Review of the Marine Monitoring Program (MMP)

The Marine Monitoring Program (MMP) monitors the condition of inshore water quality and aims to link this to changes in the health of key inshore environments (coral reefs and seagrass). This report provides a review of each of the 5 programs based on the best available information that was provided by the MMP providers at the time of the review

Different cell populations are inducible by BMP-2 covalently covered Bioverit® II implants in rabbit subcutis and middle ear

To optimize the function of implants the formation of surrounding connective tissue should be adapted in dependence to the mechanical conditions. Therefore, with nanostructured silica coated Bioverit® II implants were only partly reacted with recombinant BMP-2. The histology was compared 28, 84 and 301 days after implantation in the rabbit middle ear and subcutis, respectively. The whole tissue blocks were embedded in Epon, sequentially grinded, stained with Toluidine Blue O and Eosin G. The granulation tissue covering the implants varies related to cell types, cell amounts, extracellular matrix and vessels. Whereas the high cell density and the angiogenesis predominated in the subcutis, the formation of new bone could only be recognized in the scar around the implants in the middle ear.SFB/599/project D1

Analysis of gene order data supports vertical inheritance of the leukotoxin operon and genome rearrangements in the 5' flanking region in genus Mannheimia

BACKGROUND: The Mannheimia subclades belong to the same bacterial genus, but have taken divergent paths toward their distinct lifestyles. For example, M. haemolytica + M. glucosida are potential pathogens of the respiratory tract in the mammalian suborder Ruminantia, whereas M. ruminalis, the supposed sister group, lives as a commensal in the ovine rumen. We have tested the hypothesis that vertical inheritance of the leukotoxin (lktCABD) operon has occurred from the last common ancestor of genus Mannheimia to any ancestor of the diverging subclades by exploring gene order data. RESULTS: We examined the gene order in the 5' flanking region of the leukotoxin operon and found that the 5' flanking gene strings, hslVU-lapB-artJ-lktC and xylAB-lktC, are peculiar to M. haemolytica + M. glucosida and M. granulomatis, respectively, whereas the gene string hslVU-lapB-lktC is present in M. ruminalis, the supposed sister group of M. haemolytica + M. glucosida, and in the most ancient subclade M. varigena. In M. granulomatis, we found remnants of the gene string hslVU-lapB-lktC in the xylB-lktC intergenic region. CONCLUSION: These observations indicate that the gene string hslVU-lapB-lktC is more ancient than the hslVU-lapB-artJ-lktC and xylAB-lktC gene strings. The presence of (remnants of) the ancient gene string hslVU-lapB-lktC among any subclades within genus Mannheimia supports that it has been vertically inherited from the last common ancestor of genus Mannheimia to any ancestor of the diverging subclades, thus reaffirming the hypothesis of vertical inheritance of the leukotoxin operon. The presence of individual 5' flanking regions in M. haemolytica + M. glucosida and M. granulomatis reflects later genome rearrangements within each subclade. The evolution of the novel 5' flanking region in M. haemolytica + M. glucosida resulted in transcriptional coupling between the divergently arranged artJ and lkt promoters. We propose that the chimeric promoter have led to high level expression of the leukotoxin operon which could explain the increased potential of certain M. haemolytica + M. glucosida strains to cause a particular type of infection

The challenge of modelling nitrogen management at the field scale : simulation and sensitivity analysis of N2O fluxes across nine experimental sites using DailyDayCent

Peer reviewedPublisher PD

Fine-suspended sediment and water budgets for a large, seasonally dry tropical catchment: Burdekin River catchment, Queensland, Australia

The Burdekin River catchment (~130,400 km2) is a seasonally dry tropical catchment located in north-east Queensland, Australia. It is the single largest source of suspended sediment to the Great Barrier Reef (GBR). Fine sediments are a threat to ecosystems on the GBR where they contribute to elevated turbidity (reduced light), sedimentation stress, and potential impacts from the associated nutrients. Suspended sediment data collected over a 5 year period were used to construct a catchment-wide sediment source and transport budget. The Bowen River tributary was identified as the major source of end-of-river suspended sediment export, yielding an average of 530 t km−2 yr−1 during the study period. Sediment trapping within a large reservoir (1.86 million ML) and the preferential transport of clays and fine silts downstream of the structure were also examined. The data reveal that the highest clay and fine silt loads—which are of most interest to environmental managers of the GBR—are not always sourced from areas that yield the largest total suspended sediment load (i.e., all size fractions). Our results demonstrate the importance of incorporating particle size into catchment sediment budget studies undertaken to inform management decisions to reduce downstream turbidity and sedimentation. Our data on sediment source, reservoir influence, and subcatchment and catchment yields will improve understandings of sediment dynamics in other tropical catchments, particularly those located in seasonally wet-dry tropical savannah/semiarid climates. The influence of climatic variability (e.g., drought/wetter periods) on annual sediment loads within large seasonally dry tropical catchments is also demonstrated by our data

Evolution of the leukotoxin promoter in genus Mannheimia

<b>Background</b>: The <i>Mannheimia</i> species encompass a wide variety of bacterial lifestyles, including opportunistic pathogens and commensals of the ruminant respiratory tract, commensals of the ovine rumen, and pathogens of the ruminant integument. Here we present a scenario for the evolution of the leukotoxin promoter among representatives of the five species within genus <i>Mannheimia</i>. We also consider how the evolution of the leukotoxin operon fits with the evolution and maintenance of virulence. <b>Results</b>: The alignment of the intergenic regions upstream of the leukotoxin genes showed significant sequence and positional conservation over a 225-bp stretch immediately proximal to the transcriptional start site of the <i>lktC</i> gene among all <i>Mannheimia</i> strains. However, in the course of the <i>Mannheimia</i> genome evolution, the acquisition of individual noncoding regions upstream of the conserved promoter region has occurred. The rate of evolution estimated branch by branch suggests that the conserved promoter may be affected to different extents by the types of natural selection that potentially operate in regulatory regions. Tandem repeats upstream of the core promoter were confined to <i>M. haemolytica</i> with a strong association between the sequence of the repeat units, the number of repeat units per promoter, and the phylogenetic history of this species. <b>Conclusion</b>: The mode of evolution of the intergenic regions upstream of the leukotoxin genes appears to be highly dependent on the lifestyle of the bacterium. Transition from avirulence to virulence has occurred at least once in <i>M. haemolytica</i> with some evolutionary success of bovine serotype A1/A6 strains. Our analysis suggests that changes in <i>cis</i>-regulatory systems have contributed to the derived virulence phenotype by allowing phase-variable expression of the leukotoxin protein. We propose models for how phase shifting and the associated virulence could facilitate transmission to the nasopharynx of new hosts

Many-body localization and thermalization in the full probability distribution function of observables

We investigate the relation between thermalization following a quantum quench and many-body localization in quasiparticle space in terms of the long-time full distribution function of physical observables. In particular, expanding on our recent work [E. Canovi {\em et al.}, Phys. Rev. B {\bf 83}, 094431 (2011)], we focus on the long-time behavior of an integrable XXZ chain subject to an integrability-breaking perturbation. After a characterization of the breaking of integrability and the associated localization/delocalization transition using the level spacing statistics and the properties of the eigenstates, we study the effect of integrability-breaking on the asymptotic state after a quantum quench of the anisotropy parameter, looking at the behavior of the full probability distribution of the transverse and longitudinal magnetization of a subsystem. We compare the resulting distributions with those obtained in equilibrium at an effective temperature set by the initial energy. We find that, while the long time distribution functions appear to always agree {\it qualitatively} with the equilibrium ones, {\it quantitative} agreement is obtained only when integrability is fully broken and the relevant eigenstates are diffusive in quasi-particle space.Comment: 18 pages, 11 figure

Sampling re-design increases power to detect change in the Great Barrier Reef’s inshore water quality

Monitoring programs are fundamental to understanding the state and trend of aquatic ecosystems. Sampling designs are a crucial component of monitoring programs and ensure that measurements evaluate progress toward clearly stated management objectives, which provides a mechanism for adaptive management. Here, we use a well-established marine monitoring program for inshore water quality in the Great Barrier Reef (GBR), Australia to investigate whether a sampling re-design has increased the program’s capacity to meet its primary objectives. Specifically, we use bootstrap resampling to assess the change in statistical power to detect temporal water quality trends in a 15-year inshore marine water quality data set that includes data from both before and after the sampling re-design. We perform a comprehensive power analysis for six water quality analytes at four separate study areas in the GBR Marine Park and find that the sampling re-design (i) increased power to detect trends in 23 of the 24 analyte-study area combinations, and (ii) resulted in an average increase in power of 34% to detect increasing or decreasing trends in water quality analytes. This increase in power is attributed more to the addition of sampling locations than increasing the sampling rate. Therefore, the sampling re-design has substantially increased the capacity of the program to detect temporal trends in inshore marine water quality. Further improvements in sampling design need to focus on the program’s capability to reliably detect trends within realistic timeframes where inshore improvements to water quality can be expected to occur