Detection of a glitch in the pulsar J1709-4429

We report the detection of a glitch event in the pulsar J1709$-$4429 (also known as B1706$-$44) during regular monitoring observations with the Molonglo Observatory Synthesis Telescope (UTMOST). The glitch was found during timing operations, in which we regularly observe over 400 pulsars with up to daily cadence, while commensally searching for Rotating Radio Transients, pulsars, and FRBs. With a fractional size of $\Delta\nu/\nu \approx 52.4 \times10^{-9}$, the glitch reported here is by far the smallest known for this pulsar, attesting to the efficacy of glitch searches with high cadence using UTMOST.Comment: 3 pages, 1 figur

Different Conceptualizations of River Basins to Inform Management of Environmental Flows

Environmental flows are a critical tool for addressing ecological degradation of river systems brought about by increasing demand for limited water resources. The importance of basin scale management of environmental flows has long been recognized as necessary if managers are to achieve social, economic, and environmental objectives. The challenges in managing environmental flows are now emerging and include the time taken for changes to become manifest, uncertainty around large-scale responses to environmental flows and that most interventions take place at smaller scales. The purpose of this paper is to describe how conceptual models can be used to inform the development, and subsequent evaluation of ecological objectives for environmental flows at the basin scale. Objective setting is the key initial step in environmental flow planning and subsequently provides a foundation for effective adaptive management. We use the implementation of the Basin Plan in Australia's Murray-Darling Basin (MDB) as an example of the role of conceptual models in the development of environmental flow objectives and subsequent development of intervention monitoring and evaluation, key steps in the adaptive management of environmental flows. The implementation of the Basin Plan was based on the best science available at the time, however, this was focused on ecosystem responses to environmental flows. The monitoring has started to reveal that limitations in our conceptualization of the basin may reduce the likelihood of achieving of basin scale objectives. One of the strengths of the Basin Plan approach was that it included multiple conceptual models informing environmental flow management. The experience in the MDB suggests that the development of multiple conceptual models at the basin scale will help increase the likelihood that basin-scale objectives will be achieved

Landscape of somatic single nucleotide variants and indels in colorectal cancer and impact on survival

Colorectal cancer (CRC) is a biologically heterogeneous disease. To characterize its mutational profile, we conduct targeted sequencing of 205 genes for 2,105 CRC cases with survival data. Our data shows several findings in addition to enhancing the existing knowledge of CRC. We identify PRKCI, SPZ1, MUTYH, MAP2K4, FETUB, and TGFBR2 as additional genes significantly mutated in CRC. We find that among hypermutated tumors, an increased mutation burden is associated with improved CRC-specific survival (HR=0.42, 95% CI: 0.21-0.82). Mutations in TP53 are associated with poorer CRC-specific survival, which is most pronounced in cases carrying TP53 mutations with predicted 0% transcriptional activity (HR=1.53, 95% CI: 1.21-1.94). Furthermore, we observe differences in mutational frequency of several genes and pathways by tumor location, stage, and sex. Overall, this large study provides deep insights into somatic mutations in CRC, and their potential relationships with survival and tumor features. Large scale sequencing study is of paramount importance to unravel the heterogeneity of colorectal cancer. Here, the authors sequenced 205 cancer genes in more than 2000 tumours and identified additional mutated driver genes, determined that mutational burden and specific mutations in TP53 are associated with survival odds

Finishing the euchromatic sequence of the human genome

The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead

Beyond a ‘just add water’ perspective:environmental water management for vegetation outcomes

Practitioners of environmental water management (EWM) operate within complex social-ecological systems. We sought to better understand this complexity by investigating the management of environmental water for vegetation outcomes. We conducted an online survey to determine practitioners’ perspectives on EWM for non-woody vegetation (NWV) in the Murray-Darling Basin, Australia with regards to: i) desirable outcomes and benefits; ii) influencing factors and risks; iii) challenges of monitoring and evaluation, and iv) improving outcomes. Survey participants indicated that EWM aims to achieve outcomes by improving or maintaining vegetation attributes and the functions and values these provide. Our study reveals that EWM practitioners perceive NWV management in a holistic and highly interconnected way. Numerous influencing factors as well as risks and challenges to achieving outcomes were identified by participants, including many unrelated to water. Survey responses highlighted six areas to improve EWM for NWV outcomes: (1) flow regimes, (2) vegetation attributes, (3) non-flow drivers, (4) management-governance considerations, (5) functions and values, and (6) monitoring, evaluation and research. These suggest a need for more than ‘just water’ when it comes to the restoration and management of NWV. Our findings indicate more integrated land-water governance and management is urgently required to address the impacts of non-flow drivers such as pest species, land-use change and climate change. The results also indicate that inherent complexity in EWM for ecological outcomes has been poorly addressed, with a need to tackle social-ecological constraints to improve EWM outcomes.</p