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1.
Environ Microbiol Rep ; 16(4): e13318, 2024 Aug.
Article in English | MEDLINE | ID: mdl-39171931

ABSTRACT

Understanding the effects of grapevine rootstock and scion genotypes on arbuscular mycorrhizal fungi (AMF), as well as the roles of these fungi in plant development, could provide new avenues for adapting viticulture to climate change and reducing agrochemical inputs. The root colonization of 10 rootstock/scion combinations was studied using microscopy and metabarcoding approaches and linked to plant development phenotypes. The AMF communities were analysed using 18S rRNA gene sequencing. The 28S rRNA gene was also sequenced for some combinations to evaluate whether the method changed the results. Root colonization indexes measured by microscopy were not significantly different between genotypes. Metabarcoding analyses showed an effect of the rootstock genotype on the ß-diversity and the enrichment of several taxa with both target genes, as well as an effect on the Chao1 index with the 18S rRNA gene. We confirm that rootstocks recruit different AMF communities when subjected to the same pedoclimatic conditions, while the scion has little or no effect. Significant correlations were observed between AMF community composition and grapevine development, suggesting that AMF have a positive effect on plant growth. Given these results, it will be important to define consensus methods for studying the role of these beneficial micro-organisms in vineyards.


Subject(s)
Mycorrhizae , Plant Roots , Vitis , Mycorrhizae/genetics , Mycorrhizae/classification , Mycorrhizae/physiology , Mycorrhizae/growth & development , Vitis/microbiology , Vitis/growth & development , Plant Roots/microbiology , Soil Microbiology , RNA, Ribosomal, 18S/genetics , Genotype , Mycobiome/genetics , Phylogeny
2.
Mycologia ; 116(5): 848-864, 2024.
Article in English | MEDLINE | ID: mdl-38990778

ABSTRACT

Species of the ectomycorrhizal (ECM) family Cortinariaceae (Agaricales, Agaricomycetes, Basidiomycota) have long been considered impoverished or absent from lowland tropical rainforests. Several decades of collecting in forests dominated by ECM trees in South America's Guiana Shield is countering this view, with discovery of numerous Cortinariaceae species. To date, ~12 morphospecies of this family have been found in the central Pakaraima Mountains of Guyana. Here, we describe three of these as new species of Cortinarius and two as new species of Phlegmacium from forests dominated by the ECM tree genera Dicymbe (Fabaceae subfam. Detarioideae), Aldina (Fabaceae subfam. Papilionoideae), and Pakaraimaea (Cistaceae). Macromorphological, micromorphological, habitat, and DNA sequence data are provided for each new species.


Subject(s)
Agaricales , DNA, Fungal , Fabaceae , Mycorrhizae , Phylogeny , Guyana , DNA, Fungal/genetics , Mycorrhizae/classification , Mycorrhizae/genetics , Agaricales/classification , Agaricales/genetics , Agaricales/isolation & purification , Fabaceae/microbiology , Sequence Analysis, DNA , DNA, Ribosomal Spacer/genetics , Cortinarius/classification , Cortinarius/genetics , Cortinarius/isolation & purification , Ecosystem , DNA, Ribosomal/genetics , Spores, Fungal/cytology , Spores, Fungal/classification
3.
Fungal Biol ; 128(5): 1939-1953, 2024 Aug.
Article in English | MEDLINE | ID: mdl-39059849

ABSTRACT

Archaeorhizomyces is a diverse and ubiquitous genus of the subphylum Taphrinomycotina, which contains soil-inhabiting/root-associated fungi. Although ecological importance and root-associating lifestyles of Archaeorhizomyces can be postulated, morphological aspects of fungal body and root colonization are largely unknown due to the scarcity of cultures. We obtained three unidentified Archaeorhizomyces isolates from ericoid mycorrhizal (ErM) roots of Rhododendron scabrum and Rhododendron × obtusum collected in Japan. To advance our understanding of lifestyle of the genus, we investigated their general morphology, phylogeny, and in vitro root-colonizing ability in ericoid mycorrhizal hosts, Vaccinium virgatum and Rhododendron kaempferi. Some morphological characteristics, such as slow glowing white-to-creamy-colored colonies and formation of yeast-like or chlamydospore-like cells, were shared between our strains and two described species, Archaeorhizomycesfinlayi and Archaeorhizomyces borealis, but they were phylogenetically distant. Our strains were clearly distinguished as two undescribed species based on morphology and phylogenetic relationship. As seen in typical ErM fungi, both species frequently formed hyphal coils within vital rhizodermal cells of ErM plants in vitro. The morphology of hyphal coils was also different between species. Consequently, two novel species, Archaeorhizomyces notokirishimae sp. nov. and Archaeorhizomyces ryukyuensis sp. nov., were described.


Subject(s)
DNA, Fungal , Mycorrhizae , Phylogeny , Plant Roots , Plant Roots/microbiology , Mycorrhizae/classification , Mycorrhizae/genetics , Mycorrhizae/isolation & purification , DNA, Fungal/genetics , Japan , DNA, Ribosomal/genetics , Sequence Analysis, DNA , Rhododendron/microbiology , Cluster Analysis , Soil Microbiology , Molecular Sequence Data , DNA, Ribosomal Spacer/genetics
4.
Mycorrhiza ; 34(4): 369-373, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38951211

ABSTRACT

Recent work established a backbone reference tree and phylogenetic placement pipeline for identification of arbuscular mycorrhizal fungal (AMF) large subunit (LSU) rDNA environmental sequences. Our previously published pipeline allowed any environmental sequence to be identified as putative AMF or within one of the major families. Despite this contribution, difficulties in implementation of the pipeline remain. Here, we present an updated database and pipeline with (1) an expanded backbone tree to include four newly described genera and (2) several changes to improve ease and consistency of implementation. In particular, packages required for the pipeline are now installed as a single folder (conda environment) and the pipeline has been tested across three university computing clusters. This updated backbone tree and pipeline will enable broadened adoption by the community, advancing our understanding of these ubiquitous and ecologically important fungi.


Subject(s)
DNA, Fungal , Mycorrhizae , Phylogeny , Mycorrhizae/genetics , Mycorrhizae/classification , DNA, Fungal/genetics , DNA, Environmental/genetics , DNA, Environmental/analysis , Soil Microbiology , DNA, Ribosomal/genetics
5.
Environ Microbiol Rep ; 16(4): e13300, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38979873

ABSTRACT

Desert plants, such as Agave tequilana, A. salmiana and Myrtillocactus geometrizans, can survive harsh environmental conditions partly due to their symbiotic relationships with microorganisms, including arbuscular mycorrhizal fungi (AMF). Interestingly, some of these fungi also harbour endosymbiotic bacteria. Our research focused on investigating the diversity of these AMFs and their associated bacteria in these plants growing in arid soil. We found that agaves have a threefold higher AMF colonization than M. geometrizans. Metabarcoding techniques revealed that the composition of AMF communities was primarily influenced by the plant host, while the bacterial communities were more affected by the specific plant compartment or niche they inhabited. We identified both known and novel endofungal bacterial taxa, including Burkholderiales, and confirmed their presence within AMF spores using multiphoton microscopy. Our study also explored the effects of drought on the symbiosis between A. tequilana and AMF. We discovered that the severity of drought conditions could modulate the strength of this symbiosis and its outcomes for the plant holobiont. Severe drought conditions prevented the formation of this symbiosis, while moderate drought conditions promoted it, thereby conferring drought tolerance in A. tequilana. This research sheds light on the diversity of AMF and associated bacteria in Crassulacean Acid Metabolism (CAM) plants and underscores the crucial role of drought as a factor modulating the symbiosis between A. tequilana and AMF. Further research is needed to understand the role of endofungal bacteria in this response.


Subject(s)
Bacteria , Desert Climate , Droughts , Mycorrhizae , Soil Microbiology , Symbiosis , Mycorrhizae/physiology , Mycorrhizae/classification , Mycorrhizae/genetics , Bacteria/classification , Bacteria/genetics , Bacteria/isolation & purification , Bacteria/metabolism , Agave/microbiology , Biodiversity , Plant Roots/microbiology
6.
Nature ; 631(8022): 835-842, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38987593

ABSTRACT

Fungi are among the most diverse and ecologically important kingdoms in life. However, the distributional ranges of fungi remain largely unknown as do the ecological mechanisms that shape their distributions1,2. To provide an integrated view of the spatial and seasonal dynamics of fungi, we implemented a globally distributed standardized aerial sampling of fungal spores3. The vast majority of operational taxonomic units were detected within only one climatic zone, and the spatiotemporal patterns of species richness and community composition were mostly explained by annual mean air temperature. Tropical regions hosted the highest fungal diversity except for lichenized, ericoid mycorrhizal and ectomycorrhizal fungi, which reached their peak diversity in temperate regions. The sensitivity in climatic responses was associated with phylogenetic relatedness, suggesting that large-scale distributions of some fungal groups are partially constrained by their ancestral niche. There was a strong phylogenetic signal in seasonal sensitivity, suggesting that some groups of fungi have retained their ancestral trait of sporulating for only a short period. Overall, our results show that the hyperdiverse kingdom of fungi follows globally highly predictable spatial and temporal dynamics, with seasonality in both species richness and community composition increasing with latitude. Our study reports patterns resembling those described for other major groups of organisms, thus making a major contribution to the long-standing debate on whether organisms with a microbial lifestyle follow the global biodiversity paradigms known for macroorganisms4,5.


Subject(s)
Air Microbiology , Biodiversity , DNA, Fungal , Fungi , Seasons , Spatio-Temporal Analysis , DNA, Fungal/analysis , DNA, Fungal/genetics , Fungi/genetics , Fungi/classification , Fungi/isolation & purification , Mycorrhizae/genetics , Mycorrhizae/classification , Mycorrhizae/isolation & purification , Phylogeny , Spores, Fungal/classification , Spores, Fungal/isolation & purification , Temperature , Tropical Climate , Geographic Mapping
7.
FEMS Microbiol Ecol ; 100(8)2024 Jul 12.
Article in English | MEDLINE | ID: mdl-38925654

ABSTRACT

Differences between arbuscular (AM) and ectomycorrhizal (EcM) trees strongly influence forest ecosystem processes, in part through their impact on saprotrophic fungal communities. Ericoid mycorrhizal (ErM) shrubs likely also impact saprotrophic communities given that they can shape nutrient cycling by slowing decomposition rates and intensifying nitrogen limitation. We investigated the depth distributions of saprotrophic and EcM fungal communities in paired subplots with and without a common understory ErM shrub, mountain laurel (Kalmia latifolia L.), across an AM to EcM tree dominance gradient in a temperate forest by analyzing soils from the organic, upper mineral (0-10 cm), and lower mineral (cumulative depth of 30 cm) horizons. The presence of K. latifolia was strongly associated with the taxonomic and functional composition of saprotrophic and EcM communities. Saprotrophic richness was consistently lower in the Oa horizon when this ErM shrub species was present. However, in AM tree-dominated plots, the presence of the ErM shrub was associated with a higher relative abundance of saprotrophs. Given that EcM trees suppress both the diversity and relative abundance of saprotrophic communities, our results suggest that separate consideration of ErM shrubs and EcM trees may be necessary when assessing the impacts of plant mycorrhizal associations on belowground communities.


Subject(s)
Biodiversity , Mycorrhizae , Soil Microbiology , Trees , Mycorrhizae/genetics , Mycorrhizae/physiology , Mycorrhizae/growth & development , Mycorrhizae/classification , Trees/microbiology , Forests , Mycobiome , Fungi/classification , Fungi/genetics , Fungi/growth & development , Soil/chemistry , Ecosystem
8.
Mycorrhiza ; 34(4): 283-292, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38918244

ABSTRACT

Mycoheterotrophic plants (MHPs) rely on their mycorrhizal fungus for carbon and nutrient supply, thus a shift in mycobionts may play a crucial role in speciation. This study aims to explore the mycorrhizal diversity of two closely related and sympatric fully MHPs, Monotropastrum humile var. humile (Mhh) and M. humile var. glaberrimum (Mhg), and determine their mycorrhizal associations. A total of 1,108,710 and 1,119,071 ectomycorrhizal fungal reads were obtained from 31 Mhh and 31 Mhg, and these were finally assigned to 227 and 202 operational taxonomic units, respectively. Results show that sympatric Mhh and Mhg are predominantly associated with different fungal genera in Russulaceae. Mhh is consistently associated with members of Russula, whereas Mhg is associated with members of Lactarius. Associating with different mycobionts and limited sharing of fungal partners might reduce the competition and contribute to their coexistence. The ectomycorrhizal fungal communities are significantly different among the five forests in both Mhh and Mhg. The distinct mycorrhizal specificity between Mhh and Mhg suggests the possibility of different mycobionts triggered ecological speciation between sympatric species.


Subject(s)
Biodiversity , Mycorrhizae , Mycorrhizae/physiology , Mycorrhizae/classification , Mycorrhizae/genetics , Sympatry , Asteraceae/microbiology , Phylogeny , Soil Microbiology
9.
Curr Microbiol ; 81(7): 210, 2024 Jun 05.
Article in English | MEDLINE | ID: mdl-38837067

ABSTRACT

The extensive use of high-throughput sequencing (HTS) has significantly advanced and transformed our comprehension of virus diversity, especially in intricate settings like soil and biological specimens. In this study, we delved into mycovirus sequence surveys within mycorrhizal fungus species Terfezia claveryi, through employing HTS with total double-stranded RNA (dsRNA) extracts. Our findings revealed the presence of four distinct members from the Alsuviricetes class, one flexivirus designated as Terfezia claveryi flexivirus 1 (TcFV1) and three endornaviruses (TcEV1, TcEV2, and TcEV3) in two different T. claveryi isolates. TcFV1, a member of the order Tymovirales, exhibits a unique genome structure and sequence features. Through in-depth analyses, we found that it shares sequence similarities with other deltaflexiviruses and challenges existing Deltaflexiviridae classification. The discovery of TcFV1 adds to the genomic plasticity of mycoviruses within the Tymovirales order, shedding light on their evolutionary adaptations. Additionally, the three newly discovered endornaviruses (TcEV1, TcEV2, and TcEV3) in T. claveryi exhibited limited sequence similarities with other endornaviruses and distinctive features, including conserved domains like DEAD-like helicase, ATPases Associated with Diverse Cellular Activities (AAA ATPase), and RNA dependent RNA polymerase (RdRp), indicating their classification as members of new species within the Alphaendornavirus genus. In conclusion, this research emphasizes the importance of exploring viral diversity in uncultivated fungi, bridging knowledge gaps in mycovirus ecology. The discoveries of a novel flexivirus with unique genome organization and endornaviruses in T. claveryi broaden our comprehension of mycovirus diversity and evolution, highlighting the need for continued investigations into viral populations in wild fungi.


Subject(s)
Fungal Viruses , Genome, Viral , Mycorrhizae , Phylogeny , Fungal Viruses/genetics , Fungal Viruses/classification , Fungal Viruses/isolation & purification , Mycorrhizae/genetics , Mycorrhizae/virology , Mycorrhizae/classification , RNA Viruses/genetics , RNA Viruses/classification , RNA Viruses/isolation & purification , RNA, Viral/genetics , High-Throughput Nucleotide Sequencing , Basidiomycota/virology , Basidiomycota/genetics
10.
J Basic Microbiol ; 64(8): e2400016, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38922741

ABSTRACT

Taxus contorta (family Taxaceae) is a native plant of temperate region of western Himalaya. The current study investigated the effect of altitude on the phytochemical composition and mycorrhizal diversity, associated with distribution of T. contorta in Shimla district, Himachal Pradesh, India. Quantitative phytochemical analysis of the leaf extracts indicated that alkaloid levels decreased with altitude, with the highest value in Himri's methanol extracts (72.79 ± 1.08 mg/g) while phenol content increased with altitude, peaking in Nankhari's methanol extracts (118.83 ± 5.90 mg/g). Saponin content was higher in methanol extracts (78.13 ± 1.66 mg/g in Nankhari, 68.06 ± 1.92 mg/g in Pabbas, and 56.32 ± 1.93 mg/g in Himri). Flavonoid levels were notably higher in chloroform extracts, particularly in Nankhari (219.97 ± 2.99 mg/g), and positively correlated with altitude. Terpenoids were higher in chloroform extracts at Himri (11.34 ± 0.10 mg/g) and decreased with altitude. Taxol content showed minimal variation between solvents and altitudes (4.53-6.98 ppm), while rutin was only detected in methanol extracts (1.31-1.46 ppm). Mycorrhizal spore counts in T. contorta's rhizosphere varied with altitude: highest at Himri (77.83 ± 2.20 spores/50 g soil), decreasing to Pabbas (68.06 ± 1.96 spores/50 g soil) and lowest at Nankhari (66.00 ± 2.77 spores/50 g soil), with 17 AMF species identified overall, showing significant altitudinal influence on spore density. The rhizosphere of T. contorta was shown to be dominated by the Glomus species. The rhizospheric soil of the plant was found to be slightly acidic. Organic carbon and available potassium content decreased contrasting with increasing available nitrogen and phosphorus with altitude. Correlation data showed strong negative links between organic carbon (-0.83), moderate positive for nitrogen (0.46) and phosphorus (0.414), and moderate negative for potassium (-0.56) with the altitude. This study provides a comprehensive insight into changes in phytochemical constituents, mycorrhizal diversity and soil composition of T. contorta along a range of altitude.


Subject(s)
Altitude , Forests , Mycorrhizae , Phytochemicals , Plant Leaves , Taxus , Taxus/microbiology , Taxus/chemistry , Mycorrhizae/chemistry , Mycorrhizae/classification , Phytochemicals/analysis , Phytochemicals/chemistry , India , Plant Leaves/chemistry , Plant Leaves/microbiology , Biodiversity , Soil Microbiology , Alkaloids/analysis , Alkaloids/chemistry , Flavonoids/analysis , Terpenes/analysis , Plant Extracts/chemistry , Plant Roots/microbiology , Plant Roots/chemistry , Saponins/analysis , Saponins/chemistry
11.
Mol Ecol ; 33(15): e17441, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38923648

ABSTRACT

Rocky habitats, globally distributed ecosystems, harbour diverse biota, including numerous endemic and endangered species. Vascular plants thriving in these environments face challenging abiotic conditions, requiring diverse morphological and physiological adaptations. Their engagement with the surrounding microbiomes is, however, equally vital for their adaptation, fitness, and long-term survival. Nevertheless, there remains a lack of understanding surrounding this complex interplay within this fascinating biotic ecosystem. Using microscopic observations and metabarcoding analyses, we examined the fungal abundance and diversity in the root system of the rock-dwelling West Carpathian endemic shrub, Daphne arbuscula (Thymelaeaceae). We explored the diversification of root-associated fungal communities in relation to microclimatic variations across the studied sites. We revealed extensive colonization of the Daphne roots by diverse taxonomic fungal groups attributed to different ecological guilds, predominantly plant pathogens, dark septate endophytes (DSE), and arbuscular mycorrhizal fungi (AMF). Notably, differences in taxonomic composition and ecological guilds emerged between colder and warmer microenvironments. Apart from omnipresent AMF, warmer sites exhibited a prevalence of plant pathogens, while colder sites were characterized by a dominance of DSE. This mycobiome diversification, most likely triggered by the environment, suggests that D. arbuscula populations in warmer areas may be more vulnerable to fungal diseases, particularly in the context of global climate change.


Subject(s)
Daphne , Ecosystem , Mycorrhizae , Plant Roots , Mycorrhizae/genetics , Mycorrhizae/classification , Plant Roots/microbiology , Daphne/microbiology , Daphne/genetics , Mycobiome/genetics , Fungi/classification , Fungi/genetics , Endophytes/genetics , Adaptation, Physiological/genetics
12.
Mycorrhiza ; 34(4): 271-282, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38850289

ABSTRACT

Tropical forests represent one of the most diverse and productive ecosystems on Earth. High productivity is sustained by efficient and rapid cycling of nutrients, which is in large part made possible by symbiotic associations between plants and mycorrhizal fungi. In these associations, an individual plant typically associates simultaneously with multiple fungi and the fungi associate with multiple plants, creating complex networks among fungi and plants. However, there are few studies that have investigated mycorrhizal fungal composition and diversity in tropical forest trees, particularly in Africa, or that assessed the structure of the network of associations among fungi and trees. In this study, we collected root and soil samples from Ise Forest Reserve (Southwest Nigeria) and used a metabarcoding approach to identify the dominant arbuscular mycorrhizal (AM) fungal taxa in the soil and associating with ten co-occurring tree species to assess variation in AM communities. Network analysis was used to elucidate the architecture of the network of associations between fungi and tree species. A total of 194 Operational Taxonomic Units (OTUs) belonging to six AM fungal families were identified, with 68% of all OTUs belonging to Glomeraceae. While AM fungal diversity did not differ among tree species, AM fungal community composition did. Network analyses showed that the network of associations was not significantly nested and showed a relatively low level of specialization (H2 = 0.43) and modularity (M = 0.44). We conclude that, although there were some differences in AM fungal community composition, the studied tree species associate with a large number of AM fungi. Similarly, most AM fungi had great host breadth and were detected in most tree species, thereby potentially working as interaction network hubs.


Subject(s)
Biodiversity , Forests , Mycorrhizae , Trees , Mycorrhizae/physiology , Mycorrhizae/classification , Trees/microbiology , Tropical Climate , Soil Microbiology , Nigeria
13.
Ying Yong Sheng Tai Xue Bao ; 35(5): 1251-1259, 2024 May.
Article in Chinese | MEDLINE | ID: mdl-38886423

ABSTRACT

Species richness plays an important role in ecosystem stability and health. Mycorrhizal type is an important factor affecting ecological processes. How mycorrhizal types affect understory herb species richness and their responses to environmental changes remain largely unknown. We investigated the effects of mycorrhizal types on species richness and their responses to environmental change in understory herbaceous communities based on data of three mycorrhizal types of dominated trees (including 1604 arbuscular mycorrhiza (AM) trees, 4654 ectomycorrhiza (ECM) trees, and 5568 AM+ECM trees) and environmental factors in America. The results showed significant differences in species richness of herbaceous plant communities among different mycorrhizal types. Forests with higher dominance of AM plants tended to have higher herbaceous plant richness, supporting the mycorrhizal mediation hypothesis. The impacts of environmental factors (latitude, temperature, precipitation, nitrogen deposition, and soil characteristics) on species richness of herbaceous plant communities depended on mycorrhizal type of forests. The species richness of understory herbs in AM, ECM, and AM+ECM forests was mostly affected by nitrogen deposition, temperature, and soil pH, with the relative importance of 42.3%, 41.1% and 48.7%, respectively. Mycorrhizal types of dominant trees played a vital role in regulating the species richness of understory herbs and influenced their responses to environmental changes.


Subject(s)
Biodiversity , Ecosystem , Forests , Mycorrhizae , Trees , Mycorrhizae/classification , Mycorrhizae/physiology , Trees/growth & development , Trees/microbiology , Trees/classification , China , Population Dynamics
14.
Microbiol Res ; 285: 127763, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38805979

ABSTRACT

Soil desertification poses a critical ecological challenge in arid and semiarid climates worldwide, leading to decreased soil productivity due to the disruption of essential microbial community processes. Fungi, as one of the most important soil microbial communities, play a crucial role in enhancing nutrient and water uptake by plants through mycorrhizal associations. However, the impact of overgrazing-induced desertification on fungal community structure, particularly in the Caatinga biome of semiarid regions, remains unclear. In this study, we assessed the changes in both the total fungal community and the arbuscular mycorrhizal fungal community (AMF) across 1. Natural vegetation (native), 2. Grazing exclusion (20 years) (restored), and 3. affected by overgrazing-induced degradation (degraded) scenarios. Our assessment, conducted during both the dry and rainy seasons in Irauçuba, Ceará, utilized Internal Transcribed Spacer (ITS) gene sequencing via Illumina® platform. Our findings highlighted the significant roles of the AMF families Glomeraceae (∼71% of the total sequences) and Acaulosporaceae (∼14% of the total sequences) as potential key taxa in mitigating climate change within dryland areas. Moreover, we identified the orders Pleosporales (∼35% of the total sequences) and Capnodiales (∼21% of the total sequences) as the most abundant soil fungal communities in the Caatinga biome. The structure of the total fungal community differed when comparing native and restored areas to degraded areas. Total fungal communities from native and restored areas clustered together, suggesting that grazing exclusion has the potential to improve soil properties and recover fungal community structure amid global climate change challenges.


Subject(s)
Fungi , Mycobiome , Mycorrhizae , Soil Microbiology , Soil , Brazil , Mycorrhizae/classification , Mycorrhizae/genetics , Mycorrhizae/physiology , Fungi/classification , Fungi/genetics , Fungi/isolation & purification , Soil/chemistry , Climate Change , Desert Climate , Biodiversity , DNA, Fungal/genetics , Seasons , Ecosystem
15.
Microbiome ; 12(1): 83, 2024 May 09.
Article in English | MEDLINE | ID: mdl-38725008

ABSTRACT

BACKGROUND: Fungi and bacteria coexist in a wide variety of environments, and their interactions are now recognized as the norm in most agroecosystems. These microbial communities harbor keystone taxa, which facilitate connectivity between fungal and bacterial communities, influencing their composition and functions. The roots of most plants are associated with arbuscular mycorrhizal (AM) fungi, which develop dense networks of hyphae in the soil. The surface of these hyphae (called the hyphosphere) is the region where multiple interactions with microbial communities can occur, e.g., exchanging or responding to each other's metabolites. However, the presence and importance of keystone taxa in the AM fungal hyphosphere remain largely unknown. RESULTS: Here, we used in vitro and pot cultivation systems of AM fungi to investigate whether certain keystone bacteria were able to shape the microbial communities growing in the hyphosphere and potentially improved the fitness of the AM fungal host. Based on various AM fungi, soil leachates, and synthetic microbial communities, we found that under organic phosphorus (P) conditions, AM fungi could selectively recruit bacteria that enhanced their P nutrition and competed with less P-mobilizing bacteria. Specifically, we observed a privileged interaction between the isolate Streptomyces sp. D1 and AM fungi of the genus Rhizophagus, where (1) the carbon compounds exuded by the fungus were acquired by the bacterium which could mineralize organic P and (2) the in vitro culturable bacterial community residing on the surface of hyphae was in part regulated by Streptomyces sp. D1, primarily by inhibiting the bacteria with weak P-mineralizing ability, thereby enhancing AM fungi to acquire P. CONCLUSIONS: This work highlights the multi-functionality of the keystone bacteria Streptomyces sp. D1 in fungal-bacteria and bacterial-bacterial interactions at the hyphal surface of AM fungi. Video Abstract.


Subject(s)
Hyphae , Microbiota , Mycorrhizae , Plant Roots , Soil Microbiology , Streptomyces , Mycorrhizae/physiology , Mycorrhizae/classification , Streptomyces/classification , Streptomyces/isolation & purification , Streptomyces/genetics , Streptomyces/physiology , Hyphae/growth & development , Plant Roots/microbiology , Phosphorus/metabolism , Microbial Interactions/physiology , Soil/chemistry , Bacteria/classification , Bacteria/genetics , Bacteria/isolation & purification , Bacteria/metabolism
16.
Mycorrhiza ; 34(3): 229-250, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38664239

ABSTRACT

Despite being the second largest family of flowering plants, orchids represent community structure variation in plant-microbial associations, contributes to niche partitioning in metacommunity assemblages. Yet, mycorrhizal communities and interactions remain unknown for orchids that are highly specialized or even obligated in their associations with their mycorrhizal partners. In this study, we sought to compare orchid mycorrhizal fungal (OMF) communities of three co-occurring hemiepiphytic Vanilla species (V. hartii, V. pompona, and V. trigonocarpa) in tropical forests of Costa Rica by addressing the identity of their OMF communities across species, root types, and populations, using high-throughput sequencing. Sequencing the nuclear ribosomal internal transcribed spacer (nrITS) yielded 299 fungal Operational Taxonomic Units (OTUs) from 193 root samples. We showed distinct segregation in the putative OMF (pOMF) communities of the three coexisting Vanilla hosts. We also found that mycorrhizal communities associated with the rare V. hartii varied among populations. Furthermore, we identified Tulasnellaceae and Ceratobasidiaceae as dominant pOMF families in terrestrial roots of the three Vanilla species. In contrast, the epiphytic roots were mainly dominated by OTUs belonging to the Atractiellales and Serendipitaceae. Furthermore, the pOMF communities differed significantly across populations of the widespread V. trigonocarpa and showed patterns of distance decay in similarity. This is the first report of different pOMF communities detected in roots of wild co-occurring Vanilla species using high-throughput sequencing, which provides evidence that three coexisting Vanilla species and their root types exhibited pOMF niche partitioning, and that the rare and widespread Vanilla hosts displayed diverse mycorrhizal preferences.


Subject(s)
Mycorrhizae , Orchidaceae , Plant Roots , Vanilla , Mycorrhizae/classification , Mycorrhizae/genetics , Mycorrhizae/physiology , Costa Rica , Orchidaceae/microbiology , Plant Roots/microbiology , Vanilla/microbiology , Mycobiome , Phylogeny
17.
Mycologia ; 116(3): 392-408, 2024.
Article in English | MEDLINE | ID: mdl-38551379

ABSTRACT

The porcini mushroom family Boletaceae is a diverse, widespread group of ectomycorrhizal (ECM) mushroom-forming fungi that so far has eluded intrafamilial phylogenetic resolution based on morphology and multilocus data sets. In this study, we present a genome-wide molecular data set of 1764 single-copy gene families from a global sampling of 418 Boletaceae specimens. The resulting phylogenetic analysis has strong statistical support for most branches of the tree, including the first statistically robust backbone. The enigmatic Phylloboletellus chloephorus from non-ECM Argentinian subtropical forests was recovered as a new subfamily sister to the core Boletaceae. Time-calibrated branch lengths estimate that the family first arose in the early to mid-Cretaceous and underwent a rapid radiation in the Eocene, possibly when the ECM nutritional mode arose with the emergence and diversification of ECM angiosperms. Biogeographic reconstructions reveal a complex history of vicariance and episodic long-distance dispersal correlated with historical geologic events, including Gondwanan origins and inferred vicariance associated with its disarticulation. Together, this study represents the most comprehensively sampled, data-rich molecular phylogeny of the Boletaceae to date, establishing a foundation for future robust inferences of biogeography in the group.


Subject(s)
Agaricales , Genome, Fungal , Phylogeny , Agaricales/genetics , Agaricales/classification , Agaricales/isolation & purification , Whole Genome Sequencing , Mycorrhizae/genetics , Mycorrhizae/classification , Phylogeography
18.
Sci Rep ; 12(1): 2826, 2022 02 18.
Article in English | MEDLINE | ID: mdl-35181709

ABSTRACT

Dry dipterocarp forests are among the most common habitat types in Thailand. Russulaceae are known as common ectomycorrhizal symbionts of Dipterocarpaceae trees in this type of habitat. The present study aims to identify collections of Russula subsection Amoeninae Buyck from dry dipterocarp forests in Thailand. A multi-locus phylogenetic analysis placed Thai Amoeninae collections in two novel lineages, and they are described here as R. bellissima sp. nov. and R. luteonana sp. nov. The closest identified relatives of both species were sequestrate species suggesting that they may belong to drought-adapted lineages. An analysis of publicly available ITS sequences in R. subsect. Amoeninae did not confirm evidence of any of the new species occurring in other Asian regions, indicating that dry dipterocarp forests might harbor a novel community of ectomycorrhizal fungi. Macromorphological characters are variable and are not totally reliable for distinguishing the new species from other previously described Asian Amoeninae species. Both new species are defined by a combination of differentiated micromorphological characteristics in spore ornamentation, hymenial cystidia and hyphal terminations in the pileipellis. The new Amoeninae species may correspond to some Russula species collected for consumption in Thailand, and the detailed description of the new species can be used for better identification of edible species and food safety in the region.


Subject(s)
Basidiomycota/genetics , DNA, Fungal/isolation & purification , Dipterocarpaceae/genetics , Phylogeny , Basidiomycota/classification , DNA, Fungal/genetics , Dipterocarpaceae/classification , Ecosystem , Forests , Mycorrhizae/classification , Mycorrhizae/genetics , Thailand , Tropical Climate
19.
PLoS One ; 16(10): e0257616, 2021.
Article in English | MEDLINE | ID: mdl-34644307

ABSTRACT

Species of the genus Russula are key components of ectomycorrhizal ecosystems worldwide. Nevertheless, their diversity in the tropics is still poorly known. This study aims to contribute to the knowledge of the diversity of Russula species classified in subsection Roseinae based on specimens recently collected in tropical montane rainforests in western Panama. A five gene multilocus phylogeny based on the nuclear markers ITS nrDNA, MCM7, RPB1, RPB2 and TEF-1α was constructed to identify the systematic position of 22 collections from Panama. Four new species, Russula cornicolor, Russula cynorhodon, Russula oreomunneae and Russula zephyrovelutipes are formally described and illustrated. None of the four species are sister species and they are more closely related to North American or Asian species. Two of the newly described species were associated with the ectomycorrhizal tree species Oreomunnea mexicana, while the other two species were associated with Quercus species. All four species are so far only known from mountains in western Panama.


Subject(s)
Basidiomycota/classification , Mycorrhizae/classification , Basidiomycota/genetics , Biodiversity , DNA, Fungal/genetics , Forests , Mycorrhizae/genetics , Panama , Phylogeny , Species Specificity , Tropical Climate
20.
Nat Commun ; 12(1): 4431, 2021 07 21.
Article in English | MEDLINE | ID: mdl-34290234

ABSTRACT

Experiments showed that biodiversity increases grassland productivity and nutrient exploitation, potentially reducing fertiliser needs. Enhancing biodiversity could improve P-use efficiency of grasslands, which is beneficial given that rock-derived P fertilisers are expected to become scarce in the future. Here, we show in a biodiversity experiment that more diverse plant communities were able to exploit P resources more completely than less diverse ones. In the agricultural grasslands that we studied, management effects either overruled or modified the driving role of plant diversity observed in the biodiversity experiment. Nevertheless, we show that greater above- (plants) and belowground (mycorrhizal fungi) biodiversity contributed to tightening the P cycle in agricultural grasslands, as reduced management intensity and the associated increased biodiversity fostered the exploitation of P resources. Our results demonstrate that promoting a high above- and belowground biodiversity has ecological (biodiversity protection) and economical (fertiliser savings) benefits. Such win-win situations for farmers and biodiversity are crucial to convince farmers of the benefits of biodiversity and thus counteract global biodiversity loss.


Subject(s)
Agriculture/methods , Biodiversity , Grassland , Phosphorus/metabolism , Agriculture/economics , Biomass , Fertilizers/economics , Latent Class Analysis , Mycorrhizae/classification , Mycorrhizae/metabolism , Phosphorus/analysis , Phosphorus/economics , Plants/classification , Plants/metabolism , Plants/microbiology , Soil/chemistry , Soil Microbiology
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