Biogeographic Patterns Research Articles

Comparative genomic analysis of two putative novel Idiomarina species from hypersaline miocene deposits

BackgroundHypersaline habitats, as extreme environments, are a great source of well-adapted organisms with unique properties as they have evolved various strategies to cope with these extreme conditions. Bioinformatics and genomic mining may shed light on evolutionary relationships among them. Therefore, the aim of this study was to assess the biodiversity and especially the strategies evolved within the Idiomarina genus, with the primary focus on the taxonomy and genomic adaptations of two novel strains affiliated with Idiomarina genus isolated from unique environment – brines of two Early Miocene salt deposits.ResultsBoth analyzed species belonged to the Idiomarina loihiensis cluster with similarity levels of 16S rRNA gene sequences as high as 99.5% and showed a significant genome size reduction, known characteristic of Idiomarina genomes, though within the genome of Sol25 strain the lowest extent of the carbohydrate utilization genes reduction was observed t among the Idiomarina species. Moreover, the comparative genome analyses indicated that despite both strains being isolated from geographically and geologically similar environments (brines from at least 12 Ma), the species showed higher relatedness to other Idiomarina species than to each other.ConclusionThe present findings highlighted the importance of genomic data in resolving taxonomic uncertainties and understanding of adaptation strategies of extremophiles. Geographic isolation likely contributed to population divergence of the Idiomarina genus, and the recent study offered insights into biogeographic patterns and allopatric speciation of this bacterial group.

Contrasting Supply Dynamics of Dissolved Iron and Nitrate Shape the Biogeography of Nutrient‐Limiting Conditions in the North Pacific

AbstractThe North Pacific is known with iron limitation for phytoplankton growth in the subarctic region and nitrogen limitation in the subtropical gyre. Although the growth rate of phytoplankton is determined by the concentration of limiting nutrient, the supply ratio of iron to nitrogen is suggested to be essential to this biogeographic pattern. However, the underlying dynamics determining the ratio remain largely unknown. We investigated mechanisms of dissolved iron (dFe) and nitrate (NO3−) transport to the euphotic zone of the North Pacific using an eddy‐resolvable biogeochemical model. We show that lateral advection and atmospheric deposition are dominant drivers for dFe transport, resulting in high Fe:N supply ratio in both subarctic and subtropical regions. Conversely, significant vertical supplies of NO3− through upwelling and diffusion processes markedly reduce the supply ratio in the subarctic region. These dynamics combined lead to high Fe:N supply ratio in the gyre and low ratio in the subarctic, ultimately driving high nitrogen fixation condition in the gyre and the iron‐limited phytoplankton growth condition in the subarctic region.

A spatial matrix factorization method to characterize ecological assemblages as a mixture of unobserved sources: An application to fish eDNA surveys

Abstract Understanding how ecological assemblages vary in space and time is essential for advancing our knowledge of biodiversity dynamics and ecosystem functioning. Metabarcoding of environmental DNA (eDNA) is an efficient method for documenting biodiversity changes in both marine and terrestrial ecosystems. However, current methods fail to detect and display the biodiversity structure within and between eDNA samples limiting ecological and biogeographical interpretations. We present a spatial matrix factorization method that identifies optimal eDNA sample assemblages—called pools—assuming that taxonomic unit composition is based on a fixed number of unknown sources. These sources, in turn, represent taxonomic units sharing similar habitat properties or characteristics. The method aims to reduce the multi‐taxa composition structure into a low number of dimensions defined by these sources. This method is inspired by admixture analysis in population genetics. Using a marine fish eDNA survey on 263 sampling stations detecting 2888 molecular operational taxonomic units (MOTUs), we apply this method to analyse the biogeography and mixing patterns of fish assemblages at regional and large scales. At large scale, our analysis reveals six primary pools of fish samples characterized by distinct biogeographic patterns, with some mixtures between these pools. We identify pools composed of unique sources, corresponding to distinct and more isolated regions such as the Mediterranean and Scotia Seas. We also identify pools composed of a greater mix of sources, corresponding to geographically connected areas, such as tropical regions. Additionally, we identify the taxa underpinning the formation of each pool. In the regional analysis of Mediterranean eDNA samples, our method successfully identifies different pools, allowing the detection of not only geographic gradients but also human‐induced gradients corresponding to protection levels. Spatial matrix factorization adds a new method in community ecology, where each sample is considered as a mixture of K unobserved sources, to assess the dissimilarity of ecological assemblages revealing environmental and human‐induced gradients. Beyond the study of fish eDNA samples, this method has the potential to shed new light on any biodiversity survey and provide new bioindicators of global change.

The biogeographic history of the allokotosaurian archosauromorphs in the Triassic of Pangaea

ABSTRACT Allokotosauria (Trilophosauridae + Azendohsauridae) is a clade of Early – Late Triassic quadruped, sprawling archosauromorphs with diverse dietary habits, known from Madagascar, India, Morocco, North America, and Europe. We conducted the first quantitative biogeographic analysis of the clade to reconstruct its ancestral areas and dispersal events. The results estimated the India + Tanzania area as ancestral for Allokotosauria. Eastern North America was reconstructed as the ancestral area of Trilophosauridae, implying an Early Triassic Southern to Northern Hemisphere dispersal. Subsequently, trilophosaurids were restricted to the Northern Hemisphere, and at least two dispersal events from Europe to western North America are estimated during the early Anisian and probably during the early Carnian, respectively. Azendohsauridae retained the ancestral area of India + Tanzania during much of its evolutionary history. Two dispersal events to western and eastern North America, respectively, are reconstructed during the Carnian – early Norian, likely during or in the aftermath of the Carnian Pluvial Episode (CPE). This pattern mirrors that of early dinosaurs, which were restricted to the Southern Hemisphere with dispersals to the Northern Hemisphere not recorded until the end of the CPE. This study informs about biogeographic patterns involved in the biotic recovery after the end-Permian mass extinction and the early evolutionary radiation of Archosauromorpha.

Biogeography of the Iranian snakes.

The events of the Cenozoic era such as mountain formation caused Iran to become one of the most amazing biodiversity hotspots in the world today. This pioneering study on Iranian snake biogeography integrates historical and ecological analyses. A phylogeographic review traces speciation and dispersal, while cluster analysis with a new snake checklist assesses faunistic similarities within Iran and its surroundings. Jaccard and Sorenson indices generate similarity dendrograms, Indicator Species Analysis pinpoints regional key species, and Endemism index calculates regional endemism rates, enriching our knowledge of Iran's species diversity. Phylogeographic analyses identify four biogeographical corridors for snake ingress into Iran: the Arabian region through southwestern Iran, the Western Asian mountainous transition zone via northwestern Iran, the Turanian region into northeastern Iran, and the Indus River Valley into southeastern and eastern Iran. Dendrogram analysis divides snake fauna into three groups. The first group associates western Zagros and Khuzestan fauna with the Sahara and Arabian regions. The second group links Kopet Dagh and Turkmen Steppe fauna with the Turanian region, and Central Plateau and Baluchistan fauna with the Iranian region. The third group connects northwest highlands, Alborz and Zagros mountains, and Caspian Sea coasts with the Western Asian Mountain transition zone. The study validates broad biogeographic patterns via ecoregional associations and indicator species analysis, providing finer resolution. Species like Platyceps najadum in Caspian Hyrcanian mixed forests exemplify ecoregional alignment, while Zagros and Alborz mountains exhibit unique faunal indicators, indicating species-level divergence. Shared indicators among widespread ecoregions reflect habitat continuity; exclusive indicators emphasize regional distinctiveness. Despite endemic species prevalence, they seldom act as significant indicators due to various factors. Our research confirms the Zagros Mountains, Khuzestan Plain, Alborz Mountains, and Persian Gulf coasts as snake diversity hotspots, marked by higher species richness compared to other Iranian regions.

Mapping multi-dimensional variability in water stress strategies across temperate forests

Increasing water stress is emerging as a global phenomenon, and is anticipated to have a marked impact on forest function. The role of tree functional strategies is pivotal in regulating forest fitness and their ability to cope with water stress. However, how the functional strategies found at the tree or species level scale up to characterise forest communities and their variation across regions is not yet well-established. By combining eight water-stress-related functional traits with forest inventory data from the USA and Europe, we investigated the community-level trait coordination and the biogeographic patterns of trait associations for woody plants, and analysed the relationships between the trait associations and climate factors. We find that the trait associations at the community level are consistent with those found at the species level. Traits associated with acquisitive-conservative strategies forms one dimension of variation, while leaf turgor loss point, associated with stomatal water regulation strategy, loads along a second dimension. Surprisingly, spatial patterns of community-level trait association are better explained by temperature than by aridity, suggesting a temperature-driven adaptation. These findings provide a basis to build predictions of forest response under water stress, with particular potential to improve simulations of tree mortality and forest biomass accumulation in a changing climate.

Non‐native invasive plants in tropical dry forests: a global review of presence, impacts, and management

Tropical dry forests (TDF) are among the most‐threatened terrestrial ecosystems, experiencing ongoing conversion to agricultural fields, pasture, and human settlements. Human disturbances are often precursors to invasion of ecosystems by non‐native species, but research on invasion patterns in tropical ecosystems is sparse, and there is no comprehensive synthesis of invasive species in TDF. We conducted a review of published scientific literature to catalog and synthesize information about invasion by non‐native plants in TDF ecosystems across the globe, drawing out patterns in the invasion of these ecosystems. We found that 130 invasive plant species were documented as present in TDF, but only 25 of these species were mentioned in three or more articles. Almost all 25 of these more‐studied invasive species—mostly pasture grasses, woody legumes, and climbers—have been intentionally cultivated for agricultural or ornamental purposes. Many of these plants are native to open‐canopy savanna or forest edge habitats and benefit from human‐altered disturbance regimes (burning, grazing, and fuelwood and timber harvesting) of TDF fragments within agricultural landscapes. Field studies show that management approaches incorporating invasive removal, native plantings, and reduction in agricultural disturbance (e.g. ungulate fencing and fire control) simultaneously are often the most successful at reducing invasive plant cover. However, management studies in TDF have focused on a limited number of invasive species, and most were conducted in India and Hawaii. Global differences in TDF soils, natural fire regimes, and historic and current land use by humans influence modern biogeographic patterns of invasion and the feasibility of restoration options.

Snow leopard phylogeography and population structure supports two global populations with single refugial origin

AbstractSnow leopards (Panthera uncia) inhabit the mountainous regions of High Asia, which experienced serial glacial contraction and expansion during climatic cycles of the Pleistocene. The corresponding impacts of glacial vicariance may have alternately promoted or constrained genetic differentiation to shape the distribution of genetic lineages and population structure. We studied snow leopard phylogeography across High Asia by examining range-wide historical and contemporary genetic structure with mitochondrial DNA and microsatellite markers. We genotyped 182 individuals from across snow leopard range and sequenced portions of the mitogenome in a spatially stratified subset of 80 individuals to infer historical biogeographic and contemporary patterns of genetic diversity. We observed a lack of phylogeographic structure, and analyses suggested a single refugial origin for all sampled populations. Molecular data provided tentative evidence of a hypothesized glacial refugia in the Tian Shan-Pamir-Hindu Kush-Karakoram mountain ranges, and detected mixed signatures of population expansion. Concordant assessments of microsatellite data indicated two global genetic populations, though we detected geographic differences between historical and contemporary population structure and connectivity inferred from mitochondrial and microsatellite data, respectively. Using the largest sample size and geographic coverage to date, we demonstrate novel information on the phylogeographic history of snow leopards, and corroborate existing interpretations of snow leopard connectivity and genetic structure. We recommend that conservation efforts incorporate genetic data to define and protect meaningful conservation units and their underlying genetic diversity, and to maintain the snow leopard’s adaptive potential and continued resilience to environmental changes.

Freshwater Fishes of the State of Rio de Janeiro, Southeastern Brazil: Biogeographic and Diversity Patterns in a Historically Well-Sampled Territory

Freshwater Fishes of the State of Rio de Janeiro, Southeastern Brazil: Biogeographic and Diversity Patterns in a Historically Well-Sampled Territory

The last 20,000 years of climate change in the Iberian Peninsula characterized by the small-mammal assemblages

Climate and environments have undergone significant changes throughout the Earth's history, which are reflected in the faunal record. In that sense, small mammals provide valuable palaeoecological insights due to their close relationship with their associated environments. Our research investigates the dynamics of small mammal communities in the Iberian Peninsula from the Late Pleistocene to the Holocene, comparing regional environmental variations as well as anthropogenic impacts. Our review of the small mammal assemblages from 26 archaeological sites across the Iberian Peninsula revealed a differential response of the small mammal communities between the northern and southern areas. The colder climatic conditions which characterized the Late Pleistocene favoured the presence of mid-European species (e.g., Alexandromys (Oecomicrotus) oeconomus, Chionomys (Chionomys) nivalis) in northern regions until the Mid Holocene, while other taxa today restricted to northern Iberia (e.g., Arvicola amphibius, Microtus gr. (Euarvicola) arvalis, Sorex araneus-coronatus) reached southern regions during the Last Glacial Maximum but disappeared at the beginning of the Holocene period. Palaeoenvironmental reconstructions indicate predominantly open landscapes and colder climates in the Late Pleistocene, with increased forest cover during the Early-Mid Holocene in northern areas. In contrast, the southern regions exhibited more stable environments compared to the northern ones. Our results underscore how the great environmental diversity and interactions between natural and anthropogenic factors affected the composition of Iberian small mammal communities during the last 20,000 years. Most specifically, during the Late Holocene, biogeographical patterns of the small mammals are mostly affected by anthropic activities, with changes in the distribution of some species (Microtus (Iberomys) cabrerae), and the entrance of new ones (synanthropic species).

Environmental suitability throughout the late quaternary explains population genetic diversity

Genetic variation among populations is reflected in biogeographic patterns for many species, but general rules of spatial genetic variation have not been established. In this paper, we establish a theoretical framework based on projecting environmental Grinellian niches back through time to relate the present geographic distribution of population genetic structure to a given species' historical evolutionary context. Thanks to advances in next‐generation sequencing technologies, as well as more accurate climate models and the amassing of information stored in biological collections, it is possible to implement this theoretical framework directly. We develop a case study of the tassel‐eared squirrel Sciurus aberti to jointly analyze spatial, environmental, and genetic data to predict the historical endemic area of this species. Our results reveal that in cases of genetic isolation by geographic distance, the prevalence of environmental suitability over time corresponds to the genetic fixation index (Fst) of populations with respect to a source population. Populations closer to the historical endemic area show higher genetic diversity and a lower Fst value. This empirical example relates back to the theoretical framework, allowing two further advances: 1) a layer of biogeographic explanation for the results obtained from population genomic methods; and 2) predictive maps of this genetic structure to support biodiversity conservation efforts. Overall, this work advances a perspective that integrates population genetics with historical patterns of species distribution. The limitations posed in the theoretical framework should be considered before implementing the suitability prevalence area (SPA) in a general way over different taxa. Otherwise, the predictability of the genetic diversity of populations as a product of environmental stability over time may not be adequate.

Archaeal community from the Northern Hangzhou Bay to the East China Sea: biogeography, ecological processes, and functional potential

IntroductionArchaeal communities play a crucial role in marine ecosystems, yet our understanding of their ecological and functional traits remains incomplete. This study focuses on northern Hangzhou Bay to fill gaps in knowledge regarding the biogeography and functionality of archaeal groups.MethodsWe utilized a high-throughput sequencing dataset based on the 16S rRNA gene to characterize the archaeal community, aiming to identify biogeographic patterns and assess the influence of environmental factors on community structure.ResultsThe predominant phyla identified were Woesearchaeota, Thaumarchaeota, Euryarchaeota, and Crenarchaeota. Archaeal community structure in sediments showed a geographical pattern along the environmental gradient, influenced by factors such as salinity, ammonium, total phosphorus, pH, and total nitrogen content. Network analysis revealed nonrandom co-occurrence patterns, with associations changing along the salinity gradient. Additionally, this study directly proved the existence of dispersal limitation in this strongly connected marine ecological system through null model analyses. Variation in the archaeal community was attributed to both environmental constraints and stochastic processes due to dispersal limitation. Furthermore, our results revealed that the key biogeochemical functions of the archaeal community also exhibited a clear salinity gradient, the functional differences appear to be influenced by salinity, and the critical roles of archaeal diversity were highlighted.DiscussionAll these findings enhance our understanding of microbial ecology and element transformation in estuarine environments. The highlighted roles of archaeal diversity and the influence of environmental factors on community structure and function underscore the complexity of marine microbial ecosystems.

Patterns of Zoological Diversity in Iran—A Review

Iran is a country characterized by high biodiversity and complex biogeographic patterns. Its diverse landscape and steep climatic gradients have resulted in significant faunal diversity and high level of endemism. To better understand these patterns, we investigated the historical environmental drivers that have shaped Iran’s current geological and climatological conditions, and, consequently, have shaped the current zoological distribution patterns. Furthermore, we provide an overview of the country’s zoological diversity and zoogeography by reviewing published studies on its fauna. We analyzed nearly all available catalogs, updated checklists, and relevant publications, and synthesized them to present a comprehensive overview of Iran’s biodiversity. Our review reports approximately 37,500 animal species for Iran. We also demonstrated that the country serves as a biogeographic transition zone among three zoogeographical realms: the Palearctic, Oriental, and Saharo-Arabian, where distinct faunal elements intersect. This biogeographic complexity has made it challenging to delineate clear zoogeographical zones, leading to varying classifications depending on the taxon. The uplift of mountain ranges, in particular, has played a crucial role in shaping faunal diversity by serving as barriers, corridors, and glacial refugia. These mountains are largely the result of orogeny and plate collisions during the Mesozoic and Cenozoic eras, coupled with the development of the Tethyan Sea and the uplift of several ranges during the Miocene. Despite these insights, our understanding of biodiversity distribution in Iran remains incomplete, even for some well-studied taxa, such as certain vertebrate families and arthropods. We highlight the existing gaps in knowledge regarding zoogeographical patterns and propose approaches to address these gaps, particularly concerning less-studied species and the highly diverse group of insects.

A New Dawn for Protist Biogeography

ABSTRACTAimBiogeographers have believed for a long time that the geographical distributions of protists are only determined by environmental conditions, because dispersal is not limited. During the past two decades, the field has come a long way to show that historical and spatial factors also significantly contribute to shaping protist distributions, calling for a reappraisal of our understanding of protist biogeography.MethodsWe review the current state‐of‐the‐art on the field of protist biogeography, highlighting several outstanding questions and opportunities. Our review brings together insights from different disciplines, ranging from morphology‐based research to environmental, population and speciation genomics.ResultsProtist communities harbour cosmopolitan and geographically restricted species and are shaped by both local environmental conditions and historical processes, yet the relative contributions of these patterns and processes likely differs depending on the geographic scale, protist lineage and the habitat that is being investigated. The field is ready to move beyond the decades‐long ubiquity versus (moderate) endemicity discourse and to instead ask why and where specific protist species and clades are more prone to widespread or restricted distributions. With the advent of next‐generation sequencing technologies, from whole‐genome sequencing to environmental and ancient DNA surveys, it is now possible to integrate insights from multiple lines of evidence and investigate protist communities, species and populations at an unprecedented scale and detail.OutlookTo further advance the field, the protist community needs to focus on understudied habitats and protist lineages, study the impact of protist traits on biogeographical patterns, perform targeted field and experimental work to disentangle the processes that underlie protist biogeographies and expand and develop databases with sequence, trait, distributional and phylogenetic information of protists. Given that a good understanding of species boundaries is central to unravelling protist biogeography, it remains crucial to invest in polyphasic taxonomic research.

Microbiome Geographic Population Structure (mGPS) Detects Fine-Scale Geography.

Over the past decade, sequencing data generated by large microbiome projects showed that taxa exhibit patchy geographical distribution, raising questions about the geospatial dynamics that shape natural microbiomes and the spread of antimicrobial resistance (AMR) genes. Answering these questions requires distinguishing between local and non-local microorganisms and identifying the source sites for the latter. Predicting the source sites and migration routes of microbiota has been envisioned for decades but was hampered by the lack of data, tools, and understanding of the processes governing biodiversity. State-of-the-art biogeographical tools suffer from low resolution and cannot predict biogeographical patterns at a scale relevant to ecological, medical, or epidemiological applications. Analyzing urban, soil, and marine microorganisms, we found that some taxa exhibit regional-specific composition and abundance, suggesting they can be used as biogeographical biomarkers. We developed the Microbiome Geographic Population Structure (mGPS), a machine-learning-based tool that utilizes microbial relative sequence abundances to yield a fine-scale source site for microorganisms. mGPS predicted the source city for 92% of the samples and the within-city source for 82% of the samples, though they were often only a few hundred meters apart. mGPS also predicted soil and marine sampling sites for 86% and 74% of the samples, respectively. We demonstrated that mGPS differentiated local from non-local microorganisms and used it to trace the global spread of AMR genes. mGPS's ability to localize samples to their waterbody, country, city, and transit stations opens new possibilities in tracing microbiomes and has applications in forensics, medicine, and epidemiology.

Biodiversity of mudflat intertidal viromes along the Chinese coasts

Viruses constitute the most diverse and abundant biological entities on Earth. However, our understanding of this tiniest life form in complex ecosystems remains limited. Here, we recover 20,102 viral OTUs from twelve intertidal zones along the Chinese coasts. Our analysis demonstrates high viral diversity and functional potential in intertidal zones, encoding important functional genes that can be potentially transferred to microbial hosts and mediate elemental biogeochemical cycles, especially carbon, phosphate and sulfur. Virus-host abundance dynamics vary among different microbial lineages. Viral community composition is closely associated with environmental conditions, including dissolved organic matter. Concordant biogeographic patterns are observed for viruses and microbes. Viral communities are generally habitat specific with low overlaps between intertidal and other habitats. Environmental factors and geographic distance dominate the compositional variation of intertidal viromes. Overall, these findings expand our understanding of intertidal viromes within an ecological framework, providing insights into the virus-host coevolutionary arms race.

Biogeographic shifts in the microbial co-occurrence network features of three domains across complex environmental gradients in subtropical coastal waters

BackgroundBacteria, Archaea, and Microeukaryotes comprise taxonomic domains that interact in mediating biogeochemical cycles in coastal waters. Many studies have revealed contrasting biogeographic patterns of community structure and assembly mechanisms in microbial communities from different domains in coastal ecosystems; however, knowledge of specific biogeographic patterns on microbial co-occurrence relationships across complex coastal environmental gradients remains limited. Using a dense sampling scheme at the regional scale, SSU rRNA gene amplicon sequencing, and network analysis, we investigated intra- and inter-domain co-occurrence relationships and network topology-based biogeographic patterns from three microbial domains in coastal waters that show environmental gradients across the inshore-nearshore-offshore continuum in the East China Sea.ResultsOverall, we found the highest complexity and connectivity in the bacterial network, the highest modularity in the archaeal network, and the lowest complexity, connectivity, and modularity in the microeukaryotic network. Although microbial co-occurrence networks from the three domains showed distinct topological features, they exhibited a consistent biogeographic pattern across the inshore-nearshore-offshore continuum. Specifically, the nearshore zones with intermediate levels of terrestrial impacts reflected by multiple environmental factors (including water temperature, salinity, pH, dissolved oxygen, and nutrient-related parameters) had a higher intensity of microbial co-occurrence for all three domains. In contrast, the intensity of microbial co-occurrence was weaker in both the inshore and the offshore zones at the two ends of the environmental gradients. Archaea occupied a central position in the microbial inter-domain co-occurrence network. In particular, members of the Thaumarchaeota Marine Group I (MGI, now placed within the Family Nitrosopumilaceae of the Phylum Thermoproteota) appeared to be the hubs in the biogeographic shift between inter-domain network modules across environmental gradients.ConclusionsOur work offers new insights into microbial biogeography by integrating network features into biogeographic patterns, towards a better understanding of the potential of microbial interactions in shaping biogeographic patterns of coastal marine microbiota.

Habitat specificity modulates the bacterial biogeographic patterns in the Southern Ocean.

Conceptual biogeographic frameworks have proposed that the relative contribution of environmental and geographical factors on microbial distribution depends on several characteristics of the habitat (e.g. environmental heterogeneity, species diversity, proportion of specialist/generalist taxa), all of them defining the degree of habitat specificity, but few experimental demonstrations exist. Here, we aimed to determine the effect of habitat specificity on bacterial biogeographic patterns and assembly processes in benthic coastal ecosystems of the Southern Ocean (Patagonia, Falkland/Malvinas, Kerguelen, South Georgia and King George Islands), using 16S rRNA gene metabarcoding. The gradient of habitat specificity resulted from a 'natural experimental design' provided by the Abatus sea urchin model, from the sediment (least specific habitat) to the intestinal tissue (most specific habitat). The phylogenetic composition of the bacterial communities showed a clear differentiation by site, driven by a similar contribution of geographic and environmental distances. However, the strength of this biogeographic pattern decreased with increasing habitat specificity: sediment communities showed stronger geographic and environmental divergence compared to gut tissue. The proportion of stochastic and deterministic processes contributing to bacterial assembly varied according to the geographic scale and the habitat specificity level. For instance, an increased contribution of dispersal limitation was observed in gut tissue habitat. Our results underscore the importance of considering different habitats with contrasting levels of specificity to better understand bacterial biogeography and assembly processes over oceanographic scales.

Influence of climate on soil viral communities in Australia on a regional scale

AbstractViruses play a crucial role in regulating microbial communities and ecosystem functioning. However, the biogeographic patterns of viruses and their responses to climate factors remain underexplored. In this study, we performed viral size fraction metagenomes on 108 samples collected along a 2600 km transect across Australia, encompassing distinct climate conditions. A total of 14,531 viral operational taxonomic units were identified. Climate factors had a greater influence than edaphic and biotic factors on driving the alpha diversity of viral communities. The strongest relationship was observed between mean annual temperature and the diversity of viral communities. Moreover, climate factors, particularly aridity index, were the primary drivers of viral community structure. Overall, these findings underscore the pivotal role of climate factors in shaping viral communities and have implications for understanding how climate change influences soil viral ecology.

Origin of sandy substrates controlling the distribution of open vegetation ecosystems in Amazonia

Understanding the role of open vegetation, particularly in white-sand ecosystems (WSE) and savannas, is crucial for elucidating their role in Amazonian biotic diversification. These ecosystems predominantly develop on sandy terrains, suggesting that the geological substrate significantly influences the vegetation upon it. Therefore, the interaction between landscape changes and biotic diversification is closely tied to the dynamics and resilience of these sandy substrates. Current WSE and savannas in lowland Amazonia colonized fluvial sediments deposited during the past 120 ka, with marked synchronicity over the last 23 ka, as shown by optically stimulated luminescence (OSL) and radiocarbon ages of such sandy substrates. In contrast, sandy substrates supporting open vegetation in highland areas, unsuitable for Quaternary sand accumulation, would have persisted beyond the Quaternary, as ancient sedimentary rocks in these areas are prone to developing sandy soils. The current distribution of open vegetation ecosystems in lowland Amazonia is coupled with the deposition and erosion of sandy sediments by Quaternary fluvial systems, while weathering sandy substrates in highland areas serve as long-term and resilient refugia beyond the Quaternary. The contrasting spatiotemporal dynamics of landscape changes in lowland and highland areas has implications for biodiversification or extinction events leading to current biogeography patterns in Amazonia.