Plankton dynamics: observed and modelled responses to physical conditions in Prince William Sound,Alaska

Plankton populations in Prince William Sound, Alaska, exhibited pronounced seasonal, annual and longer‐period variability in composition and standing stock in response to physically influenced differences in nutrient availability, and possibly currents that modify local biomass by exchanges with water from the bordering Gulf of Alaska. During springs in which early, strong physical stratification developed, intense, short‐lived phytoplankton blooms occurred. These blooms had relatively short residence times in the water column. In contrast, during springs in which slower, weaker stratification developed, phytoplankton blooms were prolonged and took longer to peak. These slower blooms prolonged the period of phytoplankton production, prolonged interaction with the springtime grazing community and led to the incorporation of more organic matter into pelagic food webs. A coupled biological‐physical simulation of plankton production was used to examine the implications of seasonally varying air and mixed‐layer temperatures, surface winds and incident light on the timing, duration, annual production and standing stock of plankton. Our modelling results reproduced the observed characteristics of the springtime production cycle, and the magnitude of zooplankton stocks for the period 1992–97 but not for 1981–91. These results suggest that for most of the 1990s, bottom‐up influences on nutrient supplies controlled levels of primary consumers, whereas for the 11 years before that, other unknown factors dominated this process. We present the results of a comprehensive, multiyear study of relationships between plankton and physical limitations, and a retrospective analysis of earlier conditions to explore the possible causes for these differences.     

North Pacific Atmospheric and SST Anomalies in 1997: Links to ENSO?

In the summer of 1997, positive sea surface temperature anomalies (SSTA) extended across the Gulf of Alaska (GOA) and into the eastern Bering Sea (EBS). The SSTA in the EBS are at least in part due to atmospheric causes. Anomalously high 925 mb temperatures and 700 mb geopotential heights and low 925 mb relative humidities, and hence decreased low cloud cover, occurred over the region during April to August. This resulted in enhanced warming of the GOA and EBS owing to increased insolation. The anomalous solar heating was particularly great in the EBS from mid-May to mid-July. The pattern of positive 700 mb height anomalies for April to August 1997 is similar to its counterpart formed by compositing the April to August anomalies that occurred during previous El Niños. The positive equatorial SSTA for 1997 was one of the strongest on record for summer months. The existence of an equatorial/high-latitude connection and the strength of the summer equatorial SSTA in 1997 suggest an El Niño/Southern Oscillation (ENSO) influence in the GOA and EBS. The warming in the Bering Sea and North Pacific during summer 1997 appears to be due in part to the confluence of three meteorological factors which favoured clear skies. There was not only an El Niño influence, but also a decadal trend toward higher 700 mb geopotential heights and a particularly strong blocking ridge weather pattern over the Gulf of Alaska in May.     

Learned predator recognition and antipredator responses in fishes

Early research into the causes of geographical variation in antipredator behaviour in fishes revealed that population differences have an underlying genetic basis. However, evidence from a variety of fish species suggests that learning plays an important role in the development of antipredator responses. Here, we consider the opportunities for learning during the three main stages of a predator–prey interaction: detection, recognition and assessment, and attack avoidance. Much of the evidence for learning is based on the recognition and assessment stage of the predator–prey interaction, but this may reflect methodological biases. We also examine the relative roles of different sensory cues, in particular, vision and olfaction, and the importance of individual vs. social learning. We provide evidence that visual predator recognition skills are largely built on unlearned predispositions, whereas olfactory recognition typically involves experience with conspecific alarm cues. Populations display variation in their propensity to learn, and we predict that ecological factors are likely to mediate the balance between individual and social learning.     

A generic framework to assess the representation and protection of benthic ecosystems in European marine protected areas

1. There is concern across the International Council for the Exploration of the Sea (ICES) region that a consideration of vulnerable components and the wider support mechanisms underpinning benthic marine ecosystems may be lacking from the process of marine protected area (MPA) designation, management and monitoring.
2. In this study, MPAs across six European ecoregions were assessed from a benthic ecology perspective. The study included 102 MPAs, designated by 10 countries, and focused on three aspects regarding the role of the benthos in: (i) the designation of MPAs; (ii) the management measures used in MPAs; and (iii) the monitoring and assessment of MPAs.
3. Qualitative entries to a questionnaire based on an existing framework (EU project ‘Monitoring Evaluation of Spatially Managed Areas’, (MESMA) were collected by 19 benthic experts of the ICES Benthic Ecology Working Group. A pedigree matrix was used to apply a numerical scale (score) to these entries.
4. The results showed clear differences in scores between ecoregions and between criteria. The designation‐phase criteria generally achieved higher scores than the implementation‐phase criteria. Poor designation‐phase scores were generally reiterated in the implementation‐phase scores, such as scores for assessment and monitoring.
5. Over 70% of the MPA case studies were found to consider the benthos to some extent during selection and designation; however, this was not followed up with appropriate management measures and good practice during the implementation phase.
6. Poor spatial and temporal coverage of monitoring and ineffective indicators is unlikely to pick up changes caused by management measures in the MPA. There is concern that without adequate monitoring and adaptive management frameworks, the MPAs will be compromised. Also, there could be an increased likelihood that, with regard to the benthos, they will fail to meet their conservation objectives.
7. This assessment was successful in highlighting issues related to the representation and protection of the benthos in MPAs and where changes need to be made, such as expanding the characterization and monitoring of benthic species or habitats of interest. These issues could be attributable to an ongoing process and/or an indication that some MPAs only have ‘paper protection’.

     

Cortisol stimulates intestinal fluid uptake in Atlantic salmon (Salmo salar) in the post-smolt stage

The fluid uptake rate of the posterior intestine of salmonids increases during the parr-smolt transformation. Intestinal fluid uptake in post-smolt Atlantic salmon was investigated after treatment with cortisol and growth hormone (GH), alone or together. Two replicate experiments were conducted in August 1991 and August 1992. Cortisol was emulsified in vegetable shortening and vegetable oil (1:1) and implanted into the peritoneal cavity. GH was administered as intraperitoneal injections in a saline vehicle on days 0 and 2. On days 5 and 6, plasma cortisol levels, gill Na⁺,K⁺-ATPase activity, andin vitro measurements of fluid transport rate (J_v) across the posterior intestine were measured. Implants of cortisol elevated the plasma cortisol levels within a physiological range, and resulted in elevated gill Na⁺,K⁺-ATPase activity, as expected. The fluid uptake rate across the posterior intestine was roughly doubled by cortisol treatment. GH treatment did not affect intestinal fluid transport, gill Na⁺,K⁺-ATPase activity, or plasma cortisol concentrations. The seawater-adapting increase in the rate of fluid uptake by the posterior intestine of smolting salmon is probably stimulated by elevated plasma cortisol concentrations.     

ACCURACY OF LOW‐FIELD MAGNETIC RESONANCE IMAGING VERSUS RADIOGRAPHY FOR GUIDING INJECTION OF EQUINE DISTAL INTERPHALANGEAL JOINT COLLATERAL LIGAMENTS

Desmopathy of the distal interphalangeal joint collateral ligament is a common cause of lameness in the horse and carries a variable prognosis for soundness. Intralesional treatment has been proposed for improving outcome; however, limited reports describe methods for injecting this ligament. The purpose of this study was to compare accuracy of low‐field magnetic resonance imaging (MRI) vs. radiography for injecting the collateral ligament of the distal interphalangeal joint. Equine cadaver digit pairs (n = 10) were divided by random assignment to injection of the ligament by either technique. An observer unaware of injection technique determined injection success based on postinjection MRI and/or gross sections acquired from the proximal, middle, and distal portions of the ligament. McNemar's test was performed to determine statistical difference between injection techniques, the number of injection attempts, and injection of the medial or lateral collateral ligament. Magnetic resonance imaging guided injection was successful more frequently than radiographic‐guided injection based on postinjection MRI (24 of 30 vs. 9 of 30; P = 0.0006) and gross sections (26 of 30 vs. 13 of 30; P = 0.0008). At each level of the ligament (proximal, middle, and distal), MRI‐guided injection resulted in more successful injections than radiographic guidance. Statistical significance occurred at the proximal aspect of the collateral ligament based on postinjection MRI (P = 0.0143) and the middle portion of the ligament based on gross sections (P = 0.0253). Findings supported future testing of standing, low‐field MRI as a technique for delivering intralesional regenerative therapy in live horses with desmopathy of these collateral ligaments.     

Cancer proliferation gene discovery through functional genomics

Retroviral short hairpin RNA (shRNA)-mediated genetic screens in mammalian cells are powerful tools for discovering loss-of-function phenotypes. We describe a highly parallel multiplex methodology for screening large pools of shRNAs using half-hairpin barcodes for microarray deconvolution. We carried out dropout screens for shRNAs that affect cell proliferation and viability in cancer cells and normal cells. We identified many shRNAs to be antiproliferative that target core cellular processes, such as the cell cycle and protein translation, in all cells examined. Moreover, we identified genes that are selectively required for proliferation and survival in different cell lines. Our platform enables rapid and cost-effective genome-wide screens to identify cancer proliferation and survival genes for target discovery. Such efforts are complementary to the Cancer Genome Atlas and provide an alternative functional view of cancer cells.     

Derivation of oocytes from mouse embryonic stem cells

Continuation of mammalian species requires the formation and development of the sexually dimorphic germ cells. Cultured embryonic stem cells are generally considered pluripotent rather than totipotent because of the failure to detect germline cells under differentiating conditions. Here we show that mouse embryonic stem cells in culture can develop into oogonia that enter meiosis, recruit adjacent cells to form follicle-like structures, and later develop into blastocysts. Oogenesis in culture should contribute to various areas, including nuclear transfer and manipulation of the germ line, and advance studies on fertility treatment and germ and somatic cell interaction and differentiation.     

Exome sequencing of head and neck squamous cell carcinoma reveals inactivating mutations in NOTCH1

Head and neck squamous cell carcinoma (HNSCC) is the sixth most common cancer worldwide. To explore the genetic origins of this cancer, we used whole-exome sequencing and gene copy number analyses to study 32 primary tumors. Tumors from patients with a history of tobacco use had more mutations than did tumors from patients who did not use tobacco, and tumors that were negative for human papillomavirus (HPV) had more mutations than did HPV-positive tumors. Six of the genes that were mutated in multiple tumors were assessed in up to 88 additional HNSCCs. In addition to previously described mutations in TP53, CDKN2A, PIK3CA, and HRAS, we identified mutations in FBXW7 and NOTCH1. Nearly 40% of the 28 mutations identified in NOTCH1 were predicted to truncate the gene product, suggesting that NOTCH1 may function as a tumor suppressor gene rather than an oncogene in this tumor type.