Agraria, Università di Napoli Federico II, Via Università, 100, 80055, Portici, Naples, Italy
- Task Force on Microbiome Studies, Università di Napoli Federico II, Corso Umberto I, 40, 80138, Naples, Italy
| |
Collapse
|
46
|
Bonanomi G, Zotti M, Idbella M, Di Silverio N, Carrino L, Cesarano G, Assaeed AM, Abd-ElGawad AM. Decomposition and organic amendments chemistry explain contrasting effects on plant growth promotion and suppression of Rhizoctonia solani damping off. PLoS One 2020; 15:e0230925. [PMID: 32271811 PMCID: PMC7144968 DOI: 10.1371/journal.pone.0230925] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Accepted: 03/11/2020] [Indexed: 11/19/2022] Open
Abstract
Organic Amendments (OAs) has been used in agroecosystems to promote plant growth and control diseases caused by soilborne pathogens. However, the role of OAs chemistry and decomposition time on plant growth promotion and disease suppression is still poorly explored. In this work, we studied the effect of 14 OAs at four decomposition ages (3, 30, 100, and 300 days) on the plant-pathogen system Lactuca sativa-Rhizoctonia solani. OAs chemistry was characterized via 13C-CPMAS NMR spectroscopy as well as for standard chemical (i.e. N content, pH, EC) and biological parameters (i.e. phytotoxicity and R. solani proliferation bioassay). OAs have shown variable effects, ranging from inhibition to stimulation of Lactuca sativa and Lepidium sativum growth. We recorded that N rich OAs with high decomposability were conducive in the short-term, while converting suppressive in the long term (300 days). On the other hand, cellulose-rich OAs with high C/N ratio impaired L. sativa growth but were more consistent in providing protection from damping-off, although this property has significantly shifted during decomposition time. These results, for the first time, highlight a consistent trade-off between plant growth promotion and disease control capability of OAs. Finally, we found that OAs effects on growth promotion and disease protection can be hardly predictable based on the chemical characteristic, although N content and some 13C CPMAS NMR regions (alkyl C, methoxyl C, and carbonyl C) showed some significant correlations. Therefore, further investigations are needed to identify the mechanism(s) behind the observed suppressive and conducive effects and to identify OAs types and application timing that optimize plant productivity and disease suppression in different agro-ecosystems.
Collapse
Affiliation(s)
- Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, Portici, Naples, Italy
| | - Maurizio Zotti
- Department of Agricultural Sciences, University of Naples Federico II, Portici, Naples, Italy
| | - Mohamed Idbella
- Department of Agricultural Sciences, University of Naples Federico II, Portici, Naples, Italy
- Department of Biology, Faculty of Sciences and Techniques, Hassan II University, Mohammedia, Morocco
| | - Nice Di Silverio
- Department of Agricultural Sciences, University of Naples Federico II, Portici, Naples, Italy
| | - Linda Carrino
- Department of Agricultural Sciences, University of Naples Federico II, Portici, Naples, Italy
| | - Gaspare Cesarano
- Department of Agricultural Sciences, University of Naples Federico II, Portici, Naples, Italy
| | - Abdulaziz M. Assaeed
- Plant Production Department, College of Food & Agriculture Sciences, King Saud University, Riyadh, Saudi Arabia
| | - Ahmed M. Abd-ElGawad
- Plant Production Department, College of Food & Agriculture Sciences, King Saud University, Riyadh, Saudi Arabia
- Department of Botany, Faculty of Sciences, Mansoura University, Mansoura, Egypt
| |
Collapse
|
47
|
Eigentler L. Intraspecific competition in models for vegetation patterns: Decrease in resilience to aridity and facilitation of species coexistence. ECOLOGICAL COMPLEXITY 2020. [DOI: 10.1016/j.ecocom.2020.100835] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
|
48
|
Sarker TC, Maisto G, De Marco A, Memoli V, Panico SC, Motti R, Idbella M, Incerti G, Mazzoleni S, Bonanomi G. Species‐specific root proliferation of tree seedlings in tropical litter: do nutrients matter? OIKOS 2020. [DOI: 10.1111/oik.06786] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Tushar C. Sarker
- Dept of Agricultural Science, Univ. of Naples Federico II via Università 100 IT‐80055 Portici (NA) Italy
- School of Environmental and Resource Sciences, Zhejiang A&F Univ. Lin'an PR China
| | - Giulia Maisto
- Dept of Biology, Univ. of Naples Federico II Napoli Italy
| | - Anna De Marco
- Dept of Biology, Univ. of Naples Federico II Napoli Italy
| | - Valeria Memoli
- Dept of Biology, Univ. of Naples Federico II Napoli Italy
| | | | - Riccardo Motti
- Dept of Agricultural Science, Univ. of Naples Federico II via Università 100 IT‐80055 Portici (NA) Italy
| | - Mohamed Idbella
- Dept of Agricultural Science, Univ. of Naples Federico II via Università 100 IT‐80055 Portici (NA) Italy
| | - Guido Incerti
- Di4A, Dept of Agri‐Food, Animal and Environmental Sciences, Univ. of Udine Udine Italy
| | - Stefano Mazzoleni
- Dept of Agricultural Science, Univ. of Naples Federico II via Università 100 IT‐80055 Portici (NA) Italy
| | - Giuliano Bonanomi
- Dept of Agricultural Science, Univ. of Naples Federico II via Università 100 IT‐80055 Portici (NA) Italy
| |
Collapse
|
49
|
Maringer J, Wohlgemuth T, Hacket-Pain A, Ascoli D, Berretti R, Conedera M. Drivers of persistent post-fire recruitment in European beech forests. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 699:134006. [PMID: 31522049 DOI: 10.1016/j.scitotenv.2019.134006] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2019] [Revised: 08/16/2019] [Accepted: 08/19/2019] [Indexed: 06/10/2023]
Abstract
Climate change is expected to alter disturbance regimes including fires in European beech (Fagus sylvatica L.) forests. Regarding the resilience of beech forests to fire it is questionable whether seeds of this non-serotinous obligate masting seeder find advantageous conditions in a post-fire environment. The probability of recruitment success has been shown to increase when fire coincides with a mast year. However, the fire-induced recruitment window is poorly defined, and it is unclear how other interacting factors influence its duration. We used a space-for-time approach to model the relationships between post-fire beech recruitment, timing of seed mast events, and interacting environmental conditions using a zero-inflated model. Our results show that recruitment peaks 5-12 years after a fire, and continues throughout three decades post-fire. Beech recruitment in the post-fire period is driven by mast intensity interacting with (i) canopy opening as a consequence of progressive post-fire tree mortality and (ii) coverages of competing ground vegetation. Spring-summer moisture showed a weak positive effect on beech recruitment. We conclude that fires increase light availability, which in coincidence with a mast event results in pulses of beech recruitment. The delayed post-fire mortality of beech creates a recruitment window lasting for up to three decades, resulting in a higher-than-expected resilience of beech to individual fire disturbances.
Collapse
Affiliation(s)
- Janet Maringer
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Insubric Ecosystems, A Ramél 18, CH-6593 Cadenazzo, Switzerland.
| | - Thomas Wohlgemuth
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Disturbance Ecology, Züricherstrasse 111, CH-8903 Birmensdorf, Switzerland.
| | - Andrew Hacket-Pain
- Department of Geography and Planning, School of Environmental Science, University of Liverpool, Liverpool L69 7ZT, UK.
| | - Davide Ascoli
- Department of Agriculture, Forest and Food Sciences, Largo Paolo Braccini 2, 10095 Grugliasco, Italy.
| | - Roberta Berretti
- Department of Agriculture, Forest and Food Sciences, Largo Paolo Braccini 2, 10095 Grugliasco, Italy.
| | - Marco Conedera
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Insubric Ecosystems, A Ramél 18, CH-6593 Cadenazzo, Switzerland.
| |
Collapse
|
50
|
Vincent D, Rafiqi M, Job D. The Multiple Facets of Plant-Fungal Interactions Revealed Through Plant and Fungal Secretomics. FRONTIERS IN PLANT SCIENCE 2020; 10:1626. [PMID: 31969889 PMCID: PMC6960344 DOI: 10.3389/fpls.2019.01626] [Citation(s) in RCA: 40] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2019] [Accepted: 11/19/2019] [Indexed: 05/14/2023]
Abstract
The plant secretome is usually considered in the frame of proteomics, aiming at characterizing extracellular proteins, their biological roles and the mechanisms accounting for their secretion in the extracellular space. In this review, we aim to highlight recent results pertaining to secretion through the conventional and unconventional protein secretion pathways notably those involving plant exosomes or extracellular vesicles. Furthermore, plants are well known to actively secrete a large array of different molecules from polymers (e.g. extracellular RNA and DNA) to small compounds (e.g. ATP, phytochemicals, secondary metabolites, phytohormones). All of these play pivotal roles in plant-fungi (or oomycetes) interactions, both for beneficial (mycorrhizal fungi) and deleterious outcomes (pathogens) for the plant. For instance, recent work reveals that such secretion of small molecules by roots is of paramount importance to sculpt the rhizospheric microbiota. Our aim in this review is to extend the definition of the plant and fungal secretomes to a broader sense to better understand the functioning of the plant/microorganisms holobiont. Fundamental perspectives will be brought to light along with the novel tools that should support establishing an environment-friendly and sustainable agriculture.
Collapse
Affiliation(s)
- Delphine Vincent
- Agriculture Victoria Research, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
| | - Maryam Rafiqi
- AgroBioSciences Program, Mohammed VI Polytechnic University (UM6P), Ben Guerir, Morocco
| | - Dominique Job
- CNRS/Université Claude Bernard Lyon 1/Institut National des Sciences Appliquées/Bayer CropScience Joint Laboratory (UMR 5240), Bayer CropScience, Lyon, France
| |
Collapse
|