The biogeography and trophic roles of coastal marine sponges (Porifera) from the west coast of the North Island, New Zealand: Influences of catchments.

Anthropogenic activities are degrading coastal marine ecosystems globally. While the ecological and biodiversity implications of some of these impacts are well understood, for others there is a need for a greater understanding of the effects of these activities on vulnerable sedentary species. For researchers to pragmatically assess impacts on cryptic sponge species in highly productive reef systems, taxonomic assignment of these taxa is essential. With regards to the sponge fauna of Aotearoa, New Zealand, identification of sponge species is crucial for two main reasons. Firstly, these species significantly contribute to the productivity of inshore coastal reef ecosystems. Secondly, the existing literature of New Zealand’s sponge species has scarcities in species characterisation and identification for inshore sponge fauna. The Taranaki region is arguably foremost for consideration, as the coast would likely reflect any shifts in trans-Tasman current systems, and this region has a highly exposed geomorphology making it logistically difficult to conduct dive surveys. Furthermore, little is currently known about shallow water biogeography from this region. Focusing on temperate rocky reefs in the Taranaki Region of New Zealand, this thesis investigates the biogeography of sponge assemblages across broad spatial scales (hundreds of kms). It examines ecological processes, linked to trophic cascades to further our understanding of factors affecting the distribution and abundance of sponge communities at smaller spatial scales (tens of kms), with particular focus on the effects of land derived catchment discharges. A combination of Linnean taxonomic classification and operational taxonomic units (OTUs) were used to identify sponge species and highlight locations with unique assemblages of taxa at regional scales. To achieve this a program of taxonomic revision was required, including the redescription of a collection of common sponge species Aaptos globosa, Acanthoclada prostrata, Biemna rufescens, Halichondria (Halichondria) moorei, and Stylissa haurakii. These results progress the modern requirements of these species description from those described in early New Zealand literature that lacked adequate and detailed descriptions and in situ images. As a precursor to the Taranaki ecological survey, a revision of sponge species from the Bay of Plenty was conducted. This study examined the family Dysideiidae and describes two novel sponge species (Dysidea tuapokere and Dysidea teawanui), from Tauranga Harbour, in the Bay of Plenty, and validated five species within New Zealand’s Exclusive Economic Zone, Dysidea cristagalli, D. hirciniformis, D. navicularis, D. ramsayi, D. spiculivora. Dysidea fragilis is now considered to be invalid, and D. elegans is considered unrecognisable. Further taxonomic assignment of Taranaki sponge fauna is required and is ongoing. The set of qualitative, but validated data now provides a baseline survey of spatial heterogeneity in terms of the distribution of sponge taxa across the Taranaki and central west coast North Island region. Biogeographic data showed that the geographic range of sponge species is highly patchy and supports the hypothesis that species assemblages at the Pariokariwa Reef (now part of the Parininihi Marine Reserve) are highly unique. Results from this investigation provide a baseline species diversity estimate within Taranaki and reveal Waitara reefs as biologically significant areas with the second largest number of unique sponge species out of all six locations surveyed. These findings have important implications for developing conservation strategies for marine fauna in Taranaki, highlighting locations of significant biological diversity, abundance, and uniqueness. Potential drivers for this biogeographic patchiness are addressed in subsequent sections of the research program. Environmental factors influencing the distribution and abundance of marine sponges as described around the Taranaki region (Waitara reefs, Waiwhakaiho reefs, and Hangatahua Reef) over a three-year period were examined. There was a greater diversity and abundance of sponges at rocky reef stations that were in closer proximity to river mouths. This provides evidence that terrestrially derived organic matter from rivers may be supporting a greater assemblage and biomass of marine taxa on coastal rocky reefs, despite the increased sediment input from some of the catchments examined. The size of sponges in terms of volume were greater at coastal stations positioned next to rivers with a relatively large coverage of indigenous forests as opposed to reef systems adjacent to modified and urbanized catchments. An examination of the effects of several physico-chemical factors including turbidity, total phosphorus, total nitrogen, and Escherichia coli presence (an indicator of human and agricultural inputs), revealed that sponges appear to be resilient to certain degrees of exposure to these variables. There appears to be a negative correlation between effects of turbidity and nutrient level on sponges generally, with high levels of turbidity associated with decline in sponge characterised reef habitat. In contrast, some sponge species appear to thrive in turbid conditions that have high levels of nutrients in a form that they can profit from metabolically. Therefore, the quality of the catchment system can directly influence the quality of the nearshore benthic sponge assemblage. Finally, the critical role of marine sponges in processing terrestrially derived carbon was investigated by examining the proportional contribution of food from various sources to the diet of sponges on temperate rocky reefs. Our isotope analysis revealed that marine food sources including coastal seston (>1.2–400 µm), coastal GFX (combined fine and coarse glass fibre filter samples >0.7–1.2 µm), and coastal bacteria (>0.2–0.7 µm) contributed the largest proportion to the diet of coastal sponges at 60–73% across our three stations. This was followed by a relatively large proportion of terrestrially derived food sources including freshwater seston (>1.2–400 µm), freshwater GFX (>0.7–1.2 µm), and freshwater bacteria (>0.2–0.7 µm) at 27–40%. Sponges are therefore argued to play significant roles in linking terrestrial and marine food webs, and associated carbon cycles, via recycling terrestrially derived carbon and nitrogen. Combining our estimated C retention rate with the isotopically-determined contribution of foods from terrestrial sources to the diet of coastal sponges (27–40%), suggests that sponge meadows may retain approximately 117–173 kg of terrestrially-derived C km−2 day In summary, the biogeographic distribution of sponge fauna that characterise nearshore reef environments around the Taranaki region has been described at large and small scales. This provides a baseline for future surveillance of nearshore ecological condition over ensuing years. This study highlights the importance of undertaking taxonomic precursor studies of regional sponge fauna to allow researchers to gain the taxonomic expertise to conductor wider scale ecological studies of this diverse phylum. The distribution of assemblages in Taranaki is particularly patchy with several highly unique communities being identified. These findings are important to the management of sponge fauna and the systems that support them. Land-based activities and ground cover and use are having direct effects on coastal reef communities, as seen in the distribution, abundance, and sizes of sponge species over large-scale environmental gradients. An important role of sponges in processing terrestrial derived carbon has been identified. The implications of this are that sponges are ingesting terrestrially derived organic matter on temperate reefs and potentially turning it into sources of food in the form of biomass, and cell shedding. This study shows that rivers and their derived food sources are important for coastal sponge communities. A unique assemblage of sponges was found close to a catchment system that discharges large quantities of sediment from significantly degraded hinterland suggesting that some taxonomic groups can thrive in areas where other species may struggle hence, species specific studies of how certain taxa adapt to multiple environmental stressors is suggested. Future studies should endeavour to further this research and expand our current understanding of sponge fauna as they constitute useful sentinel organisms

The Taxonomy of Demospongiae (Porifera) from the Bay of Plenty, New Zealand - Connecting Linnaean and Phylogenetic Classification

The ability to accurately identify species is prerequisite for assessing levels of biological diversity and a fundamental requirement for ecological research. In recent times, there has been a shortfall in biologists who practice traditional alpha taxonomy, leading to difficulties in assessment of biodiversity in some taxonomic groups. The use of a molecular DNA barcoding approach has been suggested as a tool that can be used to complement and accelerate traditional alpha taxonomy, without supplanting or invalidating existing taxonomic practices. Two different techniques were used to identify organisms, molecular and alpha taxonomy. This thesis addressees several questions relating to sponge systematics. Research was focused on three areas; (1) record sponge biodiversity from the Bay of Plenty region, (2) undertake a systematic revision of the fauna correlating ‘historical’ taxonomy with a modern phylogenetic assessment (3) determine whether identifications based on genetic barcoding are congruent with those produced via traditional morphological methods (alpha taxonomy), and to assess the use of molecular techniques for Demospongiae species identifications. This was the first focused research on sponge diversity in the Bay of Plenty region. Fifty five species are described in this research. Of these, there are up to three new families, three new genera and thirty four species which are un-described and deemed new to science. However, a more conservative estimate with grouped specimens suggests that there is a minimum of at least one new family, one new genus, and eighteen new species that are un-described and deemed new to science. In summary, we conclude that for New Zealand Demospongiae, sequence variation present in the barcoding region of the COI gene is sufficient to allow for the identification individuals to their nominate species. The use of mtDNA barcoding can without doubt complement classical morphological taxonomy and accelerate the identification process and may in fact revive an interest classical morphological taxonomy

Determinants of researchgate (rg) score for the top 100 of Latin American universities at webometrics

This paper has the purpose of establishing the variables that explain the behavior of ResearchGate for the Top100 Latin American universities positioned in Webometrics database for January 2017. For this purpose, a search was carried out to get information about postgraduate courses and professors at the institutional websites and social networks, obtaining documents registered in Google Scholar. For the data analysis, the econometric technique of ordinary least squares was applied, a cross-sectional study for the year 2017 was conducted, and the individuals studied were the first 100 Latin American universities, obtaining a coefficient of determination of 73.82%. The results show that the most significant variables are the number of programs, the number of teacher’s profiles registered in Google Scholar, the number of subscribers to the institutional YouTube channel, and the GDP per capita of the university origin country. Variables such as (i) number of undergraduate programs, (ii) number of scientific journals; (iii) number of documents found under the university domain; (iv) H-index of the 1st profile of researcher at the university; (vi) number of members of the institution; (v) SIR Scimago ranking of Higher Education Institutions; (vi) number of tweets published in the institutional account; (vii) number of followers in the Twitter institutional account; (vii) number of “likes” given to the institutional count, were not significantCorporación Universitaria Minuto de Dios, Fundación Universitaria Konrad Lorenz, Universidad Nacional Experimental Politécnica, Universidad Centroccidental “Lisandro Alvarado, Universidad de la Costa

Size at birth and cognitive ability in late life: A systematic review

Recent evidence suggests that growth restriction in utero may lead to neurocognitive disorders in late life, either through impaired brain development or adverse metabolic programming

Geographic constraints on social network groups

Social groups are fundamental building blocks of human societies. While our social interactions have always been constrained by geography, it has been impossible, due to practical difficulties, to evaluate the nature of this restriction on social group structure. We construct a social network of individuals whose most frequent geographical locations are also known. We also classify the individuals into groups according to a community detection algorithm. We study the variation of geographical span for social groups of varying sizes, and explore the relationship between topological positions and geographic positions of their members. We find that small social groups are geographically very tight, but become much more clumped when the group size exceeds about 30 members. Also, we find no correlation between the topological positions and geographic positions of individuals within network communities. These results suggest that spreading processes face distinct structural and spatial constraints.Comment: 10 pages, 5 figure

Activation of Human Stearoyl-Coenzyme A Desaturase 1 Contributes to the Lipogenic Effect of PXR in HepG2 Cells

The pregnane X receptor (PXR) was previously known as a xenobiotic receptor. Several recent studies suggested that PXR also played an important role in lipid homeostasis but the underlying mechanism remains to be clearly defined. In this study, we found that rifampicin, an agonist of human PXR, induced lipid accumulation in HepG2 cells. Lipid analysis showed the total cholesterol level increased. However, the free cholesterol and triglyceride levels were not changed. Treatment of HepG2 cells with rifampicin induced the expression of the free fatty acid transporter CD36 and ABCG1, as well as several lipogenic enzymes, including stearoyl-CoA desaturase-1 (SCD1), long chain free fatty acid elongase (FAE), and lecithin-cholesterol acyltransferase (LCAT), while the expression of acyl:cholesterol acetyltransferase(ACAT1) was not affected. Moreover, in PXR over-expressing HepG2 cells (HepG2-PXR), the SCD1 expression was significantly higher than in HepG2-Vector cells, even in the absence of rifampicin. Down-regulation of PXR by shRNA abolished the rifampicin-induced SCD1 gene expression in HepG2 cells. Promoter analysis showed that the human SCD1 gene promoter is activated by PXR and a novel DR-7 type PXR response element (PXRE) response element was located at -338 bp of the SCD1 gene promoter. Taken together, these results indicated that PXR activation promoted lipid synthesis in HepG2 cells and SCD1 is a novel PXR target gene. © 2013 Zhang et al

Altered differentiation of endometrial mesenchymal stromal fibroblasts is associated with endometriosis susceptibility.

Cellular development is tightly regulated as mature cells with aberrant functions may initiate pathogenic processes. The endometrium is a highly regenerative tissue, shedding and regenerating each month. Endometrial stromal fibroblasts are regenerated each cycle from mesenchymal stem cells and play a pivotal role in endometriosis, a disease characterised by endometrial cells that grow outside the uterus. Why the cells of some women are more capable of developing into endometriosis lesions is not clear. Using isolated, purified and cultured endometrial cells of mesenchymal origin from 19 women with (n = 10) and without (n = 9) endometriosis we analysed the transcriptome of 33,758 individual cells and compared these to clinical characteristics and in vitro growth profiles. We show purified mesenchymal cell cultures include a mix of mesenchymal stem cells and two endometrial stromal fibroblast subtypes with distinct transcriptomic signatures indicative of varied progression through the differentiation processes. The fibroblast subgroup characterised by incomplete differentiation was predominantly (81%) derived from women with endometriosis and exhibited an altered in vitro growth profile. These results uncover an inherent difference in endometrial cells of women with endometriosis and highlight the relevance of cellular differentiation and its potential to contribute to disease susceptibility

Severe childhood malaria syndromes defined by plasma proteome profiles

BACKGROUND Cerebral malaria (CM) and severe malarial anemia (SMA) are the most serious life-threatening clinical syndromes of Plasmodium falciparum infection in childhood. Therefore it is important to understand the pathology underlying the development of CM and SMA, as opposed to uncomplicated malaria (UM). Different host responses to infection are likely to be reflected in plasma proteome-patterns that associate with clinical status and therefore provide indicators of the pathogenesis of these syndromes. METHODS AND FINDINGS Plasma and comprehensive clinical data for discovery and validation cohorts were obtained as part of a prospective case-control study of severe childhood malaria at the main tertiary hospital of the city of Ibadan, an urban and densely populated holoendemic malaria area in Nigeria. A total of 946 children participated in this study. Plasma was subjected to high-throughput proteomic profiling. Statistical pattern-recognition methods were used to find proteome-patterns that defined disease groups. Plasma proteome-patterns accurately distinguished children with CM and with SMA from those with UM, and from healthy or severely ill malaria-negative children. CONCLUSIONS We report that an accurate definition of the major childhood malaria syndromes can be achieved using plasma proteome-patterns. Our proteomic data can be exploited to understand the pathogenesis of the different childhood severe malaria syndromes

Charcoal does not change the decomposition rate of mixed litters in a mineral cambisol: a controlled conditions study

It has been recently shown that the presence of charcoal might promote humus decomposition in the soil. We investigated the decomposition rate of charcoal and litters of different biochemical quality mixed together in a soil incubation under controlled conditions. Despite the large range of organic substrate quality used in this study, we did not find any difference in the decomposition between the average of two individual substrates decomposing separately and the same substrates mixed together. We concluded that charcoal does not always promote other organic matter decomposition and that its particular effect might depend on various factors, for example, soil properties

Advances in small lasers

M.T.H was supported by an Australian Research council Future Fellowship research grant for this work. M.C.G. is grateful to the Scottish Funding Council (via SUPA) for financial support.Small lasers have dimensions or modes sizes close to or smaller than the wavelength of emitted light. In recent years there has been significant progress towards reducing the size and improving the characteristics of these devices. This work has been led primarily by the innovative use of new materials and cavity designs. This Review summarizes some of the latest developments, particularly in metallic and plasmonic lasers, improvements in small dielectric lasers, and the emerging area of small bio-compatible or bio-derived lasers. We examine the different approaches employed to reduce size and how they result in significant differences in the final device, particularly between metal- and dielectric-cavity lasers. We also present potential applications for the various forms of small lasers, and indicate where further developments are required.PostprintPeer reviewe