Distribution Of Taxa Research Articles

Diet at birth is critical for healthy growth, independent of effects on the gut microbiota

BackgroundColostrum is the first milk for a newborn. Its high content in microbiota shaping compounds and its intake at the time of gut microbiota seeding suggests colostrum may be critical in the establishment of a healthy microbiota. There is also accumulating evidence on the importance of the gut microbiota for healthy growth. Here, we aimed to investigate the contribution of colostrum, and colostrum-induced microbiota to growth promotion. Addressing this question is highly significant because (1) globally, less than half of the newborns are fully colostrum fed (2) the evidence for the importance of the microbiota for the prevention of undernutrition has only been demonstrated in juvenile or adult pre-clinical models while stunting already starts before weaning.ResultsTo address the importance of diet at birth in growth failure, we developed a unique mouse model in which neonates are breastfed by mothers at an advanced stage of lactation who no longer provide colostrum. Feeding newborn mice with mature milk instead of colostrum resulted in significant growth retardation associated with the biological features of chronic undernutrition, such as low leptin levels, dyslipidemia, systemic inflammation, and growth hormone resistance. We next investigated the role of colostrum in microbiota shaping. At the end of the lactation period, we found a major difference in gut microbiota alpha diversity, beta diversity, and taxa distribution in control and colostrum-deprived mice. To determine the causal relationship between changes in microbiota and growth trajectories, we repeated our experiment in germ-free mice. The beneficial effect of colostrum on growth remained in the absence of microbiota.ConclusionOur data suggest that colostrum may play an important role in the prevention of growth failure. They highlight that the interplay between neonatal gut microbiome assembly and diet may not be as crucial for growth control in the developing newborn as described in young adults. This opens a paradigm shift that will foster research for colostrum’s bioactives that may exert a similar effect to microbiota-derived ligands in promoting growth and lead to new avenues of translational research for newborn-tailored prevention of stunting.98mWSFedBqCALfgBr5hPfAVideo

Morphological innovation did not drive diversification in Mesozoic-Cenozoic brachiopods.

Over long spans of geological time, various groups of organisms may wax and wane, experiencing times of apparent success and contraction. These rises and falls are often said to reflect either opportunities created by climate change or the relative success of innovative characteristics. Phylum Brachiopoda was one of the most successful marine clades before the Permian/Triassic mass extinction (PTME), but after this event, they became marginal components of marine communities through to the present day. How brachiopod morphological innovations reacted to swiftly declining diversity has long remained poorly understood. Here we analyse morphological evolution over the 300 Myr (Permian-Quaternary) history of the four major Mesozoic-Cenozoic brachiopod orders (Terebratulida, Rhynchonellida, Spiriferinida, Athyridida). Unexpectedly, their disparities reached or exceeded pre-PTME levels, but were decoupled from generic richness, which was generally low. Distribution of taxa in morphospace and shifts in centroid indicate that all four orders exploited new morphospaces when adapting to post-Permian environments. A comparison of morphospace occupation and diversity evolution suggests that the high extinction rate of brachiopods and the limited diversification of new forms may have accounted for the depauperate nature of modern-day brachiopods.

Prediction of anastomotic insufficiency based on the mucosal microbiome prior to colorectal surgery: a proof-of-principle study

Anastomotic leakage (AL) is a potentially life-threatening complication following colorectal cancer (CRC) resection. In this study, we aimed to unravel longitudinal changes in microbial structure before, during, and after surgery and to determine if microbial alterations may be predictive for risk assessment between sufficient anastomotic healing (AS) and AL prior surgery. We analysed the microbiota of 134 colon mucosal biopsies with 16S rRNA V1-V2 gene sequencing. Samples were collected from three location sites before, during, and after surgery, and patients received antibiotics after the initial collection and during surgery. The microbial structure showed dynamic surgery-related changes at different time points. Overall bacterial diversity and the abundance of some genera such as Faecalibacterium or Alistipes decreased over time, while the genera Enterococcus and Escherichia_Shigella increased. The distribution of taxa between AS and AL revealed significant differences in the abundance of genera such as Prevotella, Faecalibacterium and Phocaeicola. In addition to Phocaeicola, Ruminococcus2 and Blautia showed significant differences in abundance between preoperative sample types. ROC analysis of the predictive value of these genera for AL revealed an AUC of 0.802 (p = 0.0013). In summary, microbial composition was associated with postoperative outcomes, and the abundance of certain genera may be predictive of postoperative complications.

Northeast Atlantic species distribution shifts over the last two decades.

Marine species are widely shifting their distributions in response to global changes and it is commonly expected they will move northward and to greater depths to reach cooler, less disturbed habitats. However, local manifestations of global changes, anthropogenic pressures, and species characteristics may lead to unanticipated and varied responses by individual species. In this regard, the Celtic-Biscay Shelf is a particularly interesting study system because it has historically been heavily fished and occurs at the interface between two distinct biogeographic provinces, its community thus comprised of species with diverse thermal preferenda. In the context of rapidly warming temperatures and intense fishery exploitation, we investigated the distribution shifts of 93 taxa (65 Actinopteri, 10 Elasmobranchii, 11 Cephalopoda, 5 Malacostraca, and 2 Bivalvia), which were sampled annually from 1997 to 2020 during a scientific bottom trawl survey. We used a set of 11 complementary spatial indices to quantify taxon distribution shifts over time. Then, we explored the relative effect of taxon abundance, fishing pressure, and climatic conditions on taxon's distribution shift when a significant shift was detected. We observed that 56% of the taxa significantly shifted. Not all taxa will necessarily shift northward and to deeper areas, as it is often expected. Two opposite patterns were identified: taxa either moving deeper and to the southeast, or moving closer to the surface and to the northwest. The main explanatory factors were climate change (short- and long-term temperatures) and taxon abundance. Fishing pressure was the third, but still significant, explanatory factor of taxa of greater commercial importance. Our research highlights that taxa are displaying complex distribution shifts in response to the combined anthropogenic disturbances and underscores the need to conduct regional studies to better understand these responses at the ecosystem scale to develop more suitable management plans and policies.

Aquatic Angiosperms of India

Some of the salient features pertaining to the taxonomy of a few interesting aquatic angiosperms and their distribution, variability of fruits and seeds, their economic importance, floral biology, anatomy, embryology and cytology are presented here. The varied and diverse pattern of distribution of some Indian aquatic taxa is described with examples. Certain unique embryological features noticed in some aquatic plants are pointed out. Though the data on the cytplogy of Indian aquatic angiosperms is raher meagre, it is evident that from the evolutionary point of view, polyploidy has played an important role in the differentiation of races, varieties and species. The nomenclature of Nymphoides Hill and Necharmndra Planch., is discussed. Finally, the ample scope present for further work for a better understanding of these plants is emphasised.

Ecological, morphological, and anatomical investigation of Sorbus L. (Rosaceae) taxa distribution in Rize province (Türkiye)

This research was carried out to determine the Sorbus L. species distributed within the borders of Rize province between 2011-2013 and to reveal the differences (morphological, anatomical, and ecological) between them. It was determined that four taxa belong to the genus Sorbus L. in the research area, which is located in the A8 square according to the grid system. Identified taxa, Sorbus aucuparia L., Sorbus subfusca (Ledeb) Boiss, Sorbus caucasica (Zinserl) var. Yaltırikii, Gökşin and Sorbus umbellata. var. cretica (Lindl) Schneidear. The morphological, anatomical, and ecological characteristics of these taxa, which are naturally distributed in the flora of the research area, were comparatively examined. Localities of Sorbus L. taxa distributed in the region, habitat characteristics, and species identification keys were identified. The localities of the taxa that naturally spread in the region were determined, and their maps were processed according to the GPS coordinate data.

Comparative Assessment of Plant Species and Their Taxa Distribution between the Capital Cities of Akwa Ibom and Bayelsa States, Nigeria

The study examined the comparative assessment of plant species and their taxa distribution between the Capital Cities of Akwa Ibom and Bayelsa States, Nigeria. The study established quadrats of 30mx200m along road (transects) in GRAs of Uyo City, Akwa Ibom State and Yenagoa City, Bayelsa State labelled as sampled sites and a quadrat of 100mx100m were established as control sites (secondary forest) at a minimum of 300m from the sampled sites. Descriptive statistics were employed to analyse the data. Findings revealed that that a total of 32 plant individual species types were found in the sampled sites in Uyo while a total of 16 plant individual species types belonging to 13 families were found in Yenagoa. Also, the 32 individual plant species found under the sampled sites belong to 20 families with Arecaceae and Moraceae having the highest species individuals in Uyo Town while 26 individual plant species were identified belonging to 19 families with Apocynaceae and Guthiferae producing the highest numbers of species individuals in Yenagoa. The study can be concluded that there was variation in the plant taxa between Akwa Ibom State and Yenagoa State as the plant composition in the Uyo is more than that of Yenagoa Town suggesting the influence of the level of urbanization and other anthropogenic activities. The study recommended that urban greening activities should commence immediately in the areas where there is a shortage of plant composition.

Spatial distribution and diversity of the heterotrophic flagellates in the Cosmonaut Sea, Antarctic

As predators of bacteria and viruses and as food sources for microzooplankton, heterotrophic flagellates (HFs) play an important role in the marine micro-food web. Based on the global climate change’s impact on marine ecosystems, particularly sea ice melting, we analyzed the community composition and diversity of heterotrophic flagellates, focusing on the Antarctic Cosmonaut Sea. During the 36th China Antarctic research expedition (2019-2020), we collected seawater samples, subsequently analyzing HFs through IlluminaMiSeq2000 sequencing to assess community composition and diversity. Notable variations in HFs abundance were observed between the western and eastern sectors of the Cosmonaut Sea, with a distinct concentration at a 100-meter water depth. Different zones exhibited diverse indicators and dominants taxa influenced by local ocean currents. Both the northern Antarctic Peninsula and the western Cosmonaut Sea, where the Weddell Eddy and Antarctic Land Slope Current intersect, showcased marine stramenopiles as dominant HFs species. Our findings offer insights into dominant taxa, spatial distribution patterns among heterotrophic flagellates, correlations between taxa distribution and environmental factors, and the exploration of potential indicator taxa.

Assessment of macrozoobenthos baseline diversity for monitoring the ecological quality of Finima Nature Park Lake.

The scarcity of pristine, intact ecosystems limits opportunities to learn about succession and ecosystem evolution under conditions of limited human impact. Finima Nature Park (FNP) has been identified as a possible RAMSAR site. Its protected lake-"FNP Lake" (also known locally as "Bonny Lake")-is an unusual habitat that enables monitoring of aquatic ecological succession in the Niger Delta, where pristine and near-pristine ecosystems are becoming scarce. Macrozoobenthos are one of the best-known bio-monitors of ecological health integrity because they are widespread and long-lasting, with moderate mobility and high diversity, among other valuable characteristics. Monthly data of the community structure of macrozoobenthos and some of the FNP Lake's priority abiotic factors were collected in 2018, which provided a baseline for identifying future water quality changes and succession in the lake. Except for temperature and dissolved oxygen (DO), which were spatially uniform, the physico-chemical parameters varied spatio-temporally. The diversity indices values were low. According to the canonical correspondence abundance (CCA) plot, taxa distributions were influenced mainly by pH, DO, and temperature, which explains the prevalence of oxygen-insensitive species.

The unexpected effect of the compound microbial agent NP-M2 on microbial community dynamics in a nonylphenol-contaminated soil: the self-stability of soil ecosystem.

Nonylphenol (NP) is widely recognized as a crucial environmental endocrine-disrupting chemical and persistent toxic substance. The remediation of NP-contaminated sites primarily relies on biological degradation. Compound microbial products, as opposed to pure strains, possess a greater variety of metabolic pathways and can thrive in a wider range of environmental conditions. This characteristic is believed to facilitate the synergistic degradation of pollutants. Limited research has been conducted to thoroughly examine the potential compatibility of compound microbial agents with indigenous microflora, their ability to function effectively in practical environments, their capacity to enhance the dissipation of NP, and their potential to improve soil physicochemical and biological characteristics. In order to efficiently eliminate NP in contaminated soil in an eco-friendly manner, a simulation study was conducted to investigate the impact of bioaugmentation using the functional compound microbial agent NP-M2 at varying concentrations (50 and 200 mg/L) on the dynamics of the soil microbial community. The treatments were set as follows: sterilized soil with 50 mg/kg NP (CK50) or 200 mg/kg NP (CK200); non-sterilized soil with 50 mg/kg NP (TU50) or 200 mg/kg NP (TU200); non-sterilized soil with the compound microbial agent NP-M2 at 50 mg/kg NP (J50) or 200 mg/kg NP (J200). Full-length 16S rRNA analysis was performed using the PacBio Sequel II platform. Both the indigenous microbes (TU50 and TU200 treatments) and the application of NP-M2 (J50 and J200 treatments) exhibited rapid NP removal, with removal rates ranging from 93% to 99%. The application of NP-M2 further accelerated the degradation rate of NP for a subtle lag period. Although the different treatments had minimal impacts on the soil bacterial α-diversity, they significantly altered the β-diversity and composition of the bacterial community. The dominant phyla were Proteobacteria (35.54%-44.14%), Acidobacteria (13.55%-17.07%), Planctomycetes (10.78%-11.42%), Bacteroidetes (5.60%-10.74%), and Actinobacteria (6.44%-8.68%). The core species were Luteitalea_pratensis, Pyrinomonas_methylaliphatogenes, Fimbriiglobus_ruber, Longimicrobium_terrae, and Massilia_sp003590855. The bacterial community structure and taxon distribution in polluted soils were significantly influenced by the activities of soil catalase, sucrase, and polyphenol oxidase, which were identified as the major environmental factors. Notably, the concentration of NP and, to a lesser extent, the compound microbial agent NP-M2 were found to cause major shifts in the bacterial community. This study highlights the importance of conducting bioremediation experiments in conjunction with microbiome assessment to better understand the impact of bioaugmentation/biostimulation on the potential functions of complex microbial communities present in contaminated soils, which is essential for bioremediation success.

Supplementary data and taxonomic changes in the subterranean beetles of the Balkan Peninsula from July 1 2016 to September 30 2023.

Supplementary data and taxonomic changes are provided for the listing of the subterranean beetles of the Balkan Peninsula (Hlav, Perreau & eplk, 2017), published from July 1st 2016 to September 30th 2023. An illustrated supplement catalogue and distribution of taxa by zoogeographic regions sensu Hlav et al., are given.

BACKLAND: spatially explicit and high‐resolution pollen‐based BACKward LAND‐cover reconstructions

Studying the interactions between humans, land‐cover and biodiversity is necessary for the sustainable management of socio‐ecosystems and requires long‐term reconstructions of past landscapes, improving the integration of slow processes. The main source of information on past vegetation is fossil pollen, but pollen data are biased by inter‐taxonomic differential production and dispersal. The landscape reconstruction algorithm (LRA) approach is the most widely used to correct for these biases. The LOVE algorithm (LOcal Vegetation estimates), the second step in the LRA approach, also estimates the spatial extent of the local vegetation reconstruction zone (the relevant source area of pollen, RSAP). While LRA estimates have already been integrated into certain past land‐cover mapping approaches, none have been designed to allow the diachronic reconstruction of a land‐cover mosaic over the long term combining the following points: the direct integration of LOVE estimates as a source of variability in the composition and distribution of pollen taxa, without multiple scenarios, and the integration of spatiotemporal autocorrelation in the taxa distribution between periods. Here, we propose an innovative approach for BACKward LAND‐cover reconstruction (BACKLAND), combining these points and estimating the past land‐cover mosaic within a set of RSAPs. Based on three stages using parsimonious assumptions and easy‐to‐implement probabilistic and statistical tools, this approach requires LOVE estimates of sites close enough to each other for their RSAPs to overlap, botanical data, a digital elevation model and two recent land‐cover maps. Developed and tested on a small study area within the mountain landscape of the Bassiès valley (French Pyrenees), BACKLAND achieved the reconstruction of a past land‐cover map representing eight land‐cover types at a spatial resolution of 20 m with a good level of accuracy. We show in this study the originality of this approach and discuss its potential for palaeoenvironmental studies, historical ecology and the management of socio‐ecosystems.

Metagenome-assembled genomes from High Arctic glaciers highlight the vulnerability of glacier-associated microbiota and their activities to habitat loss.

The rapid warming of the Arctic is threatening the demise of its glaciers and their associated ecosystems. Therefore, there is an urgent need to explore and understand the diversity of genomes resident within glacial ecosystems endangered by human-induced climate change. In this study we use genome-resolved metagenomics to explore the taxonomic and functional diversity of different habitats within glacier-occupied catchments. Comparing different habitats within such catchments offers a natural experiment for understanding the effects of changing habitat extent or even loss upon Arctic microbiota. Through binning and annotation of metagenome-assembled genomes (MAGs) we describe the spatial differences in taxon distribution and their implications for glacier-associated biogeochemical cycling. Multiple taxa associated with carbon cycling included organisms with the potential for carbon monoxide oxidation. Meanwhile, nitrogen fixation was mediated by a single taxon, although diverse taxa contribute to other nitrogen conversions. Genes for sulphur oxidation were prevalent within MAGs implying the potential capacity for sulphur cycling. Finally, we focused on cyanobacterial MAGs, and those within cryoconite, a biodiverse microbe-mineral granular aggregate responsible for darkening glacier surfaces. Although the metagenome-assembled genome of Phormidesmis priestleyi, the cyanobacterium responsible for forming Arctic cryoconite was represented with high coverage, evidence for the biosynthesis of multiple vitamins and co-factors was absent from its MAG. Our results indicate the potential for cross-feeding to sustain P. priestleyi within granular cryoconite. Taken together, genome-resolved metagenomics reveals the vulnerability of glacier-associated microbiota to the deletion of glacial habitats through the rapid warming of the Arctic.

The birds of Cameroon: bird survey in a forest plain of the Congo basin forest (Oveng, Cameroon) confirms the great diversity of birds linked to the vegetation of the second largest biodiversity reserve in the world as well as the distribution pattern of taxa

We carried out a bird survey in the Oveng plain in the Congo Basin Forest to investigate the avifauna as well as to explore the abundance, diversity and distribution of taxa. To obtain abundance of bird species and analyze their diversity and distribution, we used the mist net method for bird sampling for five months and performed analyzes with SAS/STAT and PAST software, respectively; moreover, to compare the diversity and dominance of the Oveng plain to other plains already explored, we proceeded to a simple comparison for a small sample, placing the values in a double-entry table and analyzing them. We captured 146 individuals belonging to 22 bird families and compared to previous surveys in this region, we recorded three new species, Campethera maculosa, Buccanodon duchaillui and Alethe diademeta; the birds caught were mainly sedentary and the rest were a mixture of intra-African, seasonal and Palearctic migrants, etc. Values ​​of the diversity indices show a great avifaunistic diversity within the Oveng site; thus, the Shannon-Wiener index (H’= 3.09) expresses the high number of the species within the Oveng avifauna while the Equitability index (J’=0.83) reveals an absence of dominance of one species and therefore an equal distribution of individuals within species. The Simpson index (λ=0.92) supports abundant species representation in Oveng’s birdlife due to the presence of year-round vegetation. The distribution pattern of taxa appeared directly linked to vegetation. Comparison of the diversity and dominance of plains avifauna supports a close relationship between the presence of vegetation and a high diversity of birds and that between an absence of vegetation and a more pronounced dominance.

Composition and diversity of bacterial communities associated with honey bee foragers from two contrasting environments.

The honey bee is associated with a diverse community of microbes (viruses, bacteria, fungi, and protists), commonly known as the microbiome. Here, we present data on honey bee microbiota from two localities having different surrounding landscapes - mountain (the Rhodope Mountains) and lowland (the Danube plain). The bacterial communities of abdomen of adult bees were studied using amplicon sequencing of the 16S rRNA gene. The composition and dominance structure and their variability within and between localities, alpha and beta diversity, and core and differential taxa were compared at different hierarchical levels (operational taxonomic units to phylum). Seven genera (Lactobacillus, Gilliamella, Bifidobacterium, Commensalibacter, Bartonella, Snodgrassella, and Frischella), known to include core gut-associated phylotypes or species clusters, dominated (92-100%) the bacterial assemblages. Significant variations were found in taxa distribution across both geographical regions and within each apiary. Lactobacillus (Firmicutes) prevailed significantly in the mountain locality followed by Gilliamella and Bartonella (Proteobacteria). Bacteria of four genera, core (Bartonella and Lactobacillus) and non-core (Pseudomonas and Morganella), dominated the bee-associated assemblages of the Danube plain locality. Several ubiquitous bacterial genera (e.g., Klebsiella, Serratia, and Providencia), some species known also as potential and opportunistic bee pathogens, had been found in the lowland locality. Beta diversity analyses confirmed the observed differences in the bacterial communities from both localities. The occurrence of non-core taxa contributes substantially to higher microbial richness and diversity in bees from the Danube plain locality. We assume that the observed differences in the microbiota of honey bees from both apiaries are due to a combination of factors specific for each region. The surrounding landscape features of both localities and related vegetation, anthropogenic impact and land use intensity, the beekeeping management practices, and bee health status might all contribute to observed differences in bee microbiota traits.

Metagenomic and metaproteomic insights into the microbiome and the key geobiochemical potentials on the sandstone of rock-hewn Beishiku Temple in Northwest China

Metagenomics and metaproteomics analyses were used to determine the microbial diversity and taxon composition, as well as the biochemical potentials of the microbiome on the sandstone of Beishiku Temple located in Northwest China. Taxonomic annotation of the metagenomic dataset revealed the predominant taxa of the stone microbiome on this cave temple with characteristics of resistance to harsh environmental conditions. Meanwhile, there were also taxa in the microbiome that showed sensitivity to environmental factors. The taxa distribution and the metabolic functional distribution patterns by the metagenome and metaproteome, respectively, showed clear differences. The high abundance of energy metabolism represented in the metaproteome suggested that there were active geomicrobiological cycles of elements within the microbiome. The taxa responsible for reactions in the nitrogen cycle from both metagenome and metaproteome supported a metabolically active nitrogen cycle, and the high activity of Comammox bacteria indicated the strong metabolic activity of ammonia oxidation to nitrate in the outdoor site. The SOX-related taxa involved in the sulfur cycle showed higher activity outdoors than indoors, and on the outdoor ground than at the outdoor cliff, as detected through metaproteomic analysis. The development of petrochemical industry in the vicinity resulting in the deposition of sulfur/oxidized sulfur via atmosphere may stimulate the physiological activity of SOX. Our findings provide metagenomic and metaproteomic evidence for microbially driven geobiochemical cycles that result in the biodeterioration of stone monuments.

Changes in the Bacterial Community Composition of Cultivated Soil after Digging up Operations for Laying a Pipeline

Our study aimed to evaluate the impact of the pipeline installation on the bacterial composition in cultivated soil by metagenomic analyses performed before the excavation and in the following three years. Differential abundance analysis was obtained using DESeq2 from the GAIA pipeline to verify the bacteriological diversity in soils collected after the reference year (2013). Soil samples presented a different distribution of taxa, especially in 2014, in which a further allocation at the phylum and family levels was observed compared to the previous year (2013). The phyla Bacteroidetes and Firmicutes increased significantly, while the phylum Actinobacteria, most abundant in 2013, showed reduced abundance; moreover, Chloroflexi and Planctomycetes decreased considerably, and Verrucomicrobia was absent. The significant differences in the taxonomic composition and structure of the soil microbial community were due to critical stress conditions following the soil excavations. The bacterial communities were capable of profound physiological and genetic changes, implementing different mechanisms for survival and adaptation to an environment with changed conditions. The implication of changes in microbial diversity before and after the mechanical insult of soil has been determined.

The photic-aphotic divide is a strong ecological and evolutionary force determining the distribution of ciliates (Alveolata, Ciliophora) in the ocean.

The bulk of knowledge on marine ciliates is from shallow and/or sunlit waters. We studied ciliate diversity and distribution across epi- and mesopelagic oceanic waters, using DNA metabarcoding and phylogeny-based metrics. We analyzed sequences of the 18S rRNA gene (V4 region) from 369 samples collected at 12 depths (0-1,000 m) at the Bermuda Atlantic Time-series Study site of the Sargasso Sea (North Atlantic) monthly for 3 years. The comprehensive depth and temporal resolutions analyzed led to three main findings. First, there was a gradual but significant decrease in alpha-diversity (based on Faith's phylogenetic diversity index) from surface to 1,000-m waters. Second, multivariate analyses of beta-diversity (based on UniFrac distances) indicate that ciliate assemblages change significantly from photic to aphotic waters, with a switch from Oligotrichea to Oligohymenophorea prevalence. Third, phylogenetic placement of sequence variants and clade-level correlations (EPA-ng and GAPPA algorithms) show Oligotrichea, Litostomatea, Prostomatea, and Phyllopharyngea as anti-correlated with depth, while Oligohymenophorea (especially Apostomatia) have a direct relationship with depth. Two enigmatic environmental clades include either prevalent variants widely distributed in aphotic layers (the Oligohymenophorea OLIGO5) or subclades differentially distributed in photic versus aphotic waters (the Discotrichidae NASSO1). These results settle contradictory relationships between ciliate alpha-diversity and depth reported before, suggest functional changes in ciliate assemblages from photic to aphotic waters (with prevalence of algivory and mixotrophy versus omnivory and parasitism, respectively), and indicate that contemporary taxon distributions in the vertical profile have been strongly influenced by evolutionary processes. Integration of DNA sequences with organismal data (microscopy, functional experiments) and development of databases that link these sources of information remain as major tasks to better understand ciliate diversity, ecological roles, and evolution in the ocean.

Structuring domestic space in the Lower Magdalenian: an analysis of the fauna from Level 115 of El Mirón Cave, Cantabria

Documenting the intentional structuring of space by hunter-gatherers can be challenging, especially in complex cave contexts. One approach is the spatial analysis of discard patterns. Here, the authors consider the spatial distribution of faunal remains from the Lower Magdalenian Level 115 in El Mirón Cave, Cantabria, to assess a possible structuring function for an unusual alignment of rocks. Although it is impossible to determine whether the alignment was intentionally constructed, differences in the distributions of taxa and in specimen sizes on different sides of this feature suggest that it played a role in structuring the living space of the cave's inhabitants.

Cladistics and Stratigraphy

Using cladistic phylogenies (cladograms) to evaluate stratigraphy (taxon distributions and correlations) necessitates various assumptions that include all of the assumptions built into the cladogram, assuming the cladogram is “correct” and that new taxa only arise by dichotomous splitting. Ghost lineages extend back the temporal ranges of sister taxa by assuming that both taxa’s oldest records are the time of dichotomous splitting, the only mode of evolution in cladistics. Other modes of evolution require no ghost lineages (anagenesis) or indicate unequal temporal ranges of closely related taxa (punctuation). Evaluating congruence between cladistic branching patterns and stratigraphic distributions reveals much congruence, simply because the cladogram and the taxa in the stratigraphic distribution are overlapping datasets, and the pattern of evolution is to evolve derived taxa after more primitive taxa. Correlating fossil assemblages based on the phylogenetic signals of their included taxa is little more than correlating by stage of evolution. Claiming that paraphyletic taxa are of less biochronological utility than monophyletic taxa is not borne out by examining correlations provided by the actual stratigraphic ranges of the taxa, regardless of their status in an a posteriori cladistic analysis. Thus, using cladistics to evaluate stratigraphy is assumption laden and of questionable value.