Search Results (205)

This study presents a comprehensive inventory of bryophytes in Serra dos Órgãos National Park (PARNASO), aiming to evaluate species richness, floristic composition and threatened taxa. Despite the state of Rio de Janeiro being one of the most extensively sampled regions for bryophytes in Brazil, detailed surveys of its conservation units remain scarce. Data were obtained through bibliographic review, herbarium specimen analysis, and new field collections. A total of 504 species were recorded, belonging to 202 genera and 76 families. The park harbors three locally endemic species, eight endemic to Rio de Janeiro, and sixty-nine species endemic to Brazil. Additionally, eleven species were identified as threatened, comprising seven Endangered (EN), two Critically Endangered (CR), and two Vulnerable (VU) according to the IUCN guidelines. PARNASO includes four distinct ecosystems along an altitudinal gradient: sub-montane forest (up to 500 m), montane forest (500–1500 m), upper-montane forest (1500–2000 m), and high-altitude fields (above 2000 m). Montane Forest showed the highest species richness, followed by high-altitude fields, upper-montane forest, and sub-montane forest. The findings highlight PARNASO’s importance in preserving bryophyte diversity in a highly diverse yet understudied region. This work contributes valuable baseline data to support conservation strategies and future ecological studies in Atlantic Forest remnants. 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

The systematics and phylogeny of the most speciose genus (Leopardus) of the felidae have historically been contentious and problematic. These issues have been compounded with the recent advancement of genetic techniques that make it possible to detect events such as incomplete lineage sorting (ILS), punctual historical ancestral introgression (PHAI), and repetitive introgression or recent hybridization (RI-RH). Each of these events have noteworthily affected the Leopardus genus. One Leopardus taxon (Leopardus tigrinus, herein called tigrina) has been especially complex from a phylogenetic point of view. In the last decade, one new species has been reported (L. guttulus) and two other new species likely exist within the tigrinas (L. emiliae and L. pardinoides). However, the most surprising find was the discovery of a new and not previously reported tigrina, the Nariño cat, from the southern Andean region of Colombia (2023). Later that same year, a new paper criticized the discovery. In response to that criticism, herein, we provide new molecular genetics results of the Nariño cat as well as new insights into the molecular phylogeny of the tigrinas inside the Leopardus genus: (1) In this new work, we analyzed the mtND5 gene of Nariño cat samples collected over four years (2001, 2007, 2017, 2023) as well as analyzed mitogenomes of Nariño cat samples collected in three different years (2001, 2017, 2023). The temporal Nariño cat samples (2001, 2007, 2017, 2023) refer to samples taken from a single specimen across different years. Based on these analyses, data from 2001 and 2007 represent the most reliable information. In contrast, samples from 2017 and 2023 may be contaminated with DNA from the Pampas cat and tigrina, respectively. (2) On the other hand, based on sequencing the mtND5 gene of 164 specimens of Leopardus, northern Andean and Central American tigrinas (37 specimens) are divided into at least six different groups (without counting the Nariño cat). Based on our analysis of sequenced mitogenomes of 102 specimens (including 34 northern Andean and Central American tigrinas) of the Leopardus genus, there are at least eight different groups of tigrinas (without counting the Nariño cat). Henceforth, there are strong datasets which support the existence of multiple lineages within the presumed “a priori” northern Andean tigrina and thus much of the genetic diversity of this wild cat has gone unnoticed. There are a series of potential taxa that have gone unnoticed due to a lack of sampling of this polyphyletic Andean feline. Full article

Absidia is the most species-rich genus within the family Cunninghamellaceae, with its members commonly isolated from diverse substrates, particularly rhizosphere soil. In this study, four novel Absidia species, A. irregularis sp. nov., A. multiformis sp. nov., A. ovoidospora sp. nov., and A. verticilliformis sp. nov., were discovered from soil samples collected in southern and southwestern China, using integrated morphological and molecular analyses. Phylogenetic analyses based on concatenated ITS, SSU, LSU, Act, and TEF1α sequence data reconstructed trees that strongly supported the monophyly of each of these four new taxa. Key diagnostic features include A. irregularis (closely related to A. oblongispora) exhibiting irregular colony morphology, A. multiformis (sister to A. heterospora) demonstrating polymorphic sporangiospores, A. ovoidospora (forming a clade with A. panacisoli and A. abundans) producing distinctive ovoid sporangiospores, and A. verticilliformis (next to A. edaphica) displaying verticillately branched sporangiophores. Each novel species is formally described with comprehensive documentation, including morphological descriptions, illustrations, Fungal Names registration identifiers, designated type specimens, etymological explanations, maximum growth temperatures, and taxonomic comparisons. This work constitutes the sixth instalment in a series investigating early-diverging fungal diversity in China aiming to enhance our understanding of the diversity of fungi in tropical and subtropical ecosystems in Asia. In this paper, the known species of Absidia are expanded to 71. Full article

Hydnum, a well-defined genus in the family Hydnaceae (order Cantharellales), is characterized by its distinctive spine-bearing hymenophores. In this study, we performed a multi-locus phylogenetic analysis (ITS-nrLSU-tef1) of Hydnum species. Integrating morphological examinations and phylogenetic evidence, we identified and delineated five Hydnum species in China, which include four novel species (Hydnum crassipedum, H. albomarginatum, H. fulvostriatum, and H. bifurcatum) and the first record (H. orientalbidum) in Anhui Province. This study provides a comprehensive morphological description (including macroscopic morphology and microscopic structure), hand-drawn illustrations (encompassing basidiocarps, basidiospores, basidia, and pileipellis hyphae), morphological comparative analysis with similar species, and comparative phylogenetic analysis with related taxa. Furthermore, we developed a dichotomous key for identifying Hydnum species distributed in China. Full article

Bovine viral diarrhea virus (BVDV) remains a major cause of calf diarrhea with substantial economic impacts on global cattle production. While emerging evidence suggests that the host microbiota may modulate viral infection processes, the specific gut microbial alterations induced by BVDV infection require elucidation. This study investigated gut microbiota composition and functional changes in BVDV-infected cows through 16S rRNA sequencing. Following the epidemiological screening of a large Angus cattle herd using RT-PCR, we identified four persistently infected (PI) animals and four BVDV-negative controls. Fecal analysis revealed Firmicutes and Bacteroidetes as dominant phyla in both groups. A significant increase in the Ruminococcus genus was observed in PI cows (p < 0.05), with LEfSe analysis identifying Paludibacter as a BVDV-associated biomarker. The PI group exhibited reduced alpha diversity (Faith’s PD index, p < 0.05) and elevated histidine metabolism pathway abundance compared to controls (p < 0.05). These findings demonstrate that persistent BVDV infection induces structural and functional modifications in the bovine gut microbiota, particularly through the enrichment of specific bacterial taxa and altered metabolic potential. The results provide new insights into virus–microbiota interactions, establishing a foundation for understanding how BVDV infection may influence host physiology through microbial community changes. Full article

The focus of this study was the Intercontinental Biosphere Reserve of the Mediterranean (IBRM, part of the biodiversity hotspot of the Mediterranean Basin) and the Orchidaceae family, which is under-studied in the Moroccan part of the IBRM. For this reason, an inventory of Orchidaceae diversity and factors that could influence their in situ conservation was undertaken, employing a series of field surveys conducted in the Northern Moroccan IBRM ecosystems. In total, 42 sites were surveyed in four protected areas of the Moroccan part of the IBRM. In total, 21 Orchidaceae species and subspecies (taxa) belonging to seven genera were identified, including Orchis spitzelii subsp. cazorlensis, as newly recorded in Morocco, as well as several new reports for different sites and/or areas surveyed, thus updating the previous knowledge of Moroccan Orchidaceae. Most of the Orchidaceae taxa were found in limited numbers of individuals (<30) and were restricted in a few sites (1–3) or a single area; thus, they were assessed as poorly conserved due to the scarcity of rainfall coupled with human pressures, such as the abstraction of surface water, forest fires, and the conversion of protected forests to Cannabis farms. The enforcement of existing laws, the adoption of strategies to combat desertification and forest fires, the prohibition of Cannabis farming, and raising awareness among the local population could reduce the pressures on the protected Orchidaceae members and their habitats, thereby contributing to their conservation. Full article

Hypocreales is one of the largest orders within the class Sordariomycetes and is renowned for its diversity of lifestyles, encompassing plant, insect, and human pathogens, as well as endophytes, parasites, and saprobes. In this study, we focused on saprobic hypocrealean fungi isolated from rice in northern Thailand. Species identification was conducted using morphological characteristics and multilocus phylogenetic analyses, including the internal transcribed spacer region (ITS), 28S large subunit nuclear ribosomal DNA (LSU), translation elongation factor 1–alpha (tef1-α), RNA polymerase II second-largest subunit (rpb2), and calmodulin (cmdA). This research confirmed the presence of 14 species of hypocrealean taxa, viz. Fusarium (9), Ochronectria (1), Sarocladium (2), Trichothecium (1), and Waltergamsia (1). Among these were two new species (Fusarium chiangraiense and F. oryzigenum), four new host records (Fusarium kotabaruense, Ochronectria thailandica, Sarocladium bactrocephalum, and Waltergamsia fusidioides), and three new geographical records (Fusarium commune, F. guilinense, and F. hainanese). Full article

A new method of macroevolutionary analysis—high-resolution phylogenetics, integrating both morphological and molecular traits—has revealed well-supported evidence of complexity-based processes generating and controlling biodiversity. A novel technique of using evolutionary rates following a strict morphological clock, at least approximately, may allow detailed information on speciation and extinction events across geologic time. Branching series of minimally monophyletic genera are used to characterize in detail the branching lineage of the widely distributed moss family Streptotrichaceae. A strict morphological clock is calibrated by timing of genera new to recently exposed islands, molecular scaling against fossil taxa, and fossil evidence of the origin of the modern bryoflora. The numbers of genera generated in each 22-million-year interval are similar, while only one genus is inferred as extinct. The general outline of the phylogeny is tadpole-shaped because cumulative extinction is less than cumulative speciation, thus sustaining the family over vast time spans. Extant species per genus increase significantly over time, not through the proliferation of secondary descendants (i.e., more than four species per ancestral node), but through the selective preservation of lineages via extinction. Ancient traits are preserved throughout the lineage. It is hypothesized that descendant species are protected from coeval competition through bursts of speciation. This study supports a complexity-based explanation of the interaction of major evolutionary processes resulting in sustainability. Full article

A comprehensive database of paleo vegetation from Kundala Lake, Kerala, was used for a palynological study in a 120 cm sedimentary profile from Kundala Lake (1700 mamsl), Palni Hills, to understand the climate and vegetation equilibrium during the last four millennia. On the basis of pollen assemblage and cluster analysis, a relatively high percentage of evergreen vegetation between 4.3 and 3.4 ka (phase I) was inferred to represent the relicts of middle Holocene vegetation during a warmer climate. Subsequently, in the periods of 3.4–2.3 ka (phase II) and 2.3–0.87 ka (phase III), herbs/shrubs dominated. A relative increase in the percentage of arboreals along with herbaceous taxa was again observed from 0.87 to 0.12 ka (phase IV). Later, in phase V (from 1820 AD to present), few new plant taxa were recorded. On the basis of the ‘coexistence approach’, the Mean Annual Temperature (MAT) was inferred to be 22 °C, 15 °C, 15 °C, 20 °C and 22 °C during phases I to V, respectively. The Mean Annual Precipitation (MAP)was 2660 ± 3700 mm from ~4.3 to 0.12 ka; however, it decreased to ~1750 mm between 3.4 and 2.3 ka. However, pollen evidence reveals short-term cooler spells during the 16/17th century AD, which is in concordance with the globally recorded cooler and arid climate that began sometime from ~5.0 to 4.0 ka. A thematic digital elevation map of vegetation reconstructed for the years 2005 and 2018 shows a reduction in evergreen plants and water bodies in the vicinity of Kundala Lake, which was correlated with the results of palynological studies and Indian meteorological data for the last ~100 years in the region. Full article

A total of 18 Humidophila strains isolated from soil samples from Cát Tiên National Park have been studied. Based on morphometric analysis and molecular data for the V4 18S rDNA and rbcL regions, we proposed the presence of four new species: H. vietnamica, H. paravietnamica, H. cattiensis, and H. concava. This is the first study that provides molecular data for such a large number of Humidophila strains. Furthermore, we encountered some Humidophila strains with clear morphological differences (which we assigned to several morphotypes) that cannot be separated using the selected genetic markers and cannot be attributed to phenotypic variations in one species; these require further study of their genetic structure. We also observed the opposite case, where in the absence of morphological differences, clear genetic differentiation is shown, which demonstrates the presence of cryptic taxa in our sample. The maximum differences for these strains were observed in the V4 18S rDNA region. Our results show that the effectiveness of commonly used genetic markers V4 18S rDNA and rbcL for separating species can vary greatly. Our study highlights the need to research different genetic markers and their use for proper species separation, as well as the genetic diversity of diatoms, and the need for further studies of intra- and interspecific genetic distances. Full article

As symbiotic mycorrhizal associates, species within the genus Laccaria play pivotal roles in forest ecosystems, specifically forming ectomycorrhizal relationships with the root systems of various plants. Some Laccaria species are recognized for their edibility, holding potential as a sustainable food source in the context of future food security and dietary diversification. In this study, the species diversity of Laccaria in Yunnan was investigated, and four novel species were identified. Their taxonomical positions and phylogenetic affinities were confirmed through phylogenetic analysis based on ITS, nrLSU, tef1-α, and rpb2 sequence data. Macro- and micro-morphological characteristics of the new species are also given here. Laccaria brownii sp. nov. has a dark to slightly desaturated orange pileus, stipe context broadly fistulose and soft orange, and relatively smaller cheilocystidia and pleurocystidia. Laccaria orangei sp. nov. has a hemispherical to paraboloid pileus, abundant narrowly clavate, flexuose, and branched cheilocystidia. Laccaria ruber sp. nov. pileus is red on the margin, clearly striate on the pileus surface, basidia clavate, mostly four-spored, rarely two-spored. Laccaria stipalba sp. nov. stipe surface is white, long sterigmata (4–13 μm × 2–3 μm), pleurocystidia narrowly clavate to subclavate, flexuose or mucronate, rarely branch. The descriptions, illustrations, and phylogenetic analysis results of the new taxa are provided. In addition, the new taxa are compared with closely related taxa. Full article

Soil microorganisms are crucial for nutrient cycling, with abundant and rare taxa playing distinct roles. However, the mechanisms by which soil microbes influence nutrient cycling under different crop types remain unclear. In this study, we investigated the network structure, diversity, and microbial composition of croplands in the Yellow River Delta, focusing on four primary crops: soybean, maize, cotton, and sorghum. The findings revealed that the co-occurring network structure of sorghum planting-soils exhibited greater complexity than other crop types. Bacterial alpha diversity in cotton-planting soil is the highest and susceptible to environmental variations. The diversity of both rare and abundant taxa responds differently to soil nutrients depending on the crop type. While abundant taxa play a crucial role in soil multi-nutrient cycling, rare taxa are key drivers of variations in nutrient cycling expression. The diversity of rare taxa showed a strong correlation with critical nutrients. Structural equation modeling revealed that the alpha diversity of rare bacterial and fungal taxa significantly influenced the soil multi-nutrient cycling index (MNC). Specifically, higher Shannon indices of rare bacterial taxa were associated with lower MNC, while the opposite was true for soil fungi. Soil organic carbon and soil total nitrogen are the key factors influencing alpha diversity in rare bacterial and fungal taxa. Moreover, this study provides new insights into the role of rare soil microbial diversity in the nutrient cycling of agricultural ecosystems. Full article

Freshwater zooplankton are a key component of lake food webs and a responsive indicator of changes occurring in an ecosystem’s structure and functioning. A new challenge under climate change is to disentangle the effects of lake warming from changes in lake trophic conditions, and ultimately to relate them to changes in zooplankton and ecosystem functioning. In this study, we examined the zooplankton community of the large deep subalpine Lake Maggiore (Italy) over a period of four decades, spanning changes in both lake trophic conditions and climate warming. Using monthly data from the upper 50 m of water depth, we analyzed long-term trends and investigated the application of zooplankton biomass-based indices in order to provide a better understanding of the changes in the lake ecosystem over time. Examining annual and seasonal patterns of different zooplankton taxa and groups, we observed over time a decreased contribution of Daphnia sp. during the summer and a concurrent increase in microzooplankton, suggesting a change in phytoplankton control in the lake during the recent period. Our study demonstrates that zooplankton communities integrate environmental changes, and underlines the importance of long-term monitoring and the inclusion of seasonality and the entire size range of zooplankton as key components to allow the interpretation of lake ecosystem functioning in response to trophic and climatic changes. Full article

High-resolution phylogenetics using both morphology and molecular data reveal surfactant-like trait buffering of peripatric descendant species that facilitate resilience for supra-specific entities across geologic time. Regular polygons inscribed in circles model balanced areas of survival of various numbers of new species in one genus. This model maximizes the peripatric survival of descendant species, with populations partly in allopatric habitats and in sympatric areas. It extends the theory advanced with Willis’s Age and Area hypothesis. Hollow curves of the areas bounded between a series of inscribed regular polygons and their containing circles show a ranked progression governed by similar power laws of other phenomena, including Zipf’s law and a universal meta-law in physics. This model matches best the physics meta-law (law of laws) but is only one of several somewhat different curves generated by somewhat different processes. A rule of four can explain why most genera in vascular plants exhibit a hollow curve of optimally one to five species per genus. It implies a constraint on variation that enhances survival and provides a physics explanation for the monophyletic skeleton of macrogenera. A high-resolution form of ancestor–descendant analysis is compared to traditional phylogenetic analysis to best modeling of the demonstrable results of evolutionary processes. Arguments are advanced for the preservation of scientific concepts of taxa over cladistic clades. Full article