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F K, L B, M EM, M R B, N F, R B, F B, A DS, C D, M N F, G G, M J G, M L, A L, W L M, A N, A S, G S, E I V, K V, L V, B Z, L A, D D, M B. "Ectomycorrhizal exploration type" could be a functional trait explaining the spatial distribution of tree symbiotic fungi as a function of forest humus forms. MYCORRHIZA 2024; 34:203-216. [PMID: 38700516 DOI: 10.1007/s00572-024-01146-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Accepted: 04/15/2024] [Indexed: 06/12/2024]
Abstract
In European forests, most tree species form symbioses with ectomycorrhizal (EM) and arbuscular mycorrhizal (AM) fungi. The EM fungi are classified into different morphological types based on the development and structure of their extraradical mycelium. These structures could be root extensions that help trees to acquire nutrients. However, the relationship between these morphological traits and functions involved in soil nutrient foraging is still under debate.We described the composition of mycorrhizal fungal communities under 23 tree species in a wide range of climates and humus forms in Europe and investigated the exploratory types of EM fungi. We assessed the response of this tree extended phenotype to humus forms, as an indicator of the functioning and quality of forest soils. We found a significant relationship between the relative proportion of the two broad categories of EM exploration types (short- or long-distance) and the humus form, showing a greater proportion of long-distance types in the least dynamic soils. As past land-use and host tree species are significant factors structuring fungal communities, we showed this relationship was modulated by host trait (gymnosperms versus angiosperms), soil depth and past land use (farmland or forest).We propose that this potential functional trait of EM fungi be used in future studies to improve predictive models of forest soil functioning and tree adaptation to environmental nutrient conditions.
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Affiliation(s)
- Khalfallah F
- Université de Lorraine, INRAE, IAM, Nancy, F-54000, France
- INRAE, BEF, Nancy, F-54000, France
| | - Bon L
- INRAE, ISPA, Bordeaux Sciences Agro, Villenave d'Ornon, F-33140, France
| | - El Mazlouzi M
- INRAE, ISPA, Bordeaux Sciences Agro, Villenave d'Ornon, F-33140, France
- IEES, Université Paris Est Créteil, CNRS, INRAE, IRD, Créteil, 94010, 94010, France
| | - Bakker M R
- INRAE, ISPA, Bordeaux Sciences Agro, Villenave d'Ornon, F-33140, France
| | - Fanin N
- INRAE, ISPA, Bordeaux Sciences Agro, Villenave d'Ornon, F-33140, France
| | - Bellanger R
- INRAE, Site de la Villa Thuret, Antibes, 1353 UEVT, 06600, France
| | - Bernier F
- INRAE, Domaine de l'Hermitage, Cestas Pierroton, 0570 UEFP, 33610, France
| | - De Schrijver A
- Departement Biowetenschappen en Industriële Technologie, AgroFoodNature HOGENT, Melle, 9090, Belgium
| | - Ducatillon C
- INRAE, Site de la Villa Thuret, Antibes, 1353 UEVT, 06600, France
| | - Fotelli M N
- Forest Research Institute Hellenic Agricultural Organization Dimitra, Vassilika, Thessaloniki, 57006, Greece
| | - Gateble G
- INRAE, Site de la Villa Thuret, Antibes, 1353 UEVT, 06600, France
| | - Gundale M J
- Department of Forest Ecology and Management, Swedish Univ. of Agricultural Sciences, Umeå, 901-83, Sweden
| | - Larsson M
- Department of Forest Ecology and Management, Swedish Univ. of Agricultural Sciences, Umeå, 901-83, Sweden
| | - Legout A
- INRAE, BEF, Nancy, F-54000, France
| | - Mason W L
- Forest Research, Northern Research Station, Roslin, Midlothian, EH25 9SY, Scotland, UK
| | - Nordin A
- Department of Forest Genetics and Plant Physiology, Umeå Plant Science Centre (UPSC), Swedish University of Agricultural Sciences, Umeå, 901-83, Sweden
| | - Smolander A
- Natural Resources Institute Finland (Luke), Latokartanonkaari 9, Helsinki, 00790, Finland
| | - Spyroglou G
- Forest Research Institute Hellenic Agricultural Organization Dimitra, Vassilika, Thessaloniki, 57006, Greece
| | - Vanguelova E I
- Forest Research, Alice Holt, Alice Holt Lodge, Farnham, GU10 4LH, UK
| | - Verheyen K
- Forest & Nature Lab, Ghent University, Gontrode, Melle, 9090, Belgium
| | - Vesterdal L
- Department of Geosciences and Natural Resource Management, University of Copenhagen, Frederiksberg C, 1958, Denmark
| | - Zeller B
- INRAE, BEF, Nancy, F-54000, France
| | - Augusto L
- INRAE, ISPA, Bordeaux Sciences Agro, Villenave d'Ornon, F-33140, France.
| | | | - Buée M
- Université de Lorraine, INRAE, IAM, Nancy, F-54000, France.
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Hu YF, Liu JW, Luo XX, Xu ZH, Xia JW, Zhang XG, Castañeda-Ruíz RF, Ma J. Multi-locus phylogenetic analyses reveal eight novel species of Distoseptispora from southern China. Microbiol Spectr 2023; 11:e0246823. [PMID: 37905843 PMCID: PMC10715003 DOI: 10.1128/spectrum.02468-23] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2023] [Accepted: 09/01/2023] [Indexed: 11/02/2023] Open
Abstract
IMPORTANCE Distoseptispora as a single genus in Distoseptisporaceae was introduced by morphological and phylogenetic analyses. Members of this genus occur mainly as asexual morphs, forming effuse, hairy colonies on decaying wood, plant stems, bamboo culms, and fallen leaves and shafts in terrestrial and freshwater habitats. In the present study, saprobic hyphomycetes from plant debris were investigated, and eight new Distoseptispora species were introduced based on morphology and phylogenetic analyses of LSU, ITS, TEF1, and RPB2 sequence data. This study provides important data on the species diversity, ecological environment, and geographical area of Distoseptispora, greatly updates the classification of Distoseptispora, and improves our understanding of the taxonomy of Distoseptispora.
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Affiliation(s)
- Ya-Fen Hu
- College of Agronomy, Jiangxi Agricultural University, Nanchang, Jiangxi, China
| | - Jing-Wen Liu
- College of Agronomy, Jiangxi Agricultural University, Nanchang, Jiangxi, China
| | - Xing-Xing Luo
- College of Agronomy, Jiangxi Agricultural University, Nanchang, Jiangxi, China
| | - Zhao-Huan Xu
- College of Agronomy, Jiangxi Agricultural University, Nanchang, Jiangxi, China
| | - Ji-Wen Xia
- Shandong Provincial Key Laboratory for Biology of Vegetable Diseases and Insect Pests, College of Plant Protection, Shandong Agricultural University, Taian, Shandong, China
| | - Xiu-Guo Zhang
- Shandong Provincial Key Laboratory for Biology of Vegetable Diseases and Insect Pests, College of Plant Protection, Shandong Agricultural University, Taian, Shandong, China
| | | | - Jian Ma
- College of Agronomy, Jiangxi Agricultural University, Nanchang, Jiangxi, China
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3
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Adnan M, Islam W, Gang L, Chen HYH. Advanced research tools for fungal diversity and its impact on forest ecosystem. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:45044-45062. [PMID: 35460003 DOI: 10.1007/s11356-022-20317-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Accepted: 04/13/2022] [Indexed: 06/14/2023]
Abstract
Fungi are dominant ecological participants in the forest ecosystems, which play a major role in recycling organic matter and channeling nutrients across trophic levels. Fungal populations are shaped by plant communities and environmental parameters, and in turn, fungal communities also impact the forest ecosystem through intrinsic participation of different fungal guilds. Mycorrhizal fungi result in conservation and stability of forest ecosystem, while pathogenic fungi can bring change in forest ecosystem, by replacing the dominant plant species with new or exotic plant species. Saprotrophic fungi, being ecological regulators in the forest ecosystem, convert dead tree logs into reusable constituents and complete the ecological cycles of nitrogen and carbon. However, fungal communities have not been studied in-depth with respect to functional, spatiotemporal, or environmental parameters. Previously, fungal diversity and its role in shaping the forest ecosystem were studied by traditional and laborious cultural methods, which were unable to achieve real-time results and draw a conclusive picture of fungal communities. This review highlights the latest advances in biological methods such as next-generation sequencing and meta'omics for observing fungal diversity in the forest ecosystem, the role of different fungal groups in shaping forest ecosystem, forest productivity, and nutrient cycling at global scales.
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Affiliation(s)
- Muhammad Adnan
- College of Life Sciences and Oceanography, Shenzhen Key Laboratory of Microbial Genetic Engineering, Shenzhen University, Shenzhen, 518060, China
- College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen, 518060, China
| | - Waqar Islam
- Xinjiang Key Laboratory of Desert Plant Roots Ecology and Vegetation Restoration, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Liu Gang
- College of Life Sciences and Oceanography, Shenzhen Key Laboratory of Microbial Genetic Engineering, Shenzhen University, Shenzhen, 518060, China
| | - Han Y H Chen
- Faculty of Forestry and the Forest Environment, Lakehead University, 955 Oliver Rd, Thunder Bay, ON, P7B 5E1, Canada.
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Fungal diversity notes 1512-1610: taxonomic and phylogenetic contributions on genera and species of fungal taxa. FUNGAL DIVERS 2022; 117:1-272. [PMID: 36852303 PMCID: PMC9948003 DOI: 10.1007/s13225-022-00513-0] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Accepted: 12/06/2022] [Indexed: 02/25/2023]
Abstract
This article is the 14th in the Fungal Diversity Notes series, wherein we report 98 taxa distributed in two phyla, seven classes, 26 orders and 50 families which are described and illustrated. Taxa in this study were collected from Australia, Brazil, Burkina Faso, Chile, China, Cyprus, Egypt, France, French Guiana, India, Indonesia, Italy, Laos, Mexico, Russia, Sri Lanka, Thailand, and Vietnam. There are 59 new taxa, 39 new hosts and new geographical distributions with one new combination. The 59 new species comprise Angustimassarina kunmingense, Asterina lopi, Asterina brigadeirensis, Bartalinia bidenticola, Bartalinia caryotae, Buellia pruinocalcarea, Coltricia insularis, Colletotrichum flexuosum, Colletotrichum thasutense, Coniochaeta caraganae, Coniothyrium yuccicola, Dematipyriforma aquatic, Dematipyriforma globispora, Dematipyriforma nilotica, Distoseptispora bambusicola, Fulvifomes jawadhuvensis, Fulvifomes malaiyanurensis, Fulvifomes thiruvannamalaiensis, Fusarium purpurea, Gerronema atrovirens, Gerronema flavum, Gerronema keralense, Gerronema kuruvense, Grammothele taiwanensis, Hongkongmyces changchunensis, Hypoxylon inaequale, Kirschsteiniothelia acutisporum, Kirschsteiniothelia crustaceum, Kirschsteiniothelia extensum, Kirschsteiniothelia septemseptatum, Kirschsteiniothelia spatiosum, Lecanora immersocalcarea, Lepiota subthailandica, Lindgomyces guizhouensis, Marthe asmius pallidoaurantiacus, Marasmius tangerinus, Neovaginatispora mangiferae, Pararamichloridium aquisubtropicum, Pestalotiopsis piraubensis, Phacidium chinaum, Phaeoisaria goiasensis, Phaeoseptum thailandicum, Pleurothecium aquisubtropicum, Pseudocercospora vernoniae, Pyrenophora verruculosa, Rhachomyces cruralis, Rhachomyces hyperommae, Rhachomyces magrinii, Rhachomyces platyprosophi, Rhizomarasmius cunninghamietorum, Skeletocutis cangshanensis, Skeletocutis subchrysella, Sporisorium anadelphiae-leptocomae, Tetraploa dashaoensis, Tomentella exiguelata, Tomentella fuscoaraneosa, Tricholomopsis lechatii, Vaginatispora flavispora and Wetmoreana blastidiocalcarea. The new combination is Torula sundara. The 39 new records on hosts and geographical distribution comprise Apiospora guiyangensis, Aplosporella artocarpi, Ascochyta medicaginicola, Astrocystis bambusicola, Athelia rolfsii, Bambusicola bambusae, Bipolaris luttrellii, Botryosphaeria dothidea, Chlorophyllum squamulosum, Colletotrichum aeschynomenes, Colletotrichum pandanicola, Coprinopsis cinerea, Corylicola italica, Curvularia alcornii, Curvularia senegalensis, Diaporthe foeniculina, Diaporthe longicolla, Diaporthe phaseolorum, Diatrypella quercina, Fusarium brachygibbosum, Helicoma aquaticum, Lepiota metulispora, Lepiota pongduadensis, Lepiota subvenenata, Melanconiella meridionalis, Monotosporella erecta, Nodulosphaeria digitalis, Palmiascoma gregariascomum, Periconia byssoides, Periconia cortaderiae, Pleopunctum ellipsoideum, Psilocybe keralensis, Scedosporium apiospermum, Scedosporium dehoogii, Scedosporium marina, Spegazzinia deightonii, Torula fici, Wiesneriomyces laurinus and Xylaria venosula. All these taxa are supported by morphological and multigene phylogenetic analyses. This article allows the researchers to publish fungal collections which are important for future studies. An updated, accurate and timely report of fungus-host and fungus-geography is important. We also provide an updated list of fungal taxa published in the previous fungal diversity notes. In this list, erroneous taxa and synonyms are marked and corrected accordingly.
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Teng J, Tian J, Barnard R, Yu G, Kuzyakov Y, Zhou J. Aboveground and Belowground Plant Traits Explain Latitudinal Patterns in Topsoil Fungal Communities From Tropical to Cold Temperate Forests. Front Microbiol 2021; 12:633751. [PMID: 34177822 PMCID: PMC8222577 DOI: 10.3389/fmicb.2021.633751] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2020] [Accepted: 04/30/2021] [Indexed: 11/13/2022] Open
Abstract
Soil fungi predominate the forest topsoil microbial biomass and participate in biogeochemical cycling as decomposers, symbionts, and pathogens. They are intimately associated with plants but their interactions with aboveground and belowground plant traits are unclear. Here, we evaluated soil fungal communities and their relationships with leaf and root traits in nine forest ecosystems ranging from tropical to cold temperate along a 3,700-km transect in eastern China. Basidiomycota was the most abundant phylum, followed by Ascomycota, Zygomycota, Glomeromycota, and Chytridiomycota. There was no latitudinal trend in total, saprotrophic, and pathotrophic fungal richness. However, ectomycorrhizal fungal abundance and richness increased with latitude significantly and reached maxima in temperate forests. Saprotrophic and pathotrophic fungi were most abundant in tropical and subtropical forests and their abundance decreased with latitude. Spatial and climatic factors, soil properties, and plant traits collectively explained 45% of the variance in soil fungal richness. Specific root length and root biomass had the greatest direct effects on total fungal richness. Specific root length was the key determinant of saprotrophic and pathotrophic fungal richness while root phosphorus content was the main biotic factor determining ectomycorrhizal fungal richness. In contrast, spatial and climatic features, soil properties, total leaf nitrogen and phosphorus, specific root length, and root biomass collectively explained >60% of the variance in fungal community composition. Soil fungal richness and composition are strongly controlled by both aboveground and belowground plant traits. The findings of this study provide new evidence that plant traits predict soil fungal diversity distribution at the continental scale.
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Affiliation(s)
- Jialing Teng
- Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Jing Tian
- Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing, China.,Key Laboratory of Plant-Soil Interactions, Ministry of Education, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
| | - Romain Barnard
- Agroécologie, AgroSup Dijon, INRA, Univ. Bourgogne, Univ. Bourgogne Franche Comté, Dijon, France
| | - Guirui Yu
- Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, University of Göttingen, Göttingen, Germany.,Faculty of Life Science and Technology, Central South University of Forestry and Technology, Changsha, China
| | - Jizhong Zhou
- Department of Microbiology and Plant Biology, School of Civil Engineering and Environmental Sciences, Institute for Environmental Genomics, University of Oklahoma, Norman, OK, United States.,Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, United States
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6
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Rivera-Urbalejo AP, Vázquez D, Fernández Vázquez JL, Rosete Enríquez M, Cesa-Luna C, Morales-García YE, Muñoz Rojas J, Quintero Hernández V. APORTES Y DIFICULTADES DE LA METAGENÓMICA DE SUELOS Y SU IMPACTO EN LA AGRICULTURA. ACTA BIOLÓGICA COLOMBIANA 2021. [DOI: 10.15446/abc.v26n3.85760] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Abstract
Los microorganismos son de gran interés porque colonizan todo tipo de ambiente, sin embargo, uno de los problemas al que nos enfrentamos para conocer su diversidad biológica es que no todos los microorganismos son cultivables. El desarrollo de nuevas tecnologías como la generación de vectores de clonación aunado al desarrollo de técnicas de secuenciación de alto rendimiento ha favorecido el surgimiento de una nueva herramienta llamada metagenómica, la cual nos permite estudiar genomas de comunidades enteras de microorganismos. Debido a que ningún ambiente es idéntico a otro, es importante mencionar que dependiendo del tipo de muestra a analizar será el tipo de reto al cual nos enfrentaremos al trabajar con metagenómica, en el caso específico del suelo existen diversas variantes como la contaminación del suelo con metales pesados o diversos compuestos químicos que podrían limitar los estudios. Sin embargo, pese a las limitaciones que el mismo ambiente presenta, la metagenómica ha permitido tanto el descubrimiento de nuevos genes como la caracterización de las comunidades microbianas que influyen positivamente en el desarrollo de plantas, lo cual en un futuro podría generar un gran impacto en la agricultura. En este artículo se realizó una revisión de diversas investigaciones que han empleado metagenómica, reportadas en las bases de datos de PudMed y Google Schoolar, con el objetivo de examinar los beneficios y limitaciones de las diversas metodologías empleadas en el tratamiento del ADN metagenómico de suelo y el impacto de la metagenómica en la agricultura.
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Boraks A, Plunkett GM, Doro TM, Alo F, Sam C, Tuiwawa M, Ticktin T, Amend AS. Scale-Dependent Influences of Distance and Vegetation on the Composition of Aboveground and Belowground Tropical Fungal Communities. MICROBIAL ECOLOGY 2021; 81:874-883. [PMID: 33025061 DOI: 10.1007/s00248-020-01608-4] [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: 05/29/2020] [Accepted: 09/20/2020] [Indexed: 06/11/2023]
Abstract
Fungi provide essential ecosystem services and engage in a variety of symbiotic relationships with trees. In this study, we investigate the spatial relationship of trees and fungi at a community level. We characterized the spatial dynamics for above- and belowground fungi using a series of forest monitoring plots, at nested spatial scales, located in the tropical South Pacific, in Vanuatu. Fungal communities from different habitats were sampled using metagenomic analysis of the nuclear ribosomal ITS1 region. Fungal communities exhibited strong distance-decay of similarity across our entire sampling range (3-110,000 m) and also at small spatial scales (< 50 m). Unexpectedly, this pattern was inverted at an intermediate scale (3.7-26 km). At large scales (80-110 km), belowground and aboveground fungal communities responded inversely to increasing geographic distance. Aboveground fungal community turnover (beta diversity) was best explained, at all scales, by geographic distance. In contrast, belowground fungal community turnover was best explained by geographic distance at small scales and tree community composition at large scales. Fungal communities from various habitats respond differently to the influences of habitat and geographic distance. At large geographic distances (80-110 km), community turnover for aboveground fungi is better explained by spatial distance, whereas community turnover for belowground fungi is better explained by plant community turnover. Future syntheses of spatial dynamics among fungal communities must explicitly consider geographic scale to appropriately contextualize community turnover.
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Affiliation(s)
- André Boraks
- Department of Botany, University of Hawai'i - Mānoa, 3190 Maile Way, Honolulu, HI, 96822, USA.
| | - Gregory M Plunkett
- New York Botanical Garden, 2900 Southern Blvd., Bronx, NY, 10458-5126, USA
| | - Thomas Morris Doro
- Vanuatu National Herbarium - Vanuatu Department of Forestry, PMB 9064, Port-Vila, Vanuatu
| | - Frazer Alo
- Vanuatu National Herbarium - Vanuatu Department of Forestry, PMB 9064, Port-Vila, Vanuatu
| | - Chanel Sam
- Vanuatu National Herbarium - Vanuatu Department of Forestry, PMB 9064, Port-Vila, Vanuatu
| | - Marika Tuiwawa
- South Pacific Regional Herbarium, University of the South Pacific, Private Mail Bag, Laucala Campus, Suva, Fiji Islands
| | - Tamara Ticktin
- Department of Botany, University of Hawai'i - Mānoa, 3190 Maile Way, Honolulu, HI, 96822, USA
| | - Anthony S Amend
- Department of Botany, University of Hawai'i - Mānoa, 3190 Maile Way, Honolulu, HI, 96822, USA
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8
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Legeay J, Husson C, Boudier B, Louisanna E, Baraloto C, Schimann H, Marcais B, Buée M. Surprising low diversity of the plant pathogen Phytophthora in Amazonian forests. Environ Microbiol 2020; 22:5019-5032. [PMID: 32452108 DOI: 10.1111/1462-2920.15099] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2020] [Accepted: 05/23/2020] [Indexed: 11/30/2022]
Abstract
The genus Phytophthora represents a group of plant pathogens with broad global distribution. The majority of them cause the collar and root-rot of diverse plant species. Little is known about Phytophthora communities in forest ecosystems, especially in the Neotropical forests where natural enemies could maintain the huge plant diversity via negative density dependence. We characterized the diversity of soil-borne Phytophthora communities in the North French Guiana rainforest and investigated how they are structured by host identity and environmental factors. In this little-explored habitat, 250 soil cores were sampled from 10 plots hosting 10 different plant families across three forest environments (Terra Firme, Seasonally Flooded and White Sand). Phytophthora diversity was studied using a baiting approach and metabarcoding (High-Throughput Sequencing) on environmental DNA extracted from both soil samples and baiting-leaves. These three approaches revealed very similar communities, characterized by an unexpected low diversity of Phytophthora species, with the dominance of two cryptic species close to Phytophthora heveae. As expected, the Phytophthora community composition of the French Guiana rainforest was significantly impacted by the host plant family and environment. However, these plant pathogen communities are very small and are dominated by generalist species, questioning their potential roles as drivers of plant diversity in these Amazonian forests.
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Affiliation(s)
- Jean Legeay
- Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France
| | - Claude Husson
- Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France.,Département de la santé des forêts, Ministère de l'agriculture et de l'alimentation, DGAL, SDQPV, Paris, 75015, France
| | - Benjamin Boudier
- Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France
| | - Eliane Louisanna
- INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France
| | - Christopher Baraloto
- INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France.,International Center for Tropical Botany, Department of Biological Sciences, Florida International University, Miami, FL, 33199, USA
| | - Heidy Schimann
- INRAE, UMR EcoFoG - Ecology of Guiana Forests - (AgroParisTech, CNRS, CIRAD, Université des Antilles, Université de Guyane), Kourou, 97310, France
| | - Benoît Marcais
- Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France
| | - Marc Buée
- Université de Lorraine, INRAE, UMR IAM - Interactions Arbres-Microorganismes, Nancy, F-54000, France
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9
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Kong X, Jin D, Wang X, Zhang F, Duan G, Liu H, Jia M, Deng Y. Dibutyl phthalate contamination remolded the fungal community in agro-environmental system. CHEMOSPHERE 2019; 215:189-198. [PMID: 30317089 DOI: 10.1016/j.chemosphere.2018.10.020] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2018] [Revised: 09/18/2018] [Accepted: 10/04/2018] [Indexed: 06/08/2023]
Abstract
Dibutyl phthalate (DBP) is a typical soil contaminant that is widely used as plasticizer in modern agricultural production. In this study, an experiment was conducted to evaluate fungal community succession in a soil-vegetable ecosystem under different DBP concentrations. By using high-throughput sequencing of the ribosomal internal transcribed spacer (ITS) region, it was shown that DBP contamination caused significant changes to the soil fungal community, in terms of both α and β diversities. The largest changes in fungal α and β diversities were detected under 50 mg/kg DBP concentration at the first day of addition. The bulk soils, rhizosphere soils and the phyllosphere harbored different fungal communities, while the abundance of saprotrophs and plant pathogens in the phyllosphere have been increased under DBP contamination. From correlation analysis and partial Mantel test, the change in fungal community α diversity was the result of multiple factors (DBP concentration, bacterial community and soil properties) while the β diversity of fungal community was mainly co-varied with the bacterial community after DBP contamination. Moreover, molecular ecological network analysis demonstrated that DBP contamination was detrimental to mutualistic relationships among fungal species and destabilized the network structure. Overall, the fungal communities in soils and around vegetables were largely remolded by DBP contamination that provides new insight into DBP contamination impacts on agricultural ecosystems.
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Affiliation(s)
- Xiao Kong
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Decai Jin
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Xinxin Wang
- China Offshore Environmental Service Co. Ltd., Tianjin 300452, China
| | - Fengsong Zhang
- Key Laboratory of Land Surface Pattern and Simulation, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China
| | - Guilan Duan
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Huijun Liu
- Beijing Key Laboratory of Detection and Control of Spoilage Organisms and Pesticide Residues in Agricultural Products, Beijing University of Agriculture, Beijing 102206, China
| | - Minghong Jia
- Beijing Key Laboratory of Detection and Control of Spoilage Organisms and Pesticide Residues in Agricultural Products, Beijing University of Agriculture, Beijing 102206, China
| | - Ye Deng
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
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Šibanc N, Zalar P, Schroers HJ, Zajc J, Pontes A, Sampaio JP, Maček I. Occultifur mephitis f.a., sp. nov. and other yeast species from hypoxic and elevated CO 2 mofette environments. Int J Syst Evol Microbiol 2018; 68:2285-2298. [DOI: 10.1099/ijsem.0.002824] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023] Open
Affiliation(s)
- Nataša Šibanc
- Department of Agronomy, Biotechnical Faculty, University of Ljubljana, Jamnikarjeva 101, 1000 Ljubljana, Slovenia
- Faculty of Mathematics, Natural Sciences and Information Technologies (FAMNIT), University of Primorska, Glagoljaška 8, 6000 Koper, Slovenia
| | - Polona Zalar
- Department of Biology, Biotechnical Faculty, University of Ljubljana, Večna pot 111, 1000 Ljubljana, Slovenia
| | - Hans-Josef Schroers
- Plant Protection Department, Agricultural Institute of Slovenia, Hacquetova 17, 1000 Ljubljana, Slovenia
| | - Janja Zajc
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
| | - Ana Pontes
- Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, UCIBIO-REQUIMTE, 2829-516 Caparica, Portugal
| | - José Paulo Sampaio
- Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, UCIBIO-REQUIMTE, 2829-516 Caparica, Portugal
| | - Irena Maček
- Department of Agronomy, Biotechnical Faculty, University of Ljubljana, Jamnikarjeva 101, 1000 Ljubljana, Slovenia
- Faculty of Mathematics, Natural Sciences and Information Technologies (FAMNIT), University of Primorska, Glagoljaška 8, 6000 Koper, Slovenia
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11
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Microbial Diversity: The Gap between the Estimated and the Known. DIVERSITY-BASEL 2018. [DOI: 10.3390/d10020046] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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12
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Crognale S, D'Annibale A, Pesciaroli L, Stazi SR, Petruccioli M. Fungal Community Structure and As-Resistant Fungi in a Decommissioned Gold Mine Site. Front Microbiol 2017; 8:2202. [PMID: 29170658 PMCID: PMC5684174 DOI: 10.3389/fmicb.2017.02202] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2017] [Accepted: 10/26/2017] [Indexed: 01/16/2023] Open
Abstract
Although large quantities of heavy metal laden wastes are released in an uncontrolled manner by gold mining activities with ensuing contamination of the surrounding areas, there is scant information on the mycobiota of gold-mine sites. Thus, the present study was aimed to describe the fungal community structure in three differently As- and Hg-polluted soils collected from the Pestarena decommissioned site by using Illumina® metabarcoding. Fungal richness was found to increase as the contamination level increased while biodiversity was not related to the concentrations of inorganic toxicants. Within the phylum Zygomigota which, irrespective of the contamination level, was predominant in all the soils under study, the most abundant genera were Mucor and Mortierella. The relative abundances of Basidiomycota, instead, tended to raise as the contamination increased; within this phylum the most abundant genera were Cryptococcus and Pseudotomentella. The abundance of Ascomycota, ranging from about 8 to 21%, was not related to the contamination level. The relative abundances of those genera (i.e., Penicillium, Trichoderma, and Chaetomium), the cultivable isolates of which exhibited significant As-resistance, were lower than the set threshold (0.5%). Mass balances obtained from As-exposure experiments with these isolates showed that the main mechanisms involved in counteracting the toxicant were accumulation and, above all, volatilization, the respective extents of which ranged from 0.6 to 5.9% and from 6.4 to 31.2% in dependence of the isolate.
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Affiliation(s)
- Silvia Crognale
- Department for Innovation in Biological Systems, Food and Forestry, University of Tuscia, Viterbo, Italy
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