Search Results (306)

Urban expansion fragments once-contiguous forest patches, generating pronounced edge gradients that modulate soil physicochemical properties and biodiversity. We quantified how fragmentation reshaped the soil microbiome continuum and its implications for soil carbon storage in a temperate urban mixed deciduous forest. A total of 18 plots were considered in this study, with six plots for each fragment type. Intact interior forest (F), internal forest path fragment (IF), and external forest path fragment (EF) soils were sampled at 0–15, 15–30, and 30–45 cm depths and profiled through phospholipid-derived fatty acid (PLFA) chemotyping and amino sugar proxies for living microbiome and microbial-derived necromass assessment, respectively. Carbon fractionation was performed through the chemical oxidation method. Diversity indices (Shannon–Wiener, Pielou evenness, Margalef richness, and Simpson dominance) were calculated based on the determined fatty acids derived from the phospholipid fraction. The microbial biomass ranged from 85.1 to 214.6 nmol g⁻¹ dry soil, with the surface layers of F exhibiting the highest values (p < 0.01). Shannon diversity declined systematically from F > IF > EF. The microbial necromass varied from 11.3 to 23.2 g⋅kg⁻¹. Fragmentation intensified the stratification of carbon pools, with organic carbon decreasing by approximately 14% from F to EF. Our results show that EFs possess a declining microbiome continuum that weakens their carbon sequestration capacity in urban forests. Full article

Deforestation driven by plantations, such as Pinus patula Schiede ex Schltdl. et Cham., is a major cause of biodiversity and functional loss in tropical ecosystems. We assessed the diversity and composition of lichens and bryophytes in four size categories of pine cones, small (3–5 cm), medium (5.1–8 cm), large (8.1–10 cm), and very large (10.1–13 cm), with a total of 150 pine cones examined, where the occurrence and cover of lichen and bryophyte species were recorded. Identification keys based on morpho-anatomical features were used to identify lichens and bryophytes. In addition, for lichens, secondary metabolites were tested using spot reactions with potassium hydroxide, commercial bleach, and Lugol’s solution, and by examining the specimens under ultraviolet light. To evaluate the effect of pine cone size on species richness, the Kruskal–Wallis test was conducted, and species composition among cones sizes was compared using multivariate analysis. A total of 48 taxa were recorded on cones, including 41 lichens and 7 bryophytes. A total of 39 species were found on very large cones, 37 species on large cones, 35 species on medium cones, and 24 species on small cones. This is comparable to the diversity found in epiphytic communities of pine plantations. Species composition was influenced by pine cone size, differing from small in comparison with very large ones. The PERMANOVA analyses revealed that lichen and bryophyte composition varied significantly among the pine cone categories, explaining 21% of the variance. Very large cones with specific characteristics harbored different communities than those on small pine cones. The presence of lichen and bryophyte species on the pine cones from managed Ecuadorian P. patula plantations may serve as refugia for the conservation of biodiversity. Pine cones and their scales (which range from 102 to 210 per cone) may facilitate colonization of new areas by dispersal agents such as birds and rodents. The scales often harbor lichen and bryophyte propagules as well as intact thalli, which can be effectively dispersed, when the cones are moved. The prolonged presence of pine cones in the environment further enhances their role as possible dispersal substrates over extended periods. To our knowledge, this is the first study worldwide to examine pine cones as substrates for lichens and bryophytes, providing novel insights into their potential role as microhabitats within P. patula plantations and forest landscapes across both temperate and tropical zones. Full article

Wildfires can significantly alter soil physicochemical conditions and microbial communities in forest ecosystems. This study aimed to characterize the culturable soil fungal community and evaluate biological activity in Banco Totumo Bijibana, a protected dry tropical forest in Atlántico, Colombia, affected by a wildfire in 2014. Twenty soil samples were collected for microbiological (10 cm depth) and physicochemical (30 cm) analysis. Basal respiration was measured using Stotzky’s method, nitrogen mineralization via Rawls’ method, and fungal diversity through culture-based identification and colony-forming unit (CFU) counts. Diversity was assessed using Simpson, Shannon–Weaver, and ACE indices. The soils presented low organic matter (0.70%) and nitrogen content (0.035%), with reduced biological activity as indicated by basal respiration (0.12 kg C ha⁻¹ d⁻¹) and mineralized nitrogen (5.61 kg ha⁻¹). Four fungal morphotypes, likely from the genus Aspergillus, were identified. Simpson index indicated moderate dominance, while Shannon–Weaver values reflected low diversity. Correlation analysis showed Aspergillus-3 was positively associated with moisture, whereas Aspergillus-4 correlated negatively with pH and sand content. The species accumulation curve reached an asymptote, suggesting an adequate sampling effort. Although no control site was included, the findings provide a baseline characterization of post-fire soil microbial structure and function in a dry tropical ecosystem. Full article

Road density is a key indicator of human activity, causing habitat loss and fragmentation. Soil fungi, essential for ecosystem functioning, are sensitive bioindicators. Yet their responses to road density in urban green spaces are poorly characterized. Here, we analyzed the composition of the dominant fungal community, examined both the direct and indirect effects of road density on soil fungal communities, and identified specialist species. Focusing on Shanghai, China, a rapidly urbanizing city, we considered both edaphic factor and the road network. Through machine learning and Spearman correlation regression analyses, we quantified the relative importance of road density and edaphic factor in shaping fungal community composition and employed occupancy-specificity modeling to identify specialist taxa. Our results revealed that Ascomycota, Basidiomycota, Zygomycota, Rozellomycota, Chytridiomycota, and Glomeromycota were the dominant phyla, accounting for 93% of the retrieved ITS sequences. Road density was found to be the primary driver of fungal community composition, followed by soil lead and potassium concentrations. Notably, opportunistic pathogens (Acremonium spp.) correlated positively with road density (p < 0.001). Specialist species in high-density areas were primarily pathotrophic fungi, while saprotrophic fungi dominated in low-density areas. These findings highlight the need for urban planning strategies to mitigate the ecological impact of road density. Full article

The formation and development of mushrooms depend on suitable conditions of humidity, substrate, and temperature. These environmental factors are directly influenced by ongoing climate change, which may alter fungal growth patterns, distribution, and morphology. However, these attributes remain inadequately investigated in Antarctic mushrooms. In this study, we examined 334 basidiomes of Arrhenia antarctica, discovered on Livingston Island in 2023. The morphological characteristics of these basidiomes were analyzed to explore how recent variations may be linked to and explained by climatic changes. Comparing the original description from over 60 years ago with the recent literature on the subject, we observed a larger pileus diameter (47.3% of basidiomes with diameters exceeding 23 mm, up to 75 mm) than previously documented (reported as up to 23 mm). Additionally, there were changes in pileus morphology, with not all of them exhibiting an umbilicate form, contrary to the references. We propose that these morphological variations may be attributed to climatic changes. The basidiomata were also found in association with pure Antarctic grass banks, prompting the question of whether Arrhenia antarctica is indeed a moss parasite. The information presented in this study aims to support ongoing research on the taxonomy and diversity of Agaricales fungi in Antarctica. Full article

This study presents a bibliographic review of the genus Menegazzia in Chile, the first in over two decades, updating new records, the taxonomic placement of the genus, and the synonymization of species. Up to twenty species have been cited in the country, considering that M. albida, M. hollermayeri, and M. norstictca are synonyms of the valid species M. wilsonii, M. dispora, and M sanguinascens. A fully revised dichotomous key and color photographs are included to facilitate accurate identification, especially given the genus’s morphological convergence and sparse reproductive structures. For the first time, the divergence times of Menegazzia lineages are discussed in relation to major Southern Hemisphere geologic events, suggesting a dispersal-driven distribution with a crown age of approximately 21.2 Ma. This review consolidates fragmented data, integrates recent molecular findings, and emphasizes the genus’s value as an ecological and biogeographic indicator in Chilean temperate forests. Full article

Although the topic of trampling of alpine vegetation has been addressed by many authors in recent years, many unanswered questions still remain. The generalization of vegetation response patterns to trampling would be valuable, especially for problematic alpine areas, which are unsuitable for large hiking loads. Such an area is the limestone Belianske Tatras, which has been closed to tourists since 1978. Only one trail has been accessible in the area since 1993 as a one-way trail, and since 2008 it has been used as an educational two-way trail. Since there is renewed discussion about making the Belianske Tatras accessible to tourists, we sought answers to the following questions: (1) regenerated communities are more resistant to trampling than the native ones; (2) individual species in different communities react to trampling in the same way; and (3) some species can disappear or become extinct after being trampled. We conducted research in the form of an experiment according to the standard Cole and Bayfield protocol. We trampled three plant communities in 2008, treating them as native, and in 2022, treating them as regenerated. The regenerated communities appeared to be more resistant, although this came at the expense of some species disappearing or becoming extinct as a delayed response. Re-opening the area could be considered. Full article

At a depth of approximately 9 m off the coast of Banderas Bay, hydrothermal activity occurs through various seabed vents, discharging liquids and gases that reach temperatures of up to 89 °C and pH values lower than the surrounding seawater. This study examines the composition of the benthic infauna inhabiting the sediments of this hydrothermal system in two time periods: November 2017 (previously reported) and September 2023 (recorded for this study). In total, for both samplings, we identified 17 benthic infaunal groups—amphipods, isopods, cumaceans, tanaidaceans, crabs, shrimps, copepods, snails, limpets, caecids, chitons, bivalves, scaphopods, polychaetes, amphioxus, ophiuroids, and bryozoans—belonging to these ten taxonomic classes: Malacostraca, Maxillopoda, Gastropoda, Polyplacophora, Bivalvia, Scaphopoda, Polychaeta, Leptocardii, Ophiuroidea, and Stenolaemata. Additionally, we identified galleries of polychaetes, vermetids, and peracarids. Despite the stressful hydrothermal conditions, statistical analyses of both sampling campaigns revealed no significant differences in abundance, highlighting the potential persistence and adaptability of benthic communities in hydrothermally influenced habitats. Full article

Marine archaea play crucial roles in global biogeochemical cycles and climate regulation, yet their ecological functions in many coastal environments remain poorly understood. Jinhae Bay (JB), a eutrophic and environmentally stressed coastal system in Korea, has attracted growing attention; however, its archaeal community composition has not been characterized. In this preliminary study, we investigated the summer archaeal community structure in JB water columns based on a survey conducted in July 2018. We identified 5 archaeal phyla—primarily Euryarchaeota and Thaumarchaeota—along with 11 classes and 18 orders, with Nitrosopumilales and Methanobacteriales as dominant orders. Several ammonia-oxidizing archaea (AOA), including Candidatus Nitrosopumilus adriaticus, Candidatus Nitrosopumilus salaria, Candidatus Nitrosopumilus sediminis, and unclassified Nitrosopumilus spp., were detected. Additionally, the presence of methane-oxidizing archaea (MOA) such as Candidatus Methanoperedens nitroreducens, although at low relative abundance, suggests potential roles in nitrogen and methane cycling. These findings provide initial insights into the archaeal contributions to biogeochemical processes in JB, highlighting the need for further seasonal and functional investigations. Full article

This paper provides data on non-native fungus-like organisms (Oomycota, kingdom Stramenopila), their diversity, and distribution in Lithuania and is an addition to a previously published checklist of alien true fungi (Chytridiomycota, Ascomycota, and Basidiomycota; kingdom Fungi). All available published data were summarized, and the analysis showed that approximately 25% of recorded Lithuania stramenopilous fungus-like organism species are alien. The compiled list represented herein includes 54 species of alien terrestrial and aquatic stramenopilous fungus-like organisms (Oomycota). Most alien Oomycota are obligate pathogens of terrestrial plants. Aquatic organisms are represented by one alien dangerous crayfish pathogen, Aphanomyces astaci, which is currently noted as extinct in Lithuania. The taxonomy of the listed alien species of Oomycota has been revised, and the species names have been adjusted to reflect current nomenclature changes. The taxonomical and ecological analysis demonstrated the prevalence of terrestrial parasitic Peronosporales reported in Lithuania Oomycota and the highest diversity of alien species belonging to the Peronospora genus. The chronology of appearance, distribution within the country, and current status of these non-native organisms were assessed, and some of the most economically or ecologically important harmful invasive species were discussed. Full article

The cotton aphid, Aphis gossypii, is a globally significant agricultural pest whose microbiota plays vital roles in its physiology and adaptation. However, the dynamics of bacterial communities across its developmental stages remain poorly understood. This study employed full-length 16S rRNA gene sequencing to characterize the microbiota structure, diversity, and functional potential in nine developmental stages of A. gossypii, including egg, nymph (1-, 3-, 5-, 7-day-old), and adult (1-, 3-, 5-, 7-day-old). Results revealed Proteobacteria (72.75–95.51%) as the dominant phylum across all stages, with Buchnera aphidicola (primary obligate symbiont) constituting over 23.83% of bacterial abundance and peaking in eggs (≈80%). Alpha diversity indices (Shannon, Simpson) indicated significantly higher microbial diversity in nymphs compared to adults, suggesting stage-specific ecological interactions. While beta diversity analysis showed no structural clustering by developmental stage, functional predictions highlighted enrichment in metabolic pathways (>73% of genes), though limitations in 16S-based functional inference were noted. Notably, facultative symbionts like Hamiltonella or Serratia were absent, contrasting with other aphid systems. Dynamic shifts in Buchnera titer and the prominence of Delftia tsuruhatensis and Enterobacter hormaechei implied potential roles in host adaptation. These findings highlight the persistent dominance of the obligate symbiont Buchnera aphidicola across all developmental stages, despite quantitative fluctuations in its abundance, alongside stage-specific shifts in facultative bacterial communities, offering insights into novel targets for microbiome-driven pest management strategies. Further multi-omics approaches are warranted to validate functional contributions of these microbial communities. Full article

Ground-dwelling arthropods interact with vertebrates, plants, detritus, and microbes as important players in forest ecosystems. Human disturbance threatens the diversity of forest arthropods, with varied impacts on different taxa. However, we understand little of the impact of human disturbance on overwintering ground-dwelling arthropod diversity in mature subtropical evergreen forests. In order to test how ground-dwelling arthropod diversity varies by the distance to residential areas, we set 108 pitfall traps along four 100 m transects beginning near residential areas along the edges of a mature subtropical evergreen forest in Central China. We collected 30,616 arthropods, representing 96 morphospecies. The results show that the Shannon, Simpson, and Pielou’s evenness indices, as well as the effective number of species at α = 1 and 2, decrease when the pitfall traps are within 60 m of the residential areas. Moreover, the coefficients of variation in these three indices are higher at the sites closer to the residential areas by 11.54–17.72%. Such high variations in these widely used diversity and evenness indices indicate that estimation bias in arthropod diversity is more likely to occur at sites closer to residential areas. We suggest that different aspects of community composition should be studied to assess the effects of human disturbance on ground-dwelling arthropod diversity. Full article

Arbuscular mycorrhizal fungi (AMF) and Trichoderma spp. (T) are known as plant-beneficial fungi effective against root-knot nematodes, but their interactions in the rhizosphere are not well understood. This study examined how Meloidogyne javanica influences AMF colonization and community diversity at the root-soil interface of tomato plants. A 60-day growth chamber experiment was conducted with tomato plants grown in non-sterile agricultural soil, either infected or not with M. javanica, that received a single inoculation with AMF or Trichoderma (strains T363 or TJ15), combined AMF + T inoculations, or no inoculation (Control). Both single and combined inoculations significantly reduced root galls, eggs, and soil nematode larvae. An AMF community analysis via single-strand conformation polymorphism of the D1 region of 28S rDNA gene (Glomeraceae family) revealed that M. javanica decreased AMF diversity and altered community structure, in plants single-inoculated with AMF. However, a combined inoculation with Trichoderma appears to prevent this reduction and maintain AMF diversity. While M. javanica reduced root mycorrhizal colonization, it did not affect Trichoderma abundance. These results suggest that Trichoderma may be more resilient to nematode infection, helping stabilize AMF communities and enhance biocontrol. Thus, combining AMF and Trichoderma inoculations could better preserve root health and improve biological control effectiveness against M. javanica. Full article

A novel rod-shaped, Gram-negative, motile, aerobic and heavy metal-resistant bacterial strain, designated TN1-12^T, was isolated from stream bank soil in Paldal district, Suwon City, Republic of Korea. Growth occurred at 10–40 °C (opt 30 °C), NaCl concentrations up to 2% (w/v) and pH 5.0–8.0 (opt pH 7.0). Based on the 16S rRNA gene sequence, the closest relatives of strain, TN1-12^T, are Massilia putida 6NM-7^T (98.21% similarity), Massilia forsythiae GN2-R2^T (98.00%), Massilia rhizosphaerae NEAU-GH312^T (97.79%), Massilia aurea AP13^T (97.78%) and Massilia niabensis 5420S-26^T (97.71%). The predominant ubiquinone is Q-8. The G+C content of the DNA is 66.7 mol%. The major polar lipids are diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine. The major fatty acids are C16:0, summed feature 3 (C16:1ω7c and/or iso-C15:0 2-OH), 17:0 cyclo and summed feature 8 (C18:1 ω7c and/or C18:1 ω6c). DNA–DNA hybridization and Average Nucleotide Identity data showed values below 26% and 85%, respectively, confirming that TN1-12^T represents a novel species. Based on the genotypic, chemotaxonomic and physiological data presented in this study, we propose that strain TN1-12^T represents a novel species within the genus Massilia with the name Massilia paldalensis sp. nov. (=KACC 23946^T = CGMCC 1.65296^T). Full article

To learn about the yeast biodiversity of Hungarian honeys and to isolate osmotolerant yeasts, fifteen different honey varieties, beeswax, and bee bread were purchased, and samples of another, but highly osmotic material, tree sap (cherry, sour cherry, and plum), were collected from the northeastern region of the country. In total, 60 yeast strains were isolated and their taxonomic positions were determined by barcode sequences using ITS1-NL4 primers. The honey products contained mostly Zygosaccharomyces and Starmerella species. In addition, Hanseniaspora uvarum, Rhodotorula mucilaginosa and diobovata, Sporobolomyces roseus, Filobasidium magnum, Naganishia sp., and Aureobasidium pullulans were also present in smaller numbers. In contrast, tree saps contained Metschnikowia and Pichia fermentas cells. Further results suggest that some of the yeasts in honey can only “survive”, while others can propagate at high sugar levels, generally between 600 and 700 mg/g, with a predominance of fructose. Properties important for pathogenicity, such as invasive hyphae production, gelatin melting ability, and growth at 37 °C, were also examined. Hanseniaspora uvarum and Pichia fermentans representatives seemed to be negative for gelatin hydrolysis, while the other strains were able to melt gelatin. Although some of the strains could produce hyphae-like structures at 25 °C, none of them could grow at 37 °C. Full article