Two new meiofaunal species of Trilobodrilus (Dinophilidae, Annelida) from California, USA

We describe two new species of the annelid genus Trilobodrilus Remane, 1925 (Dinophilidae Verill, 1892) from an intertidal and a subtidal location in San Diego, California. These two species show morphological and molecular divergences between each other and the previously described, geographically distant species. Intertidal T. windansea sp. nov. differs from subtidal T. ellenscrippsae sp. nov. most remarkably in the number and pattern of ciliary tufts and bands on the prostomium and along the body length, besides showing ca 15% difference in gene fragments of COI and CytB. Trilobodrilus windansea sp. nov., though nesting with T. ellenscrippsae sp. nov. in the molecular phylogenetic analyses, morphologically resembles the Japanese T. itoi Kajihara, Ikoma, Yamasaki & Hiruta, 2015 most closely, but still differs from this species in the higher number of apical ciliary tufts, an additional ciliary row posterior to the second ciliary band, and by lacking a forth ciliary band and segmentally arranged lateral ciliary tufts. Trilobodrilus ellenscrippsae sp. nov. is morphologically most similar to the Japanese T. nipponicus Uchida & Okuda, 1943, but is much shorter, has more apical ciliary tufts, and less regularly arranged lateral ciliary tufts along the body. All species differ significantly in all compared gene fragments, and no obvious correlation was found between habitat and the species morphology or relationships

Effects of sound from seismic surveys on fish reproduction, the management case from Norway

Anthropogenic noise has been recognized as a source of concern since the beginning of the 1940s and is receiving increasingly more attention. While international focus has been on the effects of noise on marine mammals, Norway has managed seismic surveys based on the potential impact on fish stocks and fisheries since the late 1980s. Norway is, therefore, one of very few countries that took fish into account at this early stage. Until 1996, spawning grounds and spawning migration, as well as areas with drifting eggs and larvae were recommended as closed for seismic surveys. Later results showed that the effects of seismic surveys on early fish development stages were negligible at the population level, resulting in the opening of areas with drifting eggs and larvae for seismic surveys. Spawning grounds, as well as concentrated migration towards these, are still closed to seismic surveys, but the refinement of areas and periods have improved over the years. Since 2018, marine mammals have been included in the advice to management. The Norwegian case provides a clear example of evidence-based management. Here, we examine how scientific advancements informed the development of Norwegian management and how management questions were incorporated into new research projects in Norway.publishedVersio

Effects of airgun discharges used in seismic surveys on development and mortality in nauplii of the copepod Acartia tonsa

Seismic surveys are conducted worldwide to explore for oil and gas deposits and to map subsea formations. The airguns used in these surveys emit low-frequency sound waves. Studies on zooplankton responses to airguns report a range of effects, from none to substantial mortality. A field experiment was conducted to assess mortality and naupliar body length of the calanoid copepod Acartia tonsa when exposed to the discharge of two 40-inch airguns. Nauplii were placed in plastic bags and attached to a line at a depth of 6 m. For each treatment, three bags of nauplii were exposed to one of three treatments for 2.5 h: Airgun array discharge, a boat control, or a silent control. After exposure, nauplii were kept in filtered seawater in the laboratory without food. Immediate mortality in the nauplii was approximately 14% compared to less than 4% in the silent and boat control. Similarly, there was higher mortality in the airgun exposed nauplii up to six days after exposure compared to the control treatments. Nearly all of the airgun exposed nauplii were dead after four days, while >50% of the nauplii in the control treatments were alive at six days post-exposure. There was an interaction between treatment and time on naupliar body length, indicating lower growth in the nauplii exposed to the airgun discharge (growth rates after 4 days: 1.7, 5.4, and 6.1 μm d−1 in the airgun exposed, silent control, and boat control, respectively). These experiments indicate that the output of two small airguns affected mortality and growth of the naupliar stages of Acartia tonsa in close vicinity to the array.publishedVersio

Counting stars: contribution of early career scientists to marine and fisheries sciences

Scientific careers and publishing have radically changed in recent decades creating an increasingly competitive environment for early career scientists (ECS). The lack of quantitative data available on ECS in marine and fisheries sciences prevents direct assessment of the consequences of increased competitiveness. We assessed the contributions of ECS (up to 6 years post first publication) to the field using an indirect approach by investigating the authorships of peer-reviewed articles. We analysed 118461 papers published by 184561 authors in the top 20 marine and fisheries sciences journals over the years 1991–2020. We identified a positive long-term trend in the proportion of scientific articles (co-)authored by ECS. This suggests a growing contribution by ECS to publications in the field. However, the mean proportion of ECS (co-)authors within one publication declined significantly over the study period. Subsequent tests demonstrated that articles with ECS (co-)authors receive fewer citations and that the proportion of ECS (co-)authors on an article has a significant negative effect on the number of citations. We discuss the potential causes of these inequalities and urge systematic support to ECS to achieve more balanced opportunities for funding and publishing between ECS and senior scientists

Does seismic have an effect on zooplankton? - Field study at Ekofisk with RV Kristine Bonnevie

Toktnr: 2022611Does seismic have an effect on zooplankton? - Field study at Ekofisk with RV Kristine BonneviepublishedVersio

Development of an animal experimental model to study the effects of levonorgestrel on the human endometrium

BACKGROUND: This study was designed to develop an animal model to test the response of endometrium to local progestin delivery. METHODS: Proliferative human endometrium was subcutaneously grafted in two groups of SCID mice that received, 2 days before, a subcutaneous estradiol (E2) pellet and, for half of them, an additional implant of levonorgestrel (LNG). Mice were sacrificed 1, 2, 3 or 4 weeks after endometrial implantation and grafts were histologically analysed. Proliferation, steroid hormone receptors, blood vessels and stromal decidualization in both groups (E2 and LNG) were immunohistologically evaluated and compared with proliferative endometrium and endometrium from women with an LNG intrauterine device. RESULTS: Grafts presented normal morphological endometrial characteristics. The expression of progesterone receptors was significantly decreased in glands and stroma of the LNG group as compared with the E2 group at all times. A significant decrease was also observed in the stromal expression of estrogen receptor- in the LNG group. At 4 weeks, the mean cross-sectional area of vessels was significantly higher after LNG treatment. CONCLUSIONS: These morphological and immunohistochemical characteristics are similar to those observed in women treated with local LNG. This mouse model might facilitate further investigations needed to understand the mechanisms responsible for the breakthrough bleeding frequently observed in progestin users

Frequent traces of EBV infection in Hodgkin and non-Hodgkin lymphomas classified as EBV-negative by routine methods: expanding the landscape of EBV-related lymphoma

peer-reviewedThe Epstein–Barr virus (EBV) is linked to various B-cell lymphomas, including Burkitt lymphoma (BL), classical Hodgkin lymphoma (cHL) and diffuse large B-cell lymphoma (DLBCL) at frequencies ranging, by routine techniques, from 5 to 10% of cases in DLBCL to >95% in endemic BL. Using higher-sensitivity methods, we recently detected EBV traces in a few EBV-negative BL cases, possibly suggesting a “hit-and-run” mechanism. Here, we used routine and higher-sensitivity methods (qPCR and ddPCR for conserved EBV genomic regions and miRNAs on microdissected tumor cells; EBNA1 mRNA In situ detection by RNAscope) to assess EBV infection in a larger lymphoma cohort [19 BL, 34 DLBCL, 44 cHL, 50 follicular lymphomas (FL), 10 T-lymphoblastic lymphomas (T-LL), 20 hairy cell leukemias (HCL), 10 mantle cell lymphomas (MCL)], as well as in several lymphoma cell lines (9 cHL and 6 BL). qPCR, ddPCR, and RNAscope consistently documented the presence of multiple EBV nucleic acids in rare tumor cells of several cases EBV-negative by conventional methods that all belonged to lymphoma entities clearly related to EBV (BL, 6/9 cases; cHL, 16/32 cases; DLBCL, 11/30 cases), in contrast to fewer cases (3/47 cases) of FL (where the role of EBV is more elusive) and no cases (0/40) of control lymphomas unrelated to EBV (HCL, T-LL, MCL). Similarly, we revealed traces of EBV infection in 4/5 BL and 6/7 HL cell lines otherwise conventionally classified as EBV negative. Interestingly, additional EBV-positive cases (1 DLBCL, 2 cHL) relapsed as EBV-negative by routine methods while showing EBNA1 expression in rare tumor cells by RNAscope. The relapse specimens were clonally identical to their onset biopsies, indicating that the lymphoma clone can largely loose the EBV genome over time but traces of EBV infection are still detectable by high-sensitivity methods. We suggest EBV may contribute to lymphoma pathogenesis more widely than currently acknowledged

Single-cell RNA-seq reveals novel regulators of human embryonic stem cell differentiation to definitive endoderm

Background: Human pluripotent stem cells offer the best available model to study the underlying cellular and molecular mechanisms of human embryonic lineage specification. However, it is not fully understood how individual stem cells exit the pluripotent state and transition towards their respective progenitor states. Results: Here, we analyze the transcriptomes of human embryonic stem cell-derived lineage-specific progenitors by single-cell RNA-sequencing (scRNA-seq). We identify a definitive endoderm (DE) transcriptomic signature that leads us to pinpoint a critical time window when DE differentiation is enhanced by hypoxia. The molecular mechanisms governing the emergence of DE are further examined by time course scRNA-seq experiments, employing two new statistical tools to identify stage-specific genes over time (SCPattern) and to reconstruct the differentiation trajectory from the pluripotent state through mesendoderm to DE (Wave-Crest). Importantly, presumptive DE cells can be detected during the transitory phase from Brachyury (T)+ mesendoderm toward a CXCR4+ DE state. Novel regulators are identified within this time window and are functionally validated on a screening platform with a T-2A-EGFP knock-in reporter engineered by CRISPR/Cas9. Through loss-of-function and gain-of-function experiments, we demonstrate that KLF8 plays a pivotal role modulating mesendoderm to DE differentiation. Conclusions: We report the analysis of 1776 cells by scRNA-seq covering distinct human embryonic stem cell-derived progenitor states. By reconstructing a differentiation trajectory at single-cell resolution, novel regulators of the mesendoderm transition to DE are elucidated and validated. Our strategy of combining single-cell analysis and genetic approaches can be applied to uncover novel regulators governing cell fate decisions in a variety of systems. Electronic supplementary material The online version of this article (doi:10.1186/s13059-016-1033-x) contains supplementary material, which is available to authorized users

Human Solid Tumor Xenografts in Immunodeficient Mice Are Vulnerable to Lymphomagenesis Associated with Epstein-Barr Virus

Xenografting primary human solid tumor tissue into immunodeficient mice is a widely used tool in studies of human cancer biology; however, care must be taken to prove that the tumors obtained recapitulate parent tissue. We xenografted primary human hepatocellular carcinoma (HCC) tumor fragments or bulk tumor cell suspensions into immunodeficient mice. We unexpectedly observed that 11 of 21 xenografts generated from 16 independent patient samples resembled lymphoid neoplasms rather than HCC. Immunohistochemistry and flow cytometry analyses revealed that the lymphoid neoplasms were comprised of cells expressing human CD45 and CD19/20, consistent with human B lymphocytes. In situ hybridization was strongly positive for Epstein-Barr virus (EBV) encoded RNA. Genomic analysis revealed unique monoclonal or oligoclonal immunoglobulin heavy chain gene rearrangements in each B-cell neoplasm. These data demonstrate that the lymphoid neoplasms were EBV-associated human B-cell lymphomas. Analogous to EBV-associated lymphoproliferative disorders in immunocompromised humans, the human lymphomas in these HCC xenografts likely developed from reactivation of latent EBV in intratumoral passenger B lymphocytes following their xenotransplantation into immunodeficient recipient mice. Given the high prevalence of latent EBV infection in humans and the universal presence of B lymphocytes in solid tumors, this potentially confounding process represents an important pitfall of human solid tumor xenografting. This phenomenon can be recognized and avoided by routine phenotyping of primary tumors and xenografts with human leukocyte markers, and provides a compelling biological rationale for exclusion of these cells from human solid tumor xenotransplantation assays

Coordinated repression of BIM and PUMA by Epstein-Barr virus latent genes maintains the survival of Burkitt lymphoma cells.

While the association of Epstein-Barr virus (EBV) with Burkitt lymphoma (BL) has long been recognised, the precise role of the virus in BL pathogenesis is not fully resolved. EBV can be lost spontaneously from some BL cell lines, and these EBV-loss lymphoma cells reportedly have a survival disadvantage. Here we have generated an extensive panel of EBV-loss clones from multiple BL backgrounds and examined their phenotype comparing them to their isogenic EBV-positive counterparts. We report that, while loss of EBV from BL cells is rare, it is consistently associated with an enhanced predisposition to undergo apoptosis and reduced tumorigenicity in vivo. Importantly, reinfection of EBV-loss clones with EBV, but surprisingly not transduction with individual BL-associated latent viral genes, restored protection from apoptosis. Expression profiling and functional analysis of apoptosis-related proteins and transcripts in BL cells revealed that EBV inhibits the upregulation of the proapoptotic BH3-only proteins, BIM and PUMA. We conclude that latent EBV genes cooperatively enhance the survival of BL cells by suppression of the intrinsic apoptosis pathway signalling via inhibition of the potent apoptosis initiators, BIM and PUMA.Cell Death and Differentiation advance online publication, 29 September 2017; doi:10.1038/cdd.2017.150