Climate change impact on high latitude freshwater fish populations

Climate change is one of the greatest threats to animal wildlife in high latitude freshwater ecosystems. Climate warming is rapidly increasing water temperatures in these areas, affecting biological processes of ectotherms such as growth, maturation and reproduction, which in turn trigger population responses. The magnitude of the effects of climate warming will vary depending on the thermal niche and phenotype of species. Climate change will continue to redistribute species, and fish species from warmer temperature guilds will invade and possibly take over areas where cold water fish currently dominate. Hence, it is important to establish the performance of cold vs warmer water species in a warming Arctic. The aim of this thesis is therefore to provide novel insights and predictions on population level implications of climate change for both cold- and cool water fish at high latitudes. The primary focus is on climate effects mediated by direct and indirect individual-level responses to increasing water temperatures, addressed using long-term empirical investigations and modelling in retrospective and prospective studies. In addition, the thesis addresses interactions between climate change and size-selective harvesting, a main pressure on high latitude fish populations, by modelling their cumulative effects to evaluate risks and reveal potential synergistic threats. The thesis documents how both cold- and cool water fish at their northern range edge have increased their somatic growth rates during the last three decades of warming. However, the cool-water adapted vendace and perch displayed a higher increase in juvenile somatic growth with warming compared to cold-water Arctic charr and whitefish, stressing how the thermal niche modulates the magnitude of warming effects. The individual based models developed for this thesis predict a further increase in somatic growth towards year 2100 under warming scenarios (RCP-4.5, -8.5), with cool water fish displaying a greater increase in somatic growth rate than cold water fish. The documented and projected climate driven increase in somatic growth rate mediates changes in survival rates and life history, including a likely increase in juvenile survival, and earlier maturation, the latter being contingent on species’ maturation reaction norm. The demographic implications of these individual effects were investigated via modelling and long-term empirical studies. The population level response to climate warming, mediated by individual effects, was evident in the cool water adapted perch, which experienced a substantial increase in density and importance relative to the cold-water adapted whitefish, which is dominant in the investigated lakes. The population response of this cool water fish was mediated by an increase in juvenile growth rate which resulted in larger size at age and earlier maturation, but also a likely increase in survival through the first critical winter. The modelled populations displayed higher biomass and yield as size at age increased with warming, but this effect was larger in the cool water specie than in the cold water species. In sum, cool water fish will benefit more from climate warming than cold water fish at high latitudes, and where they coexist, cool water fish may become the dominant player in the fish community. The climate driven increase in size at age affects the age-specific exposure to size-selective harvesting, increasing the risk of younger individuals being caught by gillnets. The population level effect of earlier gillnet exposure is an increased age truncation, as illustrated by individual based model outcomes. Also, larger size at age increased the proportion of immature individuals being caught, with the magnitude of the effect being contingent on growth trajectories, their temperature dependence, and orientation of the maturation reaction norm. The increased juvenile mortality and more pronounced age truncation reduce recruitment, increasing the vulnerability of exploited populations to environmental stressors. Fish species with large size, slow growth, and late maturation like Arctic charr were more vulnerable to warming and harvesting than species with a faster life history, like vendace. In conclusion, the stronger positive effects of warming on the performance of cool-water adapted species relative to cold-water salmonids, and the greater vulnerability of the latter when exposed to size-selective harvesting, warn of incipient reorganizations of Arctic fish communities, and invite climate adaptation in the management of high latitude populations

Twig selection on mountain birch Betula pubescens by winter-feeding willow grouse Lagopus lagopus in a subarctic forest

In a subarctic forest at Kvaløya, northern Norway, willow grouse Lagopus lagopus fed at snow level by clipping bits of twigs from mountain birch Betula pubescens during winter. Birch has two types of twigs ending in a terminal bud: long twigs with a smooth bark, and short twigs with rings of thicker bark. The grouse selected ringed twigs above smooth twigs despite a surplus of smooth twigs in the forest. Ringed twigs had more bark cm−1 of twig length and a higher relative bark/wood ratio than smooth twigs. Smooth twigs had growth nodes that increased in diameter inwards from the tip. Because of the non-linear relation between the area and the circumference of a circle, the bark/wood ratio decreased for each node. Although being able to clip much thicker twigs, 90% of smooth twigs clipped by grouse were ≤ 2 mm in diameter. It is concluded that willow grouse fed optimally on birch in winter by selecting twigs to minimize fibrous wood intake

Isolation and complete genome sequence of the thermophilic Geobacillus sp. 12AMOR1 from an Arctic deep-sea hydrothermal vent site

Members of the genus Geobacillus have been isolated from a wide variety of habitats worldwide and are the subject for targeted enzyme utilization in various industrial applications. Here we report the isolation and complete genome sequence of the thermophilic starch-degrading Geobacillus sp. 12AMOR1. The strain 12AMOR1 was isolated from deep-sea hot sediment at the Jan Mayen hydrothermal Vent Site. Geobacillus sp. 12AMOR1 consists of a 3,410,035 bp circular chromosome and a 32,689 bp plasmid with a G + C content of 52 % and 47 %, respectively. The genome comprises 3323 protein-coding genes, 88 tRNA species and 10 rRNA operons. The isolate grows on a suite of sugars, complex polysaccharides and proteinous carbon sources. Accordingly, a versatility of genes encoding carbohydrate-active enzymes (CAZy) and peptidases were identified in the genome. Expression, purification and characterization of an enzyme of the glycoside hydrolase family 13 revealed a starch-degrading capacity and high thermal stability with a melting temperature of 76.4 °C. Altogether, the data obtained point to a new isolate from a marine hydrothermal vent with a large bioprospecting potential.publishedVersio

Isolation and complete genome sequence of the thermophilic Geobacillus sp. 12AMOR1 from an Arctic deep-sea hydrothermal vent site

Published version. Source at http://doi.org/10.1186/s40793-016-0137-y. License CC BY 4.0.Members of the genus Geobacillus have been isolated from a wide variety of habitats worldwide and are the subject for targeted enzyme utilization in various industrial applications. Here we report the isolation and complete genome sequence of the thermophilic starch-degrading Geobacillus sp. 12AMOR1. The strain 12AMOR1 was isolated from deep-sea hot sediment at the Jan Mayen hydrothermal Vent Site. Geobacillus sp. 12AMOR1 consists of a 3,410,035 bp circular chromosome and a 32,689 bp plasmid with a G + C content of 52 % and 47 %, respectively. The genome comprises 3323 protein-coding genes, 88 tRNA species and 10 rRNA operons. The isolate grows on a suite of sugars, complex polysaccharides and proteinous carbon sources. Accordingly, a versatility of genes encoding carbohydrate-active enzymes (CAZy) and peptidases were identified in the genome. Expression, purification and characterization of an enzyme of the glycoside hydrolase family 13 revealed a starch-degrading capacity and high thermal stability with a melting temperature of 76.4 °C. Altogether, the data obtained point to a new isolate from a marine hydrothermal vent with a large bioprospecting potential

Isolation and complete genome sequence of the thermophilic Geobacillus sp. 12AMOR1 from an Arctic deep-sea hydrothermal vent site

Published version. Source at http://doi.org/10.1186/s40793-016-0137-y. License CC BY 4.0.Members of the genus Geobacillus have been isolated from a wide variety of habitats worldwide and are the subject for targeted enzyme utilization in various industrial applications. Here we report the isolation and complete genome sequence of the thermophilic starch-degrading Geobacillus sp. 12AMOR1. The strain 12AMOR1 was isolated from deep-sea hot sediment at the Jan Mayen hydrothermal Vent Site. Geobacillus sp. 12AMOR1 consists of a 3,410,035 bp circular chromosome and a 32,689 bp plasmid with a G + C content of 52 % and 47 %, respectively. The genome comprises 3323 protein-coding genes, 88 tRNA species and 10 rRNA operons. The isolate grows on a suite of sugars, complex polysaccharides and proteinous carbon sources. Accordingly, a versatility of genes encoding carbohydrate-active enzymes (CAZy) and peptidases were identified in the genome. Expression, purification and characterization of an enzyme of the glycoside hydrolase family 13 revealed a starch-degrading capacity and high thermal stability with a melting temperature of 76.4 °C. Altogether, the data obtained point to a new isolate from a marine hydrothermal vent with a large bioprospecting potential

Presence of acyl-homoserine lactones in 57 members of the Vibrionaceae family

Aims: The aim of this study was to use a sensitive method to screen and quantify 57 Vibrionaceae strains for the production of acyl-homoserine lactones (AHLs) and map the resulting AHL profiles onto a host phylogeny. Methods and Results: We used a high-performance liquid chromatography– tandem mass spectrometry (HPLC-MS/MS) protocol to measure AHLs in spent media after bacterial growth. First, the presence/absence of AHLs (qualitative analysis) was measured to choose internal standard for subsequent quantitative AHL measurements. We screened 57 strains from three genera (Aliivibrio, Photobacterium and Vibrio) of the same family (i.e. Vibrionaceae). Our results show that about half of the isolates produced multiple AHLs, typically at 25–5000 nmol l-1 . Conclusions: This work shows that production of AHL quorum sensing signals is found widespread among Vibrionaceae bacteria and that closely related strains typically produce similar AHL profiles. Significance and Impact of the Study: The AHL detection protocol presented in this study can be applied to a broad range of bacterial samples and may contribute to a wider mapping of AHL production in bacteria, for example, in clinically relevant strains

Discovery, characterization and engineering of bacterial thermostable cellulose- degrading enzymes

Lignocellulose is the most abundant biomass on Earth, and thus our largest organic carbon reservoir. Enzymatic depolymerization of recalcitrant polysaccharides, notably cellulose, is a major cost driver in accessing the renewable energy stored within lignocellulosic biomass. Natural biodiversities may be explored to discover microbial enzymes that have evolved to conquer this task in various environments. We are studying novel enzymes from various biodiversities for the conversion of lignocellulosic materials, using (meta)genome mining and functional screening of fosmid libraries. Targeted biodiversities include deep-sea hot vents of the Arctic mid-ocean ridge (AMOR), the microbiome of the wood-eating Arctic shipworm, thermophilic enrichment cultures from biogas reactors, the Svalbard reindeer gut microbiome, and publicly available metagenomic data from various hot environments. Bioprospecting of the different biodiversities has so far resulted in the discovery of approximately 20 novel enzymes active on lignocellulosic substrates. The significant differences in the origin of the enzymes is reflected in their properties, both beneficial and challenging, and provide us with interesting engineering targets for improved performance in industrial settings. We will present case studies, including work on a novel thermostable cellulase named mgCel6A, with good activity on sulfite-pulped Norway spruce. This enzyme consists of a glycoside hydrolase family 6 catalytic domain (GH6) connected to a family 2 carbohydrate binding module (CBM2) and both the activity profile and predicted structural similarities to known cellulases suggest that mgCel6A is an endo-acting cellulase. Comparison of the full-length enzyme with the catalytic domain showed that the CBM strongly increases substrate binding, while not affecting thermal stability. However, importantly, in reactions with higher substrate concentrations the full-length enzyme was outperformed by the catalytic domain alone, underpinning previous suggestions that CBMs may be less useful in high-consistency bioprocessing. This enzyme is currently being targeted for rational engineering in an effort to decrease the pH optimum and improve the pH stability. Other case studies include GH48 cellulases and lytic polysaccharide monooxygenases (LPMOs). One important aspect of this work concerns the possible assembly of novel enzyme cocktails for lignocellulose processing that can compete with exiting commercial cocktails, which are primarily composed of fungal enzymes. Thus, comparative studies of our most promising bacterial enzymes with their well-known fungal counterparts are also being conducted

Serine Hydroxymethyltransferase from the Cold Adapted Microorganism Psychromonas ingrahamii: A Low Temperature Active Enzyme with Broad Substrate Specificity

Serine hydroxymethyltransferase from the psychrophilic microorganism Psychromonas ingrahamii was expressed in Escherichia coli and purified as a His-tag fusion protein. The enzyme was characterized with respect to its spectroscopic, catalytic, and thermodynamic properties. The properties of the psychrophilic enzyme have been contrasted with the characteristics of the homologous counterpart from E. coli, which has been structurally and functionally characterized in depth and with which it shares 75% sequence identity. Spectroscopic measures confirmed that the psychrophilic enzyme displays structural properties almost identical to those of the mesophilic counterpart. At variance, the P. ingrahamii enzyme showed decreased thermostability and high specific activity at low temperature, both of which are typical features of cold adapted enzymes. Furthermore, it was a more efficient biocatalyst compared to E. coli serine hydroxymethyltransferase (SHMT) particularly for side reactions. Many β-hydroxy-α-amino acids are SHMT substrates and represent important compounds in the synthesis of pharmaceuticals, agrochemicals and food additives. Thanks to these attractive properties, this enzyme could have a significant potential for biotechnological applications

MutT from the fish pathogen Aliivibrio salmonicida is a cold active nucleotide pool sanitization enzyme with an unexpected high thermostability

AbstractUpon infection by pathogenic bacteria, production of reactive oxygen species (ROS) is part of the host organism’s first line of defence. ROS damage a number of macromolecules, and in order to withstand such a harsh environment, the bacteria need to have well-functioning ROS scavenging and repair systems. Herein, MutT is an important nucleotide-pool sanitization enzyme, which degrades 8-oxo-dGTP and thus prevents it from being incorporated into DNA. In this context, we have performed a comparative biochemical and structural analysis of MutT from the fish pathogen Aliivibrio salmonicida (AsMutT) and the human pathogen Vibrio cholerae (VcMutT), in order to analyse their function as nucleotide sanitization enzymes and also determine possible cold-adapted properties of AsMutT. The biochemical characterisation revealed that both enzymes possess activity towards the 8-oxo-dGTP substrate, and that AsMutT has a higher catalytic efficiency than VcMutT at all temperatures studied. Calculations based on the biochemical data also revealed a lower activation energy (Ea) for AsMutT compared to VcMutT, and differential scanning calorimetry experiments showed that AsMutT displayed an unexpected higher melting temperature (Tm) value than VcMutT. A comparative analysis of the crystal structure of VcMutT, determined to 2.42Å resolution, and homology models of AsMutT indicate that three unique Gly residues in loops of VcMutT, and additional long range ion-pairs in AsMutT could explain the difference in temperature stability of the two enzymes. We conclude that AsMutT is a stable, cold-active enzyme with high catalytic efficiency and reduced Ea, compared to the mesophilic VcMutT

Emojiers pragmatiske funksjon

I denne bacheloroppgaven har jeg samlet trådene av tidligere forskning gjort på feltet emojier, og deres pragmatiske funksjon. Videre er det lagt fram et forslag på en relevansteoretisk analyse, samt at det er gjort en kvantitativ undersøkelse vedrørende språkbrukeres oppfatning til hva fire utvalgte emojiers iboende betydning kan sies å være. Mine funn tyder på at det er stor spredning blant informantenes oppfatning av tre av de fire emojiene som oppgaven tar for seg