Functional Niche Research Articles

Ecological and functional niches comparison reveals differentiated resource‐use strategies and ecological thresholds in four key floating‐leaved macrophytes

AbstractNiche theory has been widely used in ecology; however, few studies have attempted to combine information on functional and ecological niches (i.e., variation in traits and environmental requirements), especially for freshwater macrophytes. In this study, we aim to describe the functional and ecological niches of four key nymphaeid species (Nuphar lutea, Nymphaea alba, Nelumbo nucifera, and Nymphoides peltata) to investigate their environmental tolerance and functional adaptability. Twelve Italian populations per species were sampled. Functional and ecological niches were determined using hypervolumes based on eight functional traits and environmental variables, related to leaf structure and economics spectrum, and to water and sediment quality. Among the three Italian native species, N. lutea and N. alba showed intermediate niche size and position in the functional and ecological space, although N. alba appears to be less competitive due to a small functional niche and lower trait performance, which could explain its general tendency to decline. N. peltata appeared more specialized in its environmental requirements and characterized by highly acquisitive leaves, while the invasive alien N. nucifera exerted its competitive success by distinguishing its functional niche and expanding its ecological niche, through high investment of resources in leaves. Overall, all four target species share similar ecological niches, colonizing eutrophic ecosystems typical of intensive agricultural landscapes, but show different patterns in their functional niche. We demonstrate the applicability of an approach based on both functional and ecological niches to unravel species' adaptation and strategies.

Organ Evolution: Emergence of Multicellular Function.

Instances of multicellularity across the tree of life have fostered the evolution of complex organs composed of distinct cell types that cooperate, producing emergent biological functions. How organs originate is a fundamental evolutionary problem that has eluded deep mechanistic and conceptual understanding. Here I propose a cell- to organ-level transitions framework, whereby cooperative division of labor originates and becomes entrenched between cell types through a process of functional niche creation, cell type subfunctionalization, and irreversible ratcheting of cell interdependencies. Comprehending this transition hinges on explaining how these processes unfold molecularly in evolving populations. Recent single-cell transcriptomic studies and analyses of terminal fate specification indicate that cellular functions are conferred by modular gene expression programs. These discrete components of functional variation may be deployed or combined within cells to introduce new properties into multicellular niches, or partitioned across cells to establish division of labor. Tracing gene expression program evolution at the level of single cells in populations may reveal transitions toward organ complexity.

Lexical niche and sustainability: an ecolinguistic perspective

Abstract This paper proposes the innovative concept of lexical niche to analyze the ecology of vocabulary from an ecolinguistic perspective. Through the examination of niche breadth and overlap, we quantitatively assess the vitality and competition of six typical Chinese eating verbs: shi (食), fan (饭), can (餐), dan (啖), ru (茹), and chi (吃). The analysis reveals their diachronic evolution in the history of the Chinese language (temporal niche), their synchronic distribution in Chinese dialects (spatial niche), and their verb-object collocation (functional niche). The findings indicate the following: (1) Shi, fan, can, dan, and ru originated in Early Old Chinese, while chi emerged in Late Old Chinese. (2) The niche breadths of the six eating verbs are as follows: 2.585, −2.391, −2.242, −0.108, −1.734, and 3.889, respectively. Chi demonstrates the highest vitality, followed by shi; fan, can, dan, and ru exhibit extremely low vitality. (3) Shi originated in the Pre-Qin dynasty, serving as the dominant eating verb in ancient times with robust competition. However, in modern times, it has evolved into a morpheme for compound words, displaying weak sustainability. Chi, born in the Han dynasty, replaced shi as the dominant eating verb by the late Tang dynasty, establishing itself as the most competitive verb to date, characterized by strong sustainability.

Limbal stem cell therapy.

To highlight the progress and future direction of limbal stem cell (LSC) therapies for the treatment of limbal stem cell deficiency (LSCD). Direct LSC transplantation have demonstrated good long-term outcomes. Cultivated limbal epithelial transplantation (CLET) has been an alternative to treat severe to total LSCD aiming to improve the safety and efficacy of the LSC transplant. A prospective early-stage uncontrolled clinical trial shows the feasibility and safety of CLET manufactured under xenobiotic free conditions. Other cell sources for repopulating of the corneal epithelium such as mesenchymal stem cells (MSCs) and induced pluripotent stem cells are being investigated. The first clinical trials of using MSCs showed short-term results, but long-term efficacy seems to be disappointing. A better understanding of the niche function and regulation of LSC survival and proliferation will lead to the development of medical therapies to rejuvenate the residual LSCs found in a majority of eyes with LSCD in vivo. Prior efforts have been largely focused on improving LSC transplantation. Additional effort should be placed on improving the accuracy of diagnosis and staging of LSCD, and implementing standardized outcome measures which enable comparison of efficacy of different LSCD treatments for different severity of LSCD. The choice of LSCD treatment will be customized based on the severity of LSCD in the future. New approaches for managing different stages of LSCD are being developed. This concise review summarizes the progresses in LSC therapies for LSCD, underlying mechanisms, limitations, and future areas of development.

Functional Traits Affect the Contribution of Individual Species to Beta Diversity in the Tropical Karst Seasonal Rainforest of South China

In a community, due to the different characteristics of each species, their contributions to community beta diversity may vary. Quantifying the contribution of each species to overall beta diversity (SCBD) is essential for explaining the patterns of beta diversity. However, there is currently limited research linking SCBD with species functional traits, and how species functional traits influence SCBD remains unclear. This study is based on tree census data, species functional traits, and environmental variables from a 15 ha permanent monitoring plot in a tropical karst rainforest in south China. By calculating species-specific SCBD based on abundance and presence–absence data, as well as functional distinctiveness and species ecological niche characteristics (niche position and niche width), we applied structural equation modeling (SEM) to analyze how functional traits, distinctiveness, and niche characteristics jointly influence SCBD. The results revealed that SCBD based on abundance is positively correlated with occupancy and abundance, whereas SCBD based on presence–absence data exhibits a hump-shaped relationship with occupancy and abundance. Species ecological niche characteristics directly influence SCBD, with species occupying central ecological niches having a negative effect on SCBD and niche width having a positive effect. Functional traits and functional distinctiveness indirectly impact SCBD through their influence on species ecological niche characteristics. SEM models based on the presence–absence data provide higher explanatory power. In summary, in the seasonal rainforest communities of northern tropical karst regions in China, the combined effects of species’ functional traits, functional distinctiveness, and ecological niche characteristics determine SCBD. This not only contributes to a deeper understanding of how species traits influence β-diversity, making SCBD a more applicable tool for biodiversity conservation, but also allows for the development of more effective biodiversity protection strategies by elucidating the link between SCBD and ecosystem multifunctionality.

Assessment of the Divergent Influence of Natural and Non-Seasonal Hydrological Fluctuations on Functional Traits and Niche Characteristics of Plant Guilds along the Xiangxi River, China

The reservoir water level fluctuation zones (RWLFZs) and the natural riparian zones (NRZs) are two riparian ecosystems with dramatically opposite hydrological rhythms that notably influence the plant guilds. However, little is known about the discrepancies of the functional traits and niche characteristics of plant guilds in the RWLFZs and NRZs under different flooding rhythms. The aims of this study were to assess the divergent influence of natural and non-seasonal hydrological fluctuations on functional traits and niche characteristics of plant guilds. The results showed that 78 vascular plant species were identified in the riparian zones of the Xiangxi River basin. The dominant species were annuals in the two riparian ecosystems and their percentage increased temporally from 65.79% in the NRZs to 67.34% in the RWLFZs. Compared with the NRZs, the specific leaf area, vegetation coverage and the aboveground biomass in the RWLFZs significantly increased by 74%, 27% and 19.6%, respectively, while the water-use efficiency of the RWLFZ decreased by 59.6% and there was no significant difference in the net photosynthetic rate between them, which showed that annuals in the RWLFZs adopted the R adaptation strategy of being fast-growing with a short lifespan and quickly acquiring and investing resources by altering leaf morphology, including expanding the leaf area. The Simpson dominance index of RWLFZs was significantly higher than that of NRZ. Thus, counter-seasonally hydrological alterations had significant effects on functional traits of dominant species in the RWFLZs. Moreover, the highly adaptable and widely distributed species with larger niche breadths and high important values usually had a higher niche overlap value in the RWLFZs than in the NRZs, which showed that the competition in the plant communities after experiencing anti-seasonal flooding was much more intraspecific than interspecific and would facilitate the expansion of species niches. Our findings imply that the species with large niche breadths and high important values should be prioritized in ecological restoration efforts in the newly formed hydro-fluctuation zones of the TGR.

A tree's view of the terrain: downscaling bioclimate variables to high resolution using a novel multi‐level species distribution model

Fine‐scale spatial climate variation fosters biodiversity and buffers it from climate change, but ecological studies are constrained by the limited accessibility of relevant fine‐scale climate data. In this paper we introduce a novel form of species distribution model that uses species occurrences to predict high‐resolution climate variation. This new category of ‘bioclimate' data, representing micro‐scale climate as experienced by one or more species of interest, is a useful complement to microclimate data from existing approaches. The modeling method, called BISHOP for ‘bioclimate inference from species' high‐resolution occurrence patterns,' uses data on species occurrences, coarse‐scale climate, and fine‐scale physiography (e.g. terrain, soil, vegetation) to triangulate fine‐scale bioclimate patterns. It works by pairing a climate‐downscaling function predicting a latent bioclimate variable, with a niche function predicting species occurrences from bioclimate. BISHOP infers how physiography affects bioclimate, estimates how these effects vary geographically, and produces high‐resolution (10 m) maps of bioclimate over large regions. It also predicts species distributions. After introducing this approach, we apply it in an empirical study focused on topography and trees. Using data on 216 North American tree species, we document the biogeographic patterns that enable BISHOP, estimate how four terrain variables (northness, eastness, windward exposure, and elevational position) each influence three climate variables, and use these results to produce downscaled maps of tree‐specific bioclimate. Model validation demonstrates that inferred bioclimate outperforms macroclimate in predicting distributions of separate species not used during inference, confirming its ecological relevance. Our results show that nearby bioclimates can differ by 5°C in temperature and twofold in moisture, with equator‐facing, east‐facing, windward‐facing, and locally elevated sites exhibiting hotter, drier bioclimates on average. But these effects vary greatly across climate zones, revealing that topographically similar landscapes can differ strongly in their bioclimate variation. These results have important implications for micrometeorology, biodiversity, and climate resilience.

A prognostic matrix gene expression signature defines functional glioblastoma phenotypes and niches.

Interactions among tumor, immune, and vascular niches play major roles in driving glioblastoma (GBM) malignancy and treatment responses. The composition, heterogeneity, and localization of extracellular core matrix proteins (CMPs) that mediate such interactions, however, are not well understood. Here, through computational genomics and proteomics approaches, we analyzed the functional and clinical relevance of CMP expression in GBM at bulk, single cell, and spatial anatomical resolution. We identified genes encoding CMPs whose expression levels categorize GBM tumors into CMP expression-high (M-H) and CMP expression-low (M-L) groups. CMP enrichment is associated with worse patient survival, specific driver oncogenic alterations, mesenchymal state, infiltration of pro-tumor immune cells, and immune checkpoint gene expression. Anatomical and single-cell transcriptome analyses indicate that matrisome gene expression is enriched in vascular and leading edge/infiltrative niches that are known to harbor glioma stem cells driving GBM progression. Finally, we identified a 17-gene CMP expression signature, termed Matrisome 17 (M17) signature that further refines the prognostic value of CMP genes. The M17 signature is a significantly stronger prognostic factor compared to MGMT promoter methylation status as well as canonical subtypes, and importantly, potentially predicts responses to PD1 blockade. The matrisome gene expression signature provides a robust stratification of GBM patients by survival and potential biomarkers of functionally relevant GBM niches that can mediate mesenchymal-immune cross talk. Patient stratification based on matrisome profiles can contribute to selection and optimization of treatment strategies.

Unexpected coexistence of a native and an invasive macrophyte: a functional versus environmental niche perspective

Unexpected coexistence of a native and an invasive macrophyte: a functional versus environmental niche perspective

Untangling the effect that replacing Ethiopia's natural forests with exotic tree plantations has on arbuscular mycorrhizal fungi

Arbuscular mycorrhizal fungi (AMF) have a broad distribution and establish symbiotic relationships with vascular plants in tropical regions. They play a crucial role in enhancing plant nutrient absorption, mitigating pathogenic infections, and boosting the resilience of host plants to abiotic stresses, including drought under specific conditions. Many natural forests in Ethiopia are being replaced by monospecific plantations. However, the impact of these actions on AMF is unknown and, despite their ecological functions, AMF communities in various forest systems have not been thoroughly investigated. In this study, we assessed soil AMF communities in natural and plantation forests by DNA metabarcoding of the ITS2 rDNA region and assessed the influence of climate and environmental variables on the AMF community. In total, 193 AMF operational taxonomic units (OTUs), comprising nine families and 15 genera, were recorded. Glomerales was the dominant order (67.9 % of AMF OTUs) and Septoglomus fuscum, Diversispora insculpta, and Funneliformis mosseae were the dominant species. AMF were more abundant in natural forests than in plantation forests and the composition of AMF communities differed significantly from those of plantation forest. In plantation forests, soil pH, organic carbon, total nitrogen, and available phosphorus significantly influenced the composition of AMF communities, whereas in natural forest, electrical conductivity, annual rainfall, and cumulative rainfall before sample collection were significantly correlated with AMF. SIMPER analysis identified the AMF responsible for composition variances among different forest types, with the Glomeraceae family being the most significant contributor, accounting for nearly 60 % of the dissimilarity. Our findings further our understanding of the ecological niche function and the role of AMF in Ethiopia's natural forest systems and highlight the importance of prioritizing the sustainable development of degraded natural forests rather than plantations to ensure the preservation of habitats conducive to maintaining various AMF communities when devising conservation and management strategies.

The Relationship between Trait-Based Functional Niche Hypervolume and Community Phylogenetic Structures of Typical Forests across Different Climatic Zones in China

Functional traits are pivotal for understanding the functional niche within plant communities. Yet, the relationship between the functional niches of typical forest plant communities across different climatic zones, as defined by functional traits, and their association with community and phylogenetic structures remains elusive. In this study, we examined 215 woody species, incorporating 11 functional traits spanning leaf economy, mechanical support, and reproductive phenology, gathered from forests in four climatic zones from tropical, subtropical, warm-temperate to cold-temperate zones in China and supplemented by the literature. We quantified the functional niche hypervolume (FNH), reflecting the multidimensional functional niche variability. We then probed into the correlation between the FNH and community and phylogenetic structures of forests. Our findings reveal that species richness significantly influences the geographic variance of functional niche space in forest vegetation across different climatic zones. Specifically, a community’s species richness correlates positively with the functional niche breadth occupied by the community species. The FNH of woody plants across diverse forest types shows significant associations with both the mean phylogenetic distance (MPD) and the mean nearest phylogenetic taxon distance (MNTD) of the communities. There is a progressive increase in tropical rainforest (TF), subtropical evergreen deciduous broad-leaved mixed forest (SF), and warm-temperate coniferous broad-leaved mixed forest (WF), followed by a decline in the cold-temperate coniferous forest (CF). This pattern suggests potential environmental filtering in CF, which may constrain the spatial extent of plant functional niches. Our research underscores the substantial variability in the FNH across China’s typical forest vegetation, highlighting the complex interplay between functional traits, community richness, and phylogenetic distance.

Assessing the role of non-native species and artificial water bodies on the trophic and functional niche of Mediterranean freshwater fish communities

Habitat alterations and the introduction of non-native species have many ecological impacts, including the loss of biodiversity and a deterioration of ecosystem functioning. The effects of these combined stressors on the community trophic web and functional niche are, however, not completely clear. Here, we investigated how artificial ecosystems (i.e. reservoirs) and non-native species may influence the trophic and functional niche space of freshwater fish communities. To do so, we used carbon and nitrogen stable isotope and abundance data to compute a set of isotopic, trait, and functional metrics for 13 fish communities sampled from 12 distinct ecosystems in Türkiye. We show that in reservoirs, fish were more similar in their trophic niche compared to lakes, where the trophic niche was more variable, due to higher habitat complexity. However, there were no differences in the trait and functional metrics between the two ecosystem types, suggesting a higher prey diversity than assumed in reservoirs. We also found that the number of non-native species did not affect the trophic niche space, nor the trait or functional space occupied by the fish community. This indicates that non-native species tended to overlap their trophic niche with native species, while occupying empty functional niches in the recipient community functional space. Similarly, the proportion of non-native species did not affect any trophic, trait, or functional metric, suggesting that changes in community composition were not reflected in changes in the community niche space. Moreover, we found that trait richness, but not functional richness, was positively related to the isotopic niche width and diversity, indicating that a wider occupied trait niche space corresponded with a wider occupied trophic niche and lesser interspecific similarity. Our findings underscore the complexity of ecological relationships within freshwater ecosystems and highlight the need for comprehensive management strategies to mitigate the impacts of human activities and biological invasions.

Cigarette smoke impairs the hematopoietic supportive property of mesenchymal stem cells via the production of reactive oxygen species and NLRP3 activation

BackgroundMesenchymal stem cells (MSCs) play important roles in tissue homeostasis by providing a supportive microenvironmental niche for the hematopoietic system. Cigarette smoking induces systemic abnormalities, including an impeded recovery process after hematopoietic stem cell transplantation. However, the role of cigarette smoking-mediated alterations in MSC niche function have not been investigated.MethodsIn the present study, we investigated whether exposure to cigarette smoking extract (CSE) disrupts the hematopoietic niche function of MSCs, and pathways impacted. To investigate the effects on bone marrow (BM)-derived MSCs and support of hematopoietic stem and progenitor cells (HSPCs), mice were repeatedly infused with the CSE named 3R4F, and hematopoietic stem and progenitor cells (HSPCs) supporting function was determined. The impact of 3R4F on MSCs at cellular level were screened by bulk-RNA sequencing and subsequently validated through qRT-PCR. Specific inhibitors were treated to verify the ROS or NLRP3-specific effects, and the cells were then transplanted into the animal model or subjected to coculture with HSPCs.ResultsBoth direct ex vivo and systemic in vivo MSC exposure to 3R4F resulted in impaired engraftment in a humanized mouse model. Furthermore, transcriptomic profile analysis showed significantly upregulated signaling pathways related to reactive oxygen species (ROS), inflammation, and aging in 3R4F-treated MSCs. Notably, ingenuity pathway analysis revealed the activation of NLRP3 inflammasome signaling pathway in 3R4F-treated MSCs, and pretreatment with the NLRP3 inhibitor MCC950 rescued the HSPC-supporting ability of 3R4F-treated MSCs.ConclusionIn conclusion, these findings indicate that exposure to CSE reduces HSPCs supportive function of MSCs by inducing robust ROS production and subsequent NLRP3 activation.

Identification of Low-Complexity Domains by Compositional Signatures Reveals Class-Specific Frequencies and Functions Across the Domains of Life.

Low-complexity domains (LCDs) in proteins are typically enriched in one or two predominant amino acids. As a result, LCDs often exhibit unusual structural/biophysical tendencies and can occupy functional niches. However, for each organism, protein sequences must be compatible with intracellular biomolecules and physicochemical environment, both of which vary from organism to organism. This raises the possibility that LCDs may occupy sequence spaces in select organisms that are otherwise prohibited in most organisms. Here, we report a comprehensive survey and functional analysis of LCDs in all known reference proteomes (>21k organisms), with added focus on rare and unusual types of LCDs. LCDs were classified according to both the primary amino acid and secondary amino acid in each LCD sequence, facilitating detailed comparisons of LCD class frequencies across organisms. Examination of LCD classes at different depths (i.e., domain of life, organism, protein, and per-residue levels) reveals unique facets of LCD frequencies and functions. To our surprise, all 400 LCD classes occur in nature, although some are exceptionally rare. A number of rare classes can be defined for each domain of life, with many LCD classes appearing to be eukaryote-specific. Certain LCD classes were consistently associated with identical functions across many organisms, particularly in eukaryotes. Our analysis methods enable simultaneous, direct comparison of all LCD classes between individual organisms, resulting in a proteome-scale view of differences in LCD frequencies and functions. Together, these results highlight the remarkable diversity and functional specificity of LCDs across all known life forms.

Analysis of nearly 3000 archaeal genomes from terrestrial geothermal springs sheds light on interconnected biogeochemical processes

Terrestrial geothermal springs are physicochemically diverse and host abundant populations of Archaea. However, the diversity, functionality, and geological influences of these Archaea are not well understood. Here we explore the genomic diversity of Archaea in 152 metagenomes from 48 geothermal springs in Tengchong, China, collected from 2016 to 2021. Our dataset is comprised of 2949 archaeal metagenome-assembled genomes spanning 12 phyla and 392 newly identified species, which increases the known species diversity of Archaea by ~48.6%. The structures and potential functions of the archaeal communities are strongly influenced by temperature and pH, with high-temperature acidic and alkaline springs favoring archaeal abundance over Bacteria. Genome-resolved metagenomics and metatranscriptomics provide insights into the potential ecological niches of these Archaea and their potential roles in carbon, sulfur, nitrogen, and hydrogen metabolism. Furthermore, our findings illustrate the interplay of competition and cooperation among Archaea in biogeochemical cycles, possibly arising from overlapping functional niches and metabolic handoffs. Taken together, our study expands the genomic diversity of Archaea inhabiting geothermal springs and provides a foundation for more incisive study of biogeochemical processes mediated by Archaea in geothermal ecosystems.

Computer vision models enable mixed linear modeling to predict arbuscular mycorrhizal fungal colonization using fungal morphology

The presence of Arbuscular Mycorrhizal Fungi (AMF) in vascular land plant roots is one of the most ancient of symbioses supporting nitrogen and phosphorus exchange for photosynthetically derived carbon. Here we provide a multi-scale modeling approach to predict AMF colonization of a worldwide crop from a Recombinant Inbred Line (RIL) population derived from Sorghum bicolor and S. propinquum. The high-throughput phenotyping methods of fungal structures here rely on a Mask Region-based Convolutional Neural Network (Mask R-CNN) in computer vision for pixel-wise fungal structure segmentations and mixed linear models to explore the relations of AMF colonization, root niche, and fungal structure allocation. Models proposed capture over 95% of the variation in AMF colonization as a function of root niche and relative abundance of fungal structures in each plant. Arbuscule allocation is a significant predictor of AMF colonization among sibling plants. Arbuscules and extraradical hyphae implicated in nutrient exchange predict highest AMF colonization in the top root section. Our work demonstrates that deep learning can be used by the community for the high-throughput phenotyping of AMF in plant roots. Mixed linear modeling provides a framework for testing hypotheses about AMF colonization phenotypes as a function of root niche and fungal structure allocations.

Variations and trade-offs in leaf and culm functional traits among 77 woody bamboo species

BackgroundWoody bamboos are the only diverse large perennial grasses in mesic-wet forests and are widely distributed in the understory and canopy. The functional trait variations and trade-offs in this taxon remain unclear due to woody bamboo syndromes (represented by lignified culm of composed internodes and nodes). Here, we examined the effects of heritable legacy and occurrence site climates on functional trait variations in leaf and culm across 77 woody bamboo species in a common garden. We explored the trade-offs among leaf functional traits, the connection between leaf nitrogen (N), phosphorus (P) concentrations and functional niche traits, and the correlation of functional traits between leaves and culms.ResultsThe Bayesian mixed models reveal that the combined effects of heritable legacy (phylogenetic distances and other evolutionary processes) and occurrence site climates accounted for 55.10–90.89% of the total variation among species for each studied trait. The standardized major axis analysis identified trade-offs among leaf functional traits in woody bamboo consistent with the global leaf economics spectrum; however, compared to non-bamboo species, the woody bamboo exhibited lower leaf mass per area but higher N, P concentrations and assimilation, dark respiration rates. The canonical correlation analysis demonstrated a positive correlation (ρ = 0.57, P-value < 0.001) between leaf N, P concentrations and morphophysiology traits. The phylogenetic principal components and trait network analyses indicated that leaf and culm traits were clustered separately, with leaf assimilation and respiration rates associated with culm ground diameter.ConclusionOur study confirms the applicability of the leaf economics spectrum and the biogeochemical niche in woody bamboo taxa, improves the understanding of woody bamboo leaf and culm functional trait variations and trade-offs, and broadens the taxonomic units considered in plant functional trait studies, which contributes to our comprehensive understanding of terrestrial forest ecosystems.

Leaf functional traits and ecological niche of Fagus grandifolia and Oreomunnea mexicana in natural forests and plantings as a proxy of climate change.

Functional traits reflect species' responses to environmental variation and the breadth of their ecological niches. Fagus grandifolia and Oreomunnea mexicana have restricted distribution in upper montane cloud forests (1700-2000 m a.s.l.) in Mexico. These species were introduced into plantings at lower elevations (1200-1600 m a.s.l.) that have climates predicted for montane forests in 2050 and 2070. The aim was to relate morphological leaf traits to the ecological niche structure of each species. Leaf functional traits (leaf area, specific leaf area [SLA], thickness, and toughness) were analyzed in forests and plantings. Atmospheric circulation models and representative concentration pathways (RCPs: 2.6, 4.5, 8.5) were used to assess future climate conditions. Trait-niche relationships were analyzed by measuring the Mahalanobis distance (MD) from the forests and the plantings to the ecological niche centroid (ENC). For both species, leaf area and SLA were higher and toughness lower in plantings at lower elevation relative to those in higher-elevation forests, and thickness was similar. Leaf traits varied with distance from sites to the ENC. Forests and plantings have different environmental locations regarding the ENC, but forests are closer (MD 0.34-0.58) than plantings (MD 0.50-0.70) for both species. Elevation as a proxy for expected future climate conditions influenced the functional traits of both species, and trait patterns related to the structure of their ecological niches were consistent. The use of distances to the ENC is a promising approach to explore variability in species' functional traits and phenotypic responses in optimal versus marginal environmental conditions.

FcαRI (CD89) is upregulated on subsets of mucosal and circulating NK cells and regulates IgA-class specific signaling and functions

Immunoglobulin A (IgA) is the predominant mucosal antibody class with both anti- and pro-inflammatory roles [1–3]. However, the specific role of the IgA receptor CD89, expressed by a subset of natural killer (NK) cells, is poorly explored. We found that CD89 protein expression on circulating NK cells is infrequent in humans and rhesus macaques, but transcriptomic analysis showed ubiquitous CD89 expression, suggesting an inducible phenotype. Interestingly, CD89+ NK cells were more frequent in cord blood and mucosae, indicating a putative IgA-mediated NK cell function in the mucosae and infant immune system. CD89+ NK cells signaled through upregulated CD3ζ, SYK, ZAP70, and SLAMF1, but also showed high expression of inhibitory receptors such as KLRG1 and reduced activating NKp46 and NKp30. CD89-based activation or ADCC with monomeric IgA1 reduced NK cell functions, while ADCC with combinations of IgG and IgA2 was enhanced compared to IgG alone. These data suggest that functional CD89+ NK cells survey mucosal sites, but CD89 likely serves as regulatory receptor which can be further modulated depending on IgA and IgG subclass. Although the full functional niche of CD89+ NK cells remains unexplored, these intriguing data suggest the CD89 axis could represent a novel immunotherapeutic target in the mucosae or early life.

Composition of the rumen microbiome and its association with methane yield in dairy cattle raised in tropical conditions

BackgroundMethane (CH4) emissions from rumen fermentation are a significant contributor to global warming. Cattle with high CH4 emissions tend to exhibit lower efficiency in milk and meat production, as CH4 production represents a loss of the gross energy ingested by the animal. The objective of this study was to investigate the taxonomic and functional composition of the rumen microbiome associated with methane yield phenotype in dairy cattle raised in tropical areas.Methods and resultsTwenty-two Girolando (F1 Holstein x Gyr) heifers were classified based on their methane yield (g CH4 / kg dry matter intake (DMI)) as High CH4 yield and Low CH4 yield. Rumen contents were collected and analyzed using amplicon sequencing targeting the 16 and 18S rRNA genes. The diversity indexes showed no differences for the rumen microbiota associated with the high and low methane yield groups. However, the sparse partial least squares discriminant analysis (sPLS-DA) revealed different taxonomic profiles of prokaryotes related to High and Low CH4, but no difference was found for protozoa. The predicted functional profile of both prokaryotes and protozoa differed between High- and Low CH4 groups.ConclusionsOur results suggest differences in rumen microbial composition between CH4 yield groups, with specific microorganisms being strongly associated with the Low (e.g. Veillonellaceae_UCG − 001) and High (e.g., Entodinium) CH4 groups. Additionally, specific microbial functions were found to be differentially more abundant in the Low CH4 group, such as K19341, as opposed to the High CH4 group, where K05352 was more prevalent. This study reinforces that identifying the key functional niches within the rumen is vital to understanding the ecological interplay that drives methane production.