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Topilina YS, Luk'yanova EA, Glukhova LB, Shurupova MN, Gerasimchuk AL, Frank YA, Antsiferov DV. Beneficial Effect of the New Leptodophora sp. Strain on Development of Blueberry Microclones in the Process of Their Adaptation. Microorganisms 2023; 11:1406. [PMID: 37374907 DOI: 10.3390/microorganisms11061406] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Revised: 05/19/2023] [Accepted: 05/22/2023] [Indexed: 06/29/2023] Open
Abstract
The paper searches for new solutions for the development of highbush blueberry orchards (Vaccinium corymbosum L. (1753)) in Western Siberia. All species of the genus Vaccinium display special symbiotic mycorrhizal associations with root systems-ericoid mycorrhiza, which essentially enhances the formation of adventitious and lateral roots. For the first time, we obtained pure cultures of micromycetes associated with the roots of wild species of the family Ericaceae in the Tomsk region, Russia. With regard to the data of molecular genetic analysis of the ITS region sequence, we selected the BR2-1 isolate based on its morphophysiological traits, which was assigned to the genus Leptodophora. Representatives of this genus typically enter into symbiotic relationships with heathers to form ericoid mycorrhizae. We studied the effect of strain BR2-1 on the development of microclones of the highbush blueberry var. Nord blue during their in vitro adaptation and showed its beneficial effect on growth and shoot formation in young plants. Experiments performed using submerged and solid-state methods showed that the most optimal method for commercial production of BR2-1 is cultivation on grain sterilized by boiling, followed by spore washing.
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Affiliation(s)
- Yulia S Topilina
- Biological Institute, National Research Tomsk State University, Lenina Ave., 36, 634050 Tomsk, Russia
- LLC Darwin, Str. Vysockogo Vladimira, 28, 634040 Tomsk, Russia
| | | | - Lubov B Glukhova
- Biological Institute, National Research Tomsk State University, Lenina Ave., 36, 634050 Tomsk, Russia
- LLC Darwin, Str. Vysockogo Vladimira, 28, 634040 Tomsk, Russia
| | - Margarita N Shurupova
- Biological Institute, National Research Tomsk State University, Lenina Ave., 36, 634050 Tomsk, Russia
| | - Anna L Gerasimchuk
- Biological Institute, National Research Tomsk State University, Lenina Ave., 36, 634050 Tomsk, Russia
| | - Yulia A Frank
- Biological Institute, National Research Tomsk State University, Lenina Ave., 36, 634050 Tomsk, Russia
- LLC Darwin, Str. Vysockogo Vladimira, 28, 634040 Tomsk, Russia
| | - Dmitry V Antsiferov
- Biological Institute, National Research Tomsk State University, Lenina Ave., 36, 634050 Tomsk, Russia
- LLC Darwin, Str. Vysockogo Vladimira, 28, 634040 Tomsk, Russia
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Dong M, Wang B, Tian Y, Chen L, Li Y, Sun H. Diversity of fungal assemblages in rhizosphere and endosphere of blueberry (Vaccinium spp.) under field conditions revealed by culturing and culture-independent molecular methods. Can J Microbiol 2022; 68:622-632. [PMID: 35926235 DOI: 10.1139/cjm-2022-0093] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Mycorrhizae are important to plants in improving nutrient absorption and stress resistance. To study mycorrhizal fungal diversity in blueberry, we combined culture method and culture-independent molecular method to analyze the root endosphere and rhizosphere fungi in three different cultivars. We obtained 212 isolates with a culture method and classified them into 40 types according to their morphological characteristics. Then, we amplified the internal transcribed spacer (ITS) sequence and found rich species diversity. With high-throughput sequencing, 561 operational taxonomic units (OTUs) were annotated based on a 97% similarity level cutoff. The alpha diversity index revealed that the fungal abundance and diversity in the rhizosphere were higher than in the endosphere. The dominant phyla were Ascomycota and Basidiomycota and the dominant genus was Oidiodendron. We also constructed the plant-fungus symbiotic system by inoculating in vitro stock shoots, which lays a theoretical foundation for further research to develop and utilize the dominant mycorrhizal fungi of blueberry.
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Affiliation(s)
- Mei Dong
- Jilin Agricultural University, 85112, Changchun, Jilin, China;
| | - Bowei Wang
- Jilin Agricultural University, 85112, Changchun, Jilin, China;
| | - Youwen Tian
- Jilin Agricultural University, 85112, Changchun, Jilin, China;
| | - Li Chen
- Jilin Agricultural University, 85112, Changchun, Jilin, China;
| | - Yadong Li
- Jilin Agricultural University, 85112, Changchun, Jilin, China;
| | - Haiyue Sun
- Jilin Agricultural University, 85112, Changchun, China;
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Metabarcoding of fungal assemblages in Vaccinium myrtillus endosphere suggests colonization of above-ground organs by some ericoid mycorrhizal and DSE fungi. Sci Rep 2022; 12:11013. [PMID: 35773465 PMCID: PMC9246922 DOI: 10.1038/s41598-022-15154-1] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2022] [Accepted: 06/20/2022] [Indexed: 11/10/2022] Open
Abstract
Plants harbor in their external surfaces and internal tissues a highly diverse and finely structured microbial assembly, the microbiota. Each plant compartment usually represents a unique ecological niche hosting a distinct microbial community and niche differentiation, which may mirror distinct functions of a specialized microbiota, has been mainly investigated for bacteria. Far less is known for the fungal components of the plant-associated microbiota. Here, we applied a metabarcoding approach to describe the fungal assemblages in different organs of Vaccinium myrtillus plants (Ericaceae) collected in a subalpine meadow in North-West Italy, and identified specific taxa enriched in internal tissues of roots, stems, leaves and flowers. We also traced the distribution of some important fungi commonly associated with plants of the family Ericaceae, namely the ericoid mycorrhizal (ErM) fungi and the dark septate endophytes (DSE), both playing important roles in plant growth and health. Operational taxonomic units attributed to established ErM fungal species in the genus Hyaloscypha and to DSE species in the Phialocephala-Acephala applanata complex (PAC) were found in all the plant organs. Mycorrhizal fungi are thought to be strictly associated with the plant roots, and this first observation of ErM fungi in the above-ground organs of the host plant may be explained by the evolutionary closeness of ErM fungi in the genus Hyaloscypha with non mycorrhizal fungal endophytes. This is also witnessed by the closer similarities of the ErM fungal genomes with the genomes of plant endophytes than with those of other mycorrhizal fungi, such as arbuscular or ectomycorrhizal fungi.
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Blaalid R, Davey ML. Habitat Protection Approaches Facilitate Conservation of Overlooked Fungal Diversity - A Case Study From the Norwegian Coastal Heathland System. FRONTIERS IN FUNGAL BIOLOGY 2022; 3:886685. [PMID: 37746238 PMCID: PMC10512255 DOI: 10.3389/ffunb.2022.886685] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Accepted: 05/02/2022] [Indexed: 09/26/2023]
Abstract
European coastal heathlands are distinct ecosystems shaped by land use tradition and they have experienced an 80% area reduction from their historical maximum. These mosaics of mires and wind exposed patches have ericaceous shrub dominated vegetation, and soils within coastal heathlands are characterized by low pH and high levels of recalcitrant debris. Using a culture-based approach with molecular identification of isolates, we characterized root-associated fungal communities of six ericaceous species in eight heathland localities along Norway's western coast. Site-level alpha diversity ranged from 21-38 OTUs, while the total estimated gamma diversity for culturable heathland root fungi was 190-231 OTUs. Most species recovered are previously reported at low abundance in Norway, suggesting the biodiversity in this community is underreported, rather than novel for science. The fungi recovered were primarily Ascomycota, specifically endophytic Phialocephala, and Pezicula, and no host specificity was observed in the communities. The fungal communities exhibited high turnover and low nestedness, both between ericaceous hosts and across heathland sites. We observed no spatial patterns in fungal betadiversity, and this heterogeneity may be a product of the unique historic land use practices at each locality creating a distinct mycofloral "fingerprint". Robust diversity estimates will be key for managing fungal biodiversity in coastal heathlands. Our results indicate that sampling schemes that maximize the number of host plants sampled per site, rather than the number of cultures per plant yield improved alpha diversity estimates. Similarly, gamma diversity estimates are improved by maximizing the total number of localities sampled, rather than increasing the number of plants sampled per locality. We argue that while the current protected status of coastal heathland habitats and restoration efforts have knock-on effects for the conservation of fungal biodiversity, fungi have a vital functional role in the ecosystem and holistic conservation plans that consider fungal biodiversity would be beneficial.
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Affiliation(s)
- Rakel Blaalid
- Department of Natural History, University Museum of Bergen, Bergen, Norway
- Norwegian Institute for Nature Research, NINA Bergen, Bergen, Norway
| | - Marie L. Davey
- Norwegian Institute for Nature Research, Terrestrial Biodiversity Department, Trondheim, Norway
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Ericoid mycorrhizal colonization and associated fungal communities along a wetland gradient in the Acadian forest of Eastern Canada. FUNGAL ECOL 2022. [DOI: 10.1016/j.funeco.2021.101138] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Leopold DR, Peay KG, Vitousek PM, Fukami T. Diversity of putative ericoid mycorrhizal fungi increases with soil age and progressive phosphorus limitation across a 4.1-million-year chronosequence. FEMS Microbiol Ecol 2021; 97:6123715. [PMID: 33512432 DOI: 10.1093/femsec/fiab016] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Accepted: 01/27/2021] [Indexed: 01/04/2023] Open
Abstract
Ericaceous plants rely on ericoid mycorrhizal fungi for nutrient acquisition. However, the factors that affect the composition and structure of fungal communities associated with the roots of ericaceous plants remain largely unknown. Here, we use a 4.1-million-year (myr) soil chronosequence in Hawaii to test the hypothesis that changes in nutrient availability with soil age determine the diversity and species composition of fungi associated with ericoid roots. We sampled roots of a native Hawaiian plant, Vaccinium calycinum, and used DNA metabarcoding to quantify changes in fungal diversity and community composition. We also used a fertilization experiment at the youngest and oldest sites to assess the importance of nutrient limitation. We found an increase in diversity and a clear pattern of species turnover across the chronosequence, driven largely by putative ericoid mycorrhizal fungi. Fertilization with nitrogen at the youngest site and phosphorus at the oldest site reduced fungal diversity, suggesting a direct role of nutrient limitation. Our results also reveal the presence of novel fungal species associated with Hawaiian Ericaceae and suggest a greater importance of phosphorus availability for communities of ericoid mycorrhizal fungi than is generally assumed.
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Affiliation(s)
- Devin R Leopold
- Department of Biology, Stanford University, 371 Serra Mall, Stanford, CA 94305-5020, USA.,Department of Botany and Plant Pathology, Oregon State University, 4575 SW Research Way, Corvallis, OR 97331, USA
| | - Kabir G Peay
- Department of Biology, Stanford University, 371 Serra Mall, Stanford, CA 94305-5020, USA
| | - Peter M Vitousek
- Department of Biology, Stanford University, 371 Serra Mall, Stanford, CA 94305-5020, USA
| | - Tadashi Fukami
- Department of Biology, Stanford University, 371 Serra Mall, Stanford, CA 94305-5020, USA
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Lavrentyeva EV, Banzaraktsaeva TG, Radnagurueva AA, Buryukhaev SP, Dambaev VB, Baturina OA, Kozyreva LP, Barkhutova DD. Microbial Community of Umkhei Thermal Lake (Baikal Rift Zone) in the Groundwater Discharge Zone. CONTEMP PROBL ECOL+ 2020. [DOI: 10.1134/s1995425519060088] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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8
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Johnston PR, Quijada L, Smith CA, Baral HO, Hosoya T, Baschien C, Pärtel K, Zhuang WY, Haelewaters D, Park D, Carl S, López-Giráldez F, Wang Z, Townsend JP. A multigene phylogeny toward a new phylogenetic classification of Leotiomycetes. IMA Fungus 2019; 10:1. [PMID: 32647610 PMCID: PMC7325659 DOI: 10.1186/s43008-019-0002-x] [Citation(s) in RCA: 88] [Impact Index Per Article: 17.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2019] [Accepted: 04/30/2019] [Indexed: 12/31/2022] Open
Abstract
Fungi in the class Leotiomycetes are ecologically diverse, including mycorrhizas, endophytes of roots and leaves, plant pathogens, aquatic and aero-aquatic hyphomycetes, mammalian pathogens, and saprobes. These fungi are commonly detected in cultures from diseased tissue and from environmental DNA extracts. The identification of specimens from such character-poor samples increasingly relies on DNA sequencing. However, the current classification of Leotiomycetes is still largely based on morphologically defined taxa, especially at higher taxonomic levels. Consequently, the formal Leotiomycetes classification is frequently poorly congruent with the relationships suggested by DNA sequencing studies. Previous class-wide phylogenies of Leotiomycetes have been based on ribosomal DNA markers, with most of the published multi-gene studies being focussed on particular genera or families. In this paper we collate data available from specimens representing both sexual and asexual morphs from across the genetic breadth of the class, with a focus on generic type species, to present a phylogeny based on up to 15 concatenated genes across 279 specimens. Included in the dataset are genes that were extracted from 72 of the genomes available for the class, including 10 new genomes released with this study. To test the statistical support for the deepest branches in the phylogeny, an additional phylogeny based on 3156 genes from 51 selected genomes is also presented. To fill some of the taxonomic gaps in the 15-gene phylogeny, we further present an ITS gene tree, particularly targeting ex-type specimens of generic type species. A small number of novel taxa are proposed: Marthamycetales ord. nov., and Drepanopezizaceae and Mniaeciaceae fams. nov. The formal taxonomic changes are limited in part because of the ad hoc nature of taxon and specimen selection, based purely on the availability of data. The phylogeny constitutes a framework for enabling future taxonomically targeted studies using deliberate specimen selection. Such studies will ideally include designation of epitypes for the type species of those genera for which DNA is not able to be extracted from the original type specimen, and consideration of morphological characters whenever genetically defined clades are recognized as formal taxa within a classification.
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Affiliation(s)
- Peter R. Johnston
- Manaaki Whenua Landcare Research, Private Bag 92170, Auckland, 1142 New Zealand
| | - Luis Quijada
- Department of Organismic and Evolutionary Biology, Harvard Herbarium, 22 Divinity Ave, Cambridge, MA 02138 USA
| | | | | | - Tsuyoshi Hosoya
- Department of Botany, National Museum of Nature and Science, 4-1-1 Amakubo, Tsukuba, Ibaraki 305-0005 Japan
| | - Christiane Baschien
- Leibniz-Institute DSMZ German Collection of Microorganisms and Cell Cultures, Inhoffenstrasse 7B, 38124 Braunschweig, Germany
| | - Kadri Pärtel
- Institute of Ecology and Earth Sciences, University of Tartu, Lai 40, EE-51005 Tartu, Estonia
| | - Wen-Ying Zhuang
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101 China
| | - Danny Haelewaters
- Department of Organismic and Evolutionary Biology, Harvard Herbarium, 22 Divinity Ave, Cambridge, MA 02138 USA
- Faculty of Science, University of South Bohemia, Branišovská 31, 370 05 České Budějovice, Czech Republic
| | - Duckchul Park
- Manaaki Whenua Landcare Research, Private Bag 92170, Auckland, 1142 New Zealand
| | - Steffen Carl
- Leibniz-Institute DSMZ German Collection of Microorganisms and Cell Cultures, Inhoffenstrasse 7B, 38124 Braunschweig, Germany
| | | | - Zheng Wang
- Department of Biostatistics, Yale University, 135 College St, New Haven, CT 06510 USA
| | - Jeffrey P. Townsend
- Department of Biostatistics, Yale University, 135 College St, New Haven, CT 06510 USA
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Hamim A, Boukeskasse A, Ouhdouch Y, Farrouki A, Barrijal S, Miché L, Mrabet R, Duponnois R, Hafidi M. Phosphate solubilizing and PGR activities of ericaceous shrubs microorganisms isolated from Mediterranean forest soil. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2019. [DOI: 10.1016/j.bcab.2019.101128] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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10
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The effect of environment on the microbiome associated with the roots of a native woody plant under different climate types in China. Appl Microbiol Biotechnol 2019; 103:3899-3913. [PMID: 30903216 DOI: 10.1007/s00253-019-09747-6] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2019] [Revised: 02/28/2019] [Accepted: 03/11/2019] [Indexed: 12/26/2022]
Abstract
Few studies have investigated the effect of environment on the root-associated microbiome, especially for woody plants in their native environment. The roots and rhizosphere soils of a native woody species (Broussonetia papyrifera) sampled across four different climate types in China were used to elucidate the influence of environment on the root-associated microbiome. Our results showed that the B. papyrifera root-associated microbiome contained abundant Proteobacteria and Basidiomycota, especially Pseudomonas and Rhizobium. The root-associated microbiomes were found to be significantly different under different climate types except for the bacterial community in the rhizosphere, and the proportion of bacterial operational taxonomic units (OTUs) shared among different climate types was lower than that of fungi. More than 50% of the total variance between microbiomes could be explained by 15 environmental factors, six of which, especially soil concentration phosphate and nitrate, had a significant effect. This study provided a comprehensive understanding of the root-associated microbiome of B. papyrifera and further confirmed the effect of environment on the root-associated microbiome of B. papyrifera under different climate types, with some exceptions in the rhizobacterial community and fungal OTUs. Our findings advanced knowledge of the effect of environment through an exploration of environmental factors and found that the nitrogen and phosphorus content represented the key factors.
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Liu K, Ding X, Tang X, Wang J, Li W, Yan Q, Liu Z. Macro and Microelements Drive Diversity and Composition of Prokaryotic and Fungal Communities in Hypersaline Sediments and Saline-Alkaline Soils. Front Microbiol 2018. [PMID: 29535703 PMCID: PMC5835090 DOI: 10.3389/fmicb.2018.00352] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
Understanding the effects of environmental factors on microbial communities is critical for microbial ecology, but it remains challenging. In this study, we examined the diversity (alpha diversity) and community compositions (beta diversity) of prokaryotes and fungi in hypersaline sediments and salinized soils from northern China. Environmental variables were highly correlated, but they differed significantly between the sediments and saline soils. The compositions of prokaryotic and fungal communities in the hypersaline sediments were different from those in adjacent saline–alkaline soils, indicating a habitat-specific microbial distribution pattern. The macroelements (S, P, K, Mg, and Fe) and Ca were, respectively, correlated closely with the alpha diversity of prokaryotes and fungi, while the macronutrients (e.g., Na, S, P, and Ca) were correlated with the prokaryotic and fungal beta-diversity (P ≤ 0.05). And, the nine microelements (e.g., Al, Ba, Co, Hg, and Mn) and micronutrients (Ba, Cd, and Sr) individually shaped the alpha diversity of prokaryotes and fungi, while the six microelements (e.g., As, Ba, Cr, and Ge) and only the trace elements (Cr and Cu), respectively, influenced the beta diversity of prokaryotes and fungi (P < 0.05). Variation-partitioning analysis (VPA) showed that environmental variables jointly explained 55.49% and 32.27% of the total variation for the prokaryotic and fungal communities, respectively. Together, our findings demonstrate that the diversity and community composition of the prokaryotes and fungi were driven by different macro and microelements in saline habitats, and that geochemical elements could more widely regulate the diversity and community composition of prokaryotes than these of fungi.
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Affiliation(s)
- Kaihui Liu
- School of Biological Science and Engineering, Shaanxi University of Technology, Hanzhong, China
| | - Xiaowei Ding
- School of Biological Science and Engineering, Shaanxi University of Technology, Hanzhong, China
| | - Xiaofei Tang
- School of Biological Science and Engineering, Shaanxi University of Technology, Hanzhong, China
| | - Jianjun Wang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, China
| | - Wenjun Li
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Qingyun Yan
- Environmental Microbiome Research Center and School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou, China
| | - Zhenghua Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
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Kohout P, Bahram M, Põlme S, Tedersoo L. Elevation, space and host plant species structure Ericaceae root-associated fungal communities in Papua New Guinea. FUNGAL ECOL 2017. [DOI: 10.1016/j.funeco.2017.09.004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
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13
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Midgley DJ, Greenfield P, Bissett A, Tran-Dinh N. First evidence of Pezoloma ericae in Australia: using the Biomes of Australia Soil Environments (BASE) to explore the Australian phylogeography of known ericoid mycorrhizal and root-associated fungi. MYCORRHIZA 2017; 27:587-594. [PMID: 28315064 DOI: 10.1007/s00572-017-0769-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/04/2017] [Accepted: 03/10/2017] [Indexed: 05/20/2023]
Abstract
The prominent ericoid mycorrhizal fungus, Pezoloma ericae, has not been found in Australia to date. In the present study, internal transcribed spacer (ITS) data from the Biomes of Australia Soil Environments (BASE) was searched for evidence of P. ericae and other known ericoid mycorrhizal and root-associated taxa. ITS sequences with high identity to P. ericae, Meliniomyces bicolor, Meliniomyces variabilis, Cairneyella sp. 2, Cadophora finlandica and Woollsia mycorrhizal fungus VI were identified and their distribution in Australia visualised. This is the first evidence that P. ericae, M. bicolor and M. variabilis very likely occur on the Australian continent and provides a set of locations from which to seek isolates for further characterisation. The presence of P. ericae in South America, South Africa, and now Australia suggests a broad and ancient Gondwanan distribution for this well-studied species.
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Affiliation(s)
| | | | - Andrew Bissett
- CSIRO, Castray Esplanade Battery Point Tasmania, Hobart, 7004, Australia
| | - Nai Tran-Dinh
- CSIRO, 11 Julius Ave, North Ryde, NSW, 2113, Australia
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Koizumi T, Nara K. Communities of Putative Ericoid Mycorrhizal Fungi Isolated from Alpine Dwarf Shrubs in Japan: Effects of Host Identity and Microhabitat. Microbes Environ 2017; 32:147-153. [PMID: 28529264 PMCID: PMC5478538 DOI: 10.1264/jsme2.me16180] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2016] [Accepted: 03/29/2017] [Indexed: 01/26/2023] Open
Abstract
Dwarf shrubs of the family Ericaceae are common in arctic and alpine regions. Many of these plants are associated with ericoid mycorrhizal (ERM) fungi, which allow them to take nutrients and water from the soil under harsh environmental conditions and, thus, affect host plant survival. Despite the importance of ERM fungi to alpine plant communities, limited information is available on the effects of microhabitat and host identity on ERM fungal communities. We investigated the communities of putative ERM fungi isolated from five dwarf shrub species (Arcterica nana, Diapensia lapponica, Empetrum nigrum, Loiseleuria procumbens, and Vaccinium vitis-idaea) that co-occur in an alpine region of Japan, with reference to distinct microhabitats provided by large stone pine (Pinus pumila) shrubs (i.e. bare ground, the edge of stone pine shrubs, and the inside of stone pine shrubs). We obtained 703 fungal isolates from 222 individual plants. These isolates were classified into 55 operational taxonomic units (OTUs) based on the sequencing of internal transcribed spacer regions in ribosomal DNA. These putative ERM fungal communities were dominated by Helotiales fungi for all host species. Cistella and Trimmatostroma species, which have rarely been detected in ERM roots in previous studies, were abundant. ERM fungal communities were significantly different among microhabitats (R2=0.28), while the host effect explained less variance in the fungal communities after excluding the microhabitat effect (R2=0.17). Our results suggest that the host effect on ERM fungal communities is minor and the distributions of hosts and fungal communities may be assessed based on microhabitat conditions.
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Affiliation(s)
- Takahiko Koizumi
- Department of Natural Environmental Studies, Graduate School of Frontier Science, The University of Tokyo5–1–5 Kashiwanoha, Kashiwa, Chiba, 277–8563Japan
| | - Kazuhide Nara
- Department of Natural Environmental Studies, Graduate School of Frontier Science, The University of Tokyo5–1–5 Kashiwanoha, Kashiwa, Chiba, 277–8563Japan
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15
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Kohout P, Tedersoo L. Effect of soil moisture on root-associated fungal communities of Erica dominans in Drakensberg mountains in South Africa. MYCORRHIZA 2017; 27:397-406. [PMID: 28083703 DOI: 10.1007/s00572-017-0760-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2016] [Accepted: 01/03/2017] [Indexed: 06/06/2023]
Abstract
Ericoid mycorrhiza represents a key adaptation of the Ericaceae plants to facilitate their establishment in harsh conditions. The Ericaceae are a large family of flowering plants, with global distribution. However, our current knowledge about the ericoid mycorrhizal fungal diversity and ecology largely relates to the Northern Hemisphere. Our study focused on the assembly of root-associated fungal (RAF) communities of Erica dominans in two types of microhabitats of contrasting moisture along an elevation gradient in Drakensberg mountains in South Africa. RAF communities were determined by 454-sequencing of the internal transcribed spacer (ITS) region of ribosomal DNA. The majority of RAF showed affinity to the orders Helotiales, Pezizales, and Pleosporales. Microhabitat type as well as elevation had significant but weak effect on RAF community composition. We identified two putative ericoid mycorrhizal fungi, the ecological niches of which were differentiated between the studied microhabitats. Our study also provides one of the first comprehensive data about RAF communities of Ericaceae on African continent and shows the occurrence of the most studied ericoid mycorrhizal fungus Pezoloma ericae (belonging to P. ericae aggregate) in roots of Ericaceae host plant in Africa.
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Affiliation(s)
- Petr Kohout
- Institute of Ecology and Earth Sciences, University of Tartu, 50411, Tartu, Estonia.
- Institute of Botany, Academy of Sciences of the Czech Republic, 252 43, Průhonice, Czech Republic.
- Department of Experimental Plant Biology, Faculty of Science, Charles University, 128 01, Prague 2, Czech Republic.
| | - Leho Tedersoo
- Natural History Museum, University of Tartu, 50411, Tartu, Estonia
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Diversity of fungal assemblages in roots of Ericaceae in two Mediterranean contrasting ecosystems. C R Biol 2017; 340:226-237. [PMID: 28302364 DOI: 10.1016/j.crvi.2017.02.003] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2016] [Revised: 02/13/2017] [Accepted: 02/14/2017] [Indexed: 11/20/2022]
Abstract
The plants belonging to the Ericaceae family are morphologically diverse and widely distributed groups of plants. They are typically found in soil with naturally poor nutrient status. The objective of the current study was to identify cultivable mycobionts from roots of nine species of Ericaceae (Calluna vulgaris, Erica arborea, Erica australis, Erica umbellate, Erica scoparia, Erica multiflora, Arbutus unedo, Vaccinium myrtillus, and Vaccinium corymbosum). The sequencing approach was used to amplify the Internal Transcribed Spacer (ITS) region. Results from the phylogenetic analysis of ITS sequences stored in the Genbank confirmed that most of strains (78) were ascomycetes, 16 of these were closely related to Phialocephala spp, 12 were closely related to Helotiales spp and 6 belonged to various unidentified ericoid mycorrhizal fungal endophytes. Although the isolation frequencies differ sharply according to regions and ericaceous species, Helotiales was the most frequently encountered order from the diverse assemblage of associated fungi (46.15%), especially associated with C. vulgaris (19.23%) and V. myrtillus (6.41%), mostly present in the Loge (L) and Mellousa region (M). Moreover, multiple correspondence analysis (MCA) showed three distinct groups connecting fungal order to ericaceous species in different regions.
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Bruzone MC, Fehrer J, Fontenla SB, Vohník M. First record of Rhizoscyphus ericae in Southern Hemisphere's Ericaceae. MYCORRHIZA 2017; 27:147-163. [PMID: 27778093 DOI: 10.1007/s00572-016-0738-8] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2016] [Accepted: 10/17/2016] [Indexed: 06/06/2023]
Abstract
Ericoid mycorrhiza is arguably the least investigated mycorrhizal type, particularly when related to the number of potential hosts and the ecosystems they inhabit. Little is known about the global distribution of ericoid mycorrhizal (ErM) fungi, and this holds true even for the prominent ErM mycobiont Rhizoscyphus ericae. Earlier studies suggested R. ericae might be low in abundance or absent in the roots of Southern Hemisphere's Ericaceae, and our previous investigations in two Argentine Patagonian forests supported this view. Here, we revisited the formerly investigated area, albeit at a higher altitude, and screened fungi inhabiting hair roots of Gaultheria caespitosa and Gaultheria pumila at a treeless alpine site using the same methods as previously. We obtained 234 isolates, most of them belonging to Ascomycota. In contrast to previous findings, however, among 37 detected operational taxonomic units (OTUs), OTU 1 (=R. ericae s. str.) comprised the highest number of isolates (87, ∼37 %). Most of the OTUs and isolates belonged to the Helotiales, and 82.5 % of isolates belonged to OTUs shared between both Gaultheria species. At the alpine site, ericoid mycorrhizal fungi dominated, followed by dark septate endophytes and aquatic hyphomycetes probably acting as root endophytes. Our results suggest that the distribution of R. ericae is influenced, among others, by factors related to altitude such as soil type and presence/absence and type of the neighboring vegetation. Our study is the first report on R. ericae colonizing Ericaceae roots in the Southern Hemisphere and extends the known range of this prominent ErM species to NW Patagonia.
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Affiliation(s)
- M Clara Bruzone
- Laboratorio de Microbiología Aplicada y Biotecnología, Centro Regional Universitario Bariloche, INIBIOMA (Universidad Nacional del Comahue-CONICET), Bariloche, Río Negro, Argentina
| | - Judith Fehrer
- DNA Laboratory, Institute of Botany, Czech Academy of Sciences (CAS), Průhonice, CZ-252 43, Czech Republic
| | - Sonia B Fontenla
- Laboratorio de Microbiología Aplicada y Biotecnología, Centro Regional Universitario Bariloche, INIBIOMA (Universidad Nacional del Comahue-CONICET), Bariloche, Río Negro, Argentina
| | - Martin Vohník
- Department of Mycorrhizal Symbioses, Institute of Botany CAS, Průhonice, CZ-252 43, Czech Republic.
- Department of Plant Experimental Biology, Faculty of Science, Charles University in Prague, Prague, CZ-128 44, Czech Republic.
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Mishra VK, Passari AK, Leo VV, Singh BP. Molecular Diversity and Detection of Endophytic Fungi Based on Their Antimicrobial Biosynthetic Genes. Fungal Biol 2017. [DOI: 10.1007/978-3-319-34106-4_1] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Mota JF, Garrido-Becerra JA, Merlo ME, Medina-Cazorla JM, Sánchez-Gómez P. The Edaphism: Gypsum, Dolomite and Serpentine Flora and Vegetation. THE VEGETATION OF THE IBERIAN PENINSULA 2017. [DOI: 10.1007/978-3-319-54867-8_6] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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22
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Pärtel K, Baral HO, Tamm H, Põldmaa K. Evidence for the polyphyly of Encoelia and Encoelioideae with reconsideration of respective families in Leotiomycetes. FUNGAL DIVERS 2016. [DOI: 10.1007/s13225-016-0370-0] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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Grunewaldt-Stöcker G, von Alten H. Is the root-colonizing endophyte Acremonium strictum an ericoid mycorrhizal fungus? MYCORRHIZA 2016; 26:429-40. [PMID: 26846148 DOI: 10.1007/s00572-016-0682-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2015] [Accepted: 01/27/2016] [Indexed: 05/21/2023]
Abstract
In previous investigations, we found that Acremonium strictum (strain DSM 100709) developed intracellular structures with similarity to mycelia of ericoid mycorrhizal fungi in the rhizodermal cells of flax plants and in hair roots of Rhododendron plantlets. A. strictum had also been isolated from roots of ericaceous salal plants and was described as an unusual ericoid mycorrhizal fungus (ERMF). As its mycorrhizal traits were doubted, we revised the hypothesis of a mycorrhizal nature of A. strictum. A successful synthesis of mycorrhiza in hair roots of inoculated ericaceous plants was a first step of evidence, followed by fluorescence microscopy with FUN(®)1 cell stain to observe the vitality of the host cells at the early infection stage. In inoculation trials with in vitro-raised mycorrhiza-free Rhododendron plants in axenic liquid culture and in greenhouse substrate culture, A. strictum was never observed in living hair root cells. As compared to the ERMF Oidiodendron maius and Rhizoscyphus ericae that invaded metabolically active host cells and established a symbiotic unit, A. strictum was only found in cells that were dead or in the process of dying and in the apoplast. In conclusion, A. strictum does not behave like a common ERMF-if it is one at all. A comparison of A. strictum isolates from ericaceous and non-ericaceous hosts could reveal further identity details to generalize or specify our findings on the symbiotic nature of A. strictum. At least, the staining method enables to discern between true mycorrhizal and other root endophytes-a tool for further studies.
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Affiliation(s)
- Gisela Grunewaldt-Stöcker
- Institute of Horticultural Production Systems, Section Phytomedicine, Gottfried Wilhelm Leibniz Universität Hannover, Herrenhäuser Straße 2, 30419, Hannover, Germany.
| | - Henning von Alten
- Institute of Horticultural Production Systems, Section Phytomedicine, Gottfried Wilhelm Leibniz Universität Hannover, Herrenhäuser Straße 2, 30419, Hannover, Germany
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Zhang Y, Ni J, Tang F, Pei K, Luo Y, Jiang L, Sun L, Liang Y. Root-associated fungi of Vaccinium carlesii in subtropical forests of China: intra- and inter-annual variability and impacts of human disturbances. Sci Rep 2016; 6:22399. [PMID: 26928608 PMCID: PMC4772160 DOI: 10.1038/srep22399] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Accepted: 02/15/2016] [Indexed: 11/09/2022] Open
Abstract
Ericoid mycorrhiza (ERM) are expected to facilitate establishment of ericaceous plants in harsh habitats. However, diversity and driving factors of the root-associated fungi of ericaceous plants are poorly understood. In this study, hair-root samples of Vaccinium carlesii were taken from four forest types: old growth forests (OGF), secondary forests with once or twice cutting (SEC I and SEC II), and Cunninghamia lanceolata plantation (PLF). Fungal communities were determined using high-throughput sequencing, and impacts of human disturbances and the intra- and inter-annual variability of root-associated fungal community were evaluated. Diverse fungal taxa were observed and our results showed that (1) Intra- and inter-annual changes in root-associated fungal community were found, and the Basidiomycota to Ascomycota ratio was related to mean temperature of the sampling month; (2) Human disturbances significantly affected structure of root-associated fungal community of V. carlesii, and two secondary forest types were similar in root-associated fungal community and were closer to that of the old growth forest; (3) Plant community composition, edaphic parameters, and geographic factors significantly affected root-associated fungal communities of V. carlesii. These results may be helpful in better understanding the maintenance mechanisms of fungal diversity associated with hair roots of ERM plants under human disturbances.
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Affiliation(s)
- Yanhua Zhang
- College of Life Sciences, Shaoxing University, Shaoxing, China
| | - Jian Ni
- College of Life Sciences, Shaoxing University, Shaoxing, China
| | - Fangping Tang
- College of Life Sciences, Shaoxing University, Shaoxing, China
| | - Kequan Pei
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Yiqi Luo
- Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, USA
| | - Lifen Jiang
- Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, USA
| | - Lifu Sun
- College of Life Sciences, Shaoxing University, Shaoxing, China
- Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, USA
| | - Yu Liang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
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Lukešová T, Kohout P, Větrovský T, Vohník M. The potential of Dark Septate Endophytes to form root symbioses with ectomycorrhizal and ericoid mycorrhizal middle European forest plants. PLoS One 2015; 10:e0124752. [PMID: 25905493 PMCID: PMC4408093 DOI: 10.1371/journal.pone.0124752] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2014] [Accepted: 03/08/2015] [Indexed: 11/19/2022] Open
Abstract
The unresolved ecophysiological significance of Dark Septate Endophytes (DSE) may be in part due to existence of morphologically indistinguishable cryptic species in the most common Phialocephala fortinii s. l.--Acephala applanata species complex (PAC). We inoculated three middle European forest plants (European blueberry, Norway spruce and silver birch) with 16 strains of eight PAC cryptic species and other DSE and ectomycorrhizal/ericoid mycorrhizal fungi and focused on intraradical structures possibly representing interfaces for plant-fungus nutrient transfer and on host growth response. The PAC species Acephala applanata simultaneously formed structures resembling ericoid mycorrhiza (ErM) and DSE microsclerotia in blueberry. A. macrosclerotiorum, a close relative to PAC, formed ectomycorrhizae with spruce but not with birch, and structures resembling ErM in blueberry. Phialocephala glacialis, another close relative to PAC, formed structures resembling ErM in blueberry. In blueberry, six PAC strains significantly decreased dry shoot biomass compared to ErM control. In birch, one A. macrosclerotiorum strain increased root biomass and the other shoot biomass in comparison with non-inoculated control. The dual mycorrhizal ability of A. macrosclerotiorum suggested that it may form mycorrhizal links between Ericaceae and Pinaceae. However, we were unable to detect this species in Ericaceae roots growing in a forest with presence of A. macrosclerotiorum ectomycorrhizae. Nevertheless, the diversity of Ericaceae mycobionts was high (380 OTUs) with individual sites often dominated by hitherto unreported helotialean and chaetothyrialean/verrucarialean species; in contrast, typical ErM fungi were either absent or low in abundance. Some DSE apparently have a potential to form mycorrhizae with typical middle European forest plants. However, except A. applanata, the tested representatives of all hitherto described PAC cryptic species formed typical DSE colonization without specific structures necessary for mycorrhizal nutrient transport. A. macrosclerotiorum forms ectomycorrhiza with conifers but not with broadleaves and probably does not form common mycorrhizal networks between conifers with Ericaceae.
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Affiliation(s)
- Tereza Lukešová
- Department of Plant Experimental Biology, Faculty of Science, Charles University in Prague, Prague, Czech Republic
- Department of Mycorrhizal Symbioses, Institute of Botany ASCR, Průhonice, Czech Republic
| | - Petr Kohout
- Department of Plant Experimental Biology, Faculty of Science, Charles University in Prague, Prague, Czech Republic
- Department of Mycorrhizal Symbioses, Institute of Botany ASCR, Průhonice, Czech Republic
- Department of Botany, Institute of Ecology and Earth Sciences, University of Tartu, Tartu, Estonia
| | - Tomáš Větrovský
- Laboratory of Environmental Microbiology, Institute of Microbiology ASCR, Prague, Czech Republic
| | - Martin Vohník
- Department of Plant Experimental Biology, Faculty of Science, Charles University in Prague, Prague, Czech Republic
- Department of Mycorrhizal Symbioses, Institute of Botany ASCR, Průhonice, Czech Republic
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