Visualisation of the copepod female reproductive system using confocal laser scanning microscopy and two-photon microscopy

We examined mating behaviour in the harpacticoid copepod Tube battagliai Volkmann-Rocco, 1972, in particular the process of delivering spermatophore seminal contents to the female urosome. Labelling using 4′6′ diamidino-2-phenylindole (DAPI) coupled with two-photon confocal laser scanning microscopy successfully visualised the spermatophore and female internal reproductive system. Sections of the female urosome were imaged to examine seminal fluid stores. The female tissues were found to auto-fluoresce as red emission under green excitation, requiring no additional tissue labelling. DAPI-labelled seminal fluid stores were identified within the female reproductive system. The details observed agreed with previous descriptions of copepod reproductive anatomy and of spermatophores. Specimens cultured under pH 8.10 and a simulated ocean acidification scenario (pH 7.67) were compared for changes in reproductive anatomy and spermatophore size and site attachment. No differences were observed in spermatophore attachment or the female reproductive system but spermatophore size was reduced significantly at pH 7.67 compared with pH 8.10. This size reduction was, however, in proportion to an overall reduction in female body size at reduced pH. Confocal microscopy is shown here to be a valuable tool to investigate detailed reproductive processes in copepods

Partially filled stripes in the two dimensional Hubbard model: statics and dynamics

The internal structure of stripes in the two dimensional Hubbard model is studied by going beyond the Hartree-Fock approximation. Partially filled stripes, consistent with experimental observations, are stabilized by quantum fluctuations, included through the Configuration Interaction method. Hopping of short regions of the stripes in the transverse direction is comparable to the bare hopping element. The integrated value of $n_{\bf \vec{k}}$ compares well with experimental results.Comment: 4 page

Multi-locus sequence typing of African swine fever viruses from endemic regions of Kenya and Eastern Uganda (2011–2013) reveals rapid B602L central variable region evolution

The central variable region (CVR) within the B602L gene of the African swine fever virus (ASFV) is highly polymorphic within the 23 ASFV genotypes defined by sequencing of the C-terminal end of the p72 locus. Sequencing the p54 gene further discriminates ASFV genotypes that are conserved at the p72 locus. Variation in the thymidine kinase locus is a novel additional tool for ASFV genotyping whose application for this purpose is described for the first time herein. We evaluated genetic variation at these four polymorphic loci in 39 ASFV isolates obtained from outbreaks in Kenya and a region of Eastern Uganda between 2011 and 2013. Analysis of the p72 and p54 loci revealed high genetic conservation among these isolates; all clustered within p72 genotype IX and were similar to isolates associated with earlier outbreaks in East Africa. The thymidine kinase gene of the Kenyan isolates in this study were distinct relative to Southern African isolates and synonymous substitutions were observed among viruses from central Kenya. Analysis of the CVR within the B602L gene revealed two previously unknown polymorphisms that were restricted to Western Kenya and Eastern Uganda. A novel variant was revealed within CVR subgroup XXIV and a novel CVR subgroup XXIVa that contains tetrameric repeat F which has previously only been associated with p72 genotype I, was also identified for the first time in East Africa. Phylogeographic analysis of isolates based on CVR polymorphisms revealed rapid evolution and dissemination of variants present within ASFV genotype IX in East Africa.Supplementary Fig. 1 Phylogenetic tree based on the C-terminal end of the p72 protein comparing the Kenyan and Eastern Uganda ASFV isolates collected in this study (●) between 2011 and 2013 with other African swine fever virus isolates belonging to ASFV genotypes IX and X. A total of 91 distinct taxa were used to infer a Minimum Evolution tree and the percentage of replicate trees in which the associated taxa clustered together in a bootstrap analysis (1000 replicates) are shown adjacent to the branches. The tree is drawn to scale; with branch lengths represented using the same units as the evolutionary distances used to infer the phylogenetic tree.Supplementary Fig. 2 Phylogenetic tree highlighting genetic conservation within the E183L gene within the Kenyan and Eastern Uganda ASFV isolates in comparison to reference nucleotide sequences obtained from GenBank.Supplementary Fig. 3 Amino acid sequences translated using SeqPublish highlighting synonymous substitutions within the thymidine kinase gene in the ASFV isolates obtained from Central Kenya.Supplementary Table 1 Summary of the data obtained from ASFV isolates selected for genotyping in this study and the respective GenBank accession numbers.The Australian aid (AusAID) and the Commonwealth Scientific and Industrial Research Organization (CSIRO) under the Special Africa Program.http://link.springer.com/journal/11262hj2018Mammal Research InstituteZoology and Entomolog

Through-Thickness Residual Stress Profiles in Austenitic Stainless Steel Welds: A Combined Experimental and Prediction Study

Economic and safe management of nuclear plant components relies on accurate prediction of welding-induced residual stresses. In this study, the distribution of residual stress through the thickness of austenitic stainless steel welds has been measured using neutron diffraction and the contour method. The measured data are used to validate residual stress profiles predicted by an artificial neural network approach (ANN) as a function of welding heat input and geometry. Maximum tensile stresses with magnitude close to the yield strength of the material were observed near the weld cap in both axial and hoop direction of the welds. Significant scatter of more than 200 MPa was found within the residual stress measurements at the weld center line and are associated with the geometry and welding conditions of individual weld passes. The ANN prediction is developed in an attempt to effectively quantify this phenomenon of ‘innate scatter’ and to learn the non-linear patterns in the weld residual stress profiles. Furthermore, the efficacy of the ANN method for defining through-thickness residual stress profiles in welds for application in structural integrity assessments is evaluated

A function-based typology for Earth’s ecosystems

As the United Nations develops a post-2020 global biodiversity framework for the Convention on Biological Diversity, attention is focusing on how new goals and targets for ecosystem conservation might serve its vision of ‘living in harmony with nature’1,2. Advancing dual imperatives to conserve biodiversity and sustain ecosystem services requires reliable and resilient generalizations and predictions about ecosystem responses to environmental change and management3. Ecosystems vary in their biota4, service provision5 and relative exposure to risks6, yet there is no globally consistent classification of ecosystems that reflects functional responses to change and management. This hampers progress on developing conservation targets and sustainability goals. Here we present the International Union for Conservation of Nature (IUCN) Global Ecosystem Typology, a conceptually robust, scalable, spatially explicit approach for generalizations and predictions about functions, biota, risks and management remedies across the entire biosphere. The outcome of a major cross-disciplinary collaboration, this novel framework places all of Earth’s ecosystems into a unifying theoretical context to guide the transformation of ecosystem policy and management from global to local scales. This new information infrastructure will support knowledge transfer for ecosystem-specific management and restoration, globally standardized ecosystem risk assessments, natural capital accounting and progress on the post-2020 global biodiversity framework

The ‘mosaic habitat’ concept in human evolution: past and present

The habitats preferred by hominins and other species are an important theme in palaeoanthropology, and the ‘mosaic habitat’ (also referred to as habitat heterogeneity) has been a central concept in this regard for the last four decades. Here we explore the development of this concept – loosely defined as a range of different habitat types, such as woodlands, riverine forest and savannah within a limited spatial area– in studies of human evolution in the last sixty years or so. We outline the key developments that took place before and around the time when the term ‘mosaic’ came to wider palaeoanthropological attention. To achieve this we used an analysis of the published literature, a study of illustrations of hominin evolution from 1925 onwards and an email survey of senior researchers in palaeoanthropology and related fields. We found that the term mosaic starts to be applied in palaeoanthropological thinking during the 1970’s due to the work of a number of researchers, including Karl Butzer and Glynn Isaac , with the earliest usage we have found of ‘mosaic’ in specific reference to hominin habitats being by Adriaan Kortlandt (1972). While we observe a steady increase in the numbers of publications reporting mosaic palaeohabitats, in keeping with the growing interest and specialisation in various methods of palaeoenvironmental reconstruction, we also note that there is a lack of critical studies that define this habitat, or examine the temporal and spatial scales associated with it. The general consensus within the field is that the concept now requires more detailed definition and study to evaluate its role in human evolution

Recurrent Coding Sequence Variation Explains only A Small Fraction of the Genetic Architecture of Colorectal Cancer

Whilst common genetic variation in many non-coding genomic regulatory regions are known to impart risk of colorectal cancer (CRC), much of the heritability of CRC remains unexplained. To examine the role of recurrent coding sequence variation in CRC aetiology, we genotyped 12,638 CRCs cases and 29,045 controls from six European populations. Single-variant analysis identified a coding variant (rs3184504) in SH2B3 (12q24) associated with CRC risk (OR = 1.08, P = 3.9 × 10-7), and novel damaging coding variants in 3 genes previously tagged by GWAS efforts; rs16888728 (8q24) in UTP23 (OR = 1.15, P = 1.4 × 10-7); rs6580742 and rs12303082 (12q13) in FAM186A (OR = 1.11, P = 1.2 × 10-