Effects of toxicants on populations: A qualitative approach II. first order kinetics

System level effects exhibited by a population subjected to a chronic or an acute dose of toxicant are the emphasis of this study. A three dimensional model of a toxicant and a population, with state variables (the population biomass, the concentration of toxicant in an organism, and the concentration of toxicant in the environment) coupled by a linear dose-response function, is analyzed analytically. One of the main results presents sufficient conditions, in terms of a system level parameter, for the persistence, and for the extinction, of a population exposed to a chronic dose of toxicant. When depuration and degradation are negligible processes, the effects of toxicant accumulation associated with an acute exposure of a population are analyzed in some detail. Both persistence and extinction are shown to be viable behavior modes of a population in this biochemical setting.     

Use of manganese to discriminate between calcium influx and mobilization from internal stores in stimulated human neutrophils

Stimulation of human neutrophils with f-met-leu-phe, platelet-activating factor, or leukotriene B4 resulted in an increase in [Ca2+]i. The [Ca2+]i rise was greater in the presence than absence of external Ca2+; the component that was dependent on external Ca2+ was blocked by Ni2+, or could be reconstituted by addition of external Ca2+ following discharge of the internal Ca2+ store. These measurements of [Ca2+]i responses provide only indirect evidence for agonist-stimulated Ca2+ entry, and here we have used an alternative approach to demonstrate directly agonist-stimulated divalent cation entry. In the presence of extracellular Mn2+, f-met-leu-phe, leukotriene B4, and platelet-activating factor stimulate a quench in fluorescence of fura-2-loaded human neutrophils. This quench was due to stimulated Mn2+ influx and was blocked by Ni2+. When Mn2+ was added in the continued presence of agonist, after discharge of the internal store of Ca2+, a stimulated quench was seen; this result shows that an elevated [Ca2+]i is not needed for the stimulation of Mn2+ entry. Depolarization by high [K+] or addition of the L-type Ca2+ channel agonist, BAY-R-5417, had little or no effect on either [Ca2+]i or Mn2+ entry. These results show that agonists stimulate divalent cation entry (Ca2+ or Mn2+) by a mechanism independent of changes in [Ca2+]i and unrelated to voltage-dependent Ca2+ channels.     

On the dynamics of a toxicant-individual system

The dynamics of a toxicant-individual model where the individual is represented by von Bertalanffy dynamics and the uptake model component is one developed by Barber, Suarez & Lassiter is discussed. A sufficient condition for the death of an individual subjected to chemical stress is found. Another possible behavior of the system is an oscillatory mode of individual size and internal chemical concentration determined by a limit cycle. These fluctuations are a consequence of formulations of growth, maintenance, and the dose-response functions in the model system.     

Meta-Fish-Lib: A generalised,dynamic DNA reference library pipeline for metabarcoding of fishes

The accuracy and reliability of DNA metabarcoding analyses depend on the breadth and quality of the reference libraries that underpin them. However, there are limited options available to obtain and curate the huge volumes of sequence data that are available on public repositories such as NCBI and BOLD. Here, we provide a pipeline to download, clean and annotate mitochondrial DNA sequence data for a given list of fish species. Features of this pipeline include (a) support for multiple metabarcode markers; (b) searches on species synonyms and taxonomic name validation; (c) phylogeny assisted quality control for identification and removal of misannotated sequences; (d) automatically generated coverage reports for each new GenBank release update; and (e) citable, versioned DOIs. As an example we provide a ready-to-use curated reference library for the marine and freshwater fishes of the U.K. To augment this reference library for environmental DNA metabarcoding specifically, we generated 241 new MiFish-12S sequences for 88 U.K. marine species, and make available new primer sets useful for sequencing these. This brings the coverage of common U.K. species for the MiFish-12S fragment to 93%, opening new avenues for scaling up fish metabarcoding across wide spatial gradients. The Meta-Fish-Lib reference library and pipeline is hosted at https://github.com/genner-lab/meta-fish-lib .