Biology subjects

Mantyla, E.

Publications and source records attributed to Mantyla, E..

6 recordsLinked to original sources

bioRxiv2023

The effects of human population density on trophic interactions are contingent upon latitude

Aim: Studies conducted at a global scale are necessary to make general conclusions on the effect of urbanization on trophic interactions and explore how these effects change along latitudinal gradients. Since biotic interactions are more intense at lower latitudes, we predict that the intensity of trophic interactions will decrease in response to urbanization (quantified by human population density), with higher impacts of urbanization at higher latitudes. Location: Global (881 study sites). Time period: 2000-2021. Major taxa studied: Birds, arthropods and woody plants. Methods: We compiled global data on insect herbivory and bird predation from individual studies using similar methodologies, and fitted generalized linear mixed models to test the effect of human population density, latitude and their interaction on these two response variables. Results: The intensity of herbivory and predation decreased with the increase of human population density at lower latitudes, remained unaffected at intermediate latitudes, and increased at higher latitudes. Main conclusions: The effect of human population density on insect herbivory and bird predation consistently varies across latitudes, with a reversal of the pattern at high versus low latitudes.

ecology↗

bioRxiv2023

Alternative cell entry mechanisms for SARS-CoV-2 and multiple animal viruses

The cell entry mechanism of SARS-CoV-2, the causative agent of the COVID-19 pandemic, is not fully understood. Most animal viruses hijack cellular endocytic pathways as an entry route into the cell. Here, we show that in cells that do not express serine proteases such as TMPRSS2, genetic depletion of all dynamin isoforms blocked the uptake and strongly reduced infection with SARS-CoV-2 and its variant Delta. However, increasing the viral loads partially and dose-dependently restored infection via a thus far uncharacterized entry mechanism. Ultrastructural analysis by electron microscopy showed that this dynamin-independent endocytic processes appeared as 150-200 nm non-coated invaginations and was efficiently used by numerous mammalian viruses, including alphaviruses, influenza, vesicular stomatitis, bunya, adeno, vaccinia, and rhinovirus. Both the dynamin-dependent and dynamin-independent infection of SARS-CoV-2 required a functional actin cytoskeleton. In contrast, the alphavirus Semliki Forest virus, which is smaller in diameter, required actin only for the dynamin-independent entry. The presence of TMPRSS2 protease rescued SARS-CoV-2 infection in the absence of dynamins. Collectively, these results indicate that some viruses such as canine parvovirus and SARS-CoV-2 mainly rely on dynamin for endocytosis-dependent infection, while other viruses can efficiently bypass this requirement harnessing an alternative infection entry route dependent on actin.

microbiology↗

bioRxiv2023

Ocean-scale variation in migration schedules of a long-distance migratory seabird is fully compensated upon return to the breeding site

BackgroundMigratory birds generally have tightly scheduled annual cycles, in which delays can have carry-over effects on the timing of later events, ultimately impacting reproductive output. Whether temporal carry-over effects are more pronounced among migrations over larger distances, with tighter schedules, is a largely unexplored question. MethodsWe tracked individual Arctic Skuas Stercorarius parasiticus, a long-distance migratory seabird, from eight breeding populations between Greenland and Siberia using light-level geolocators. We tested whether migration schedules among breeding populations differ as a function of their use of seven widely divergent wintering areas across the Atlantic Ocean, Mediterranean Sea and Indian Ocean. ResultsBreeding at higher latitudes led not only to later reproduction and migration, but also faster spring migration and shorter time between return to the breeding area and clutch initiation. Wintering area was consistent within individuals among years; and more distant areas were associated with more time spent on migration and less time in the wintering areas. Skuas adjusted the period spent in the wintering area, regardless of migration distance, which buffered the variation in timing of autumn migration. Choice of wintering area had only minor effects on timing of return at the breeding area and timing of breeding and these effects were not consistent between breeding populations. ConclusionThe lack of a consistent effect of wintering area on timing of return between breeding areas indicates that individuals synchronize their arrival with others in their population despite extensive individual differences in migration strategies.

ecology↗

bioRxiv2022

Iterative immunostaining combined with expansion microscopy and image processing reveals nanoscopic network organization of nuclear lamina

Investigation of nuclear lamina architecture relies on super-resolved microscopy. However, epitope accessibility, labeling density, and detection precision of individual molecules pose challenges within the molecularly crowded nucleus. We developed iterative indirect immunofluorescence (IT-IF) staining approach combined with expansion microscopy (ExM) and structured illumination microscopy to improve super-resolution microscopy of subnuclear nanostructures like lamins. We prove that ExM is applicable in analyzing highly compacted nuclear multiprotein complexes such as viral capsids and provide technical improvements to ExM method including 3D-printed gel casting equipment. We show that in comparison to conventional immunostaining, IT-IF results in a higher signal-to-background -ratio and a mean fluorescence intensity by improving the labeling density. Moreover, we present a signal processing pipeline for noise estimation, denoising, and deblurring to aid in quantitative image analyses and provide this platform for the microscopy imaging community. Finally, we show the potential of signal-resolved IT-IF in quantitative super-resolution ExM imaging of nuclear lamina and reveal nanoscopic details of the lamin network organization - a prerequisite for studying intranuclear structural co-regulation of cell function and fate. (Words: 175)

molecular biology↗

bioRxiv2022

Nuclear lamina strain states revealed by intermolecular force biosensor

Nuclear lamins have been considered to be an important structural element of the nucleus. The nuclear lamina is thought both to shield DNA from excessive mechanical forces and to transmit mechanical forces onto the DNA. However, to date there is not yet a technical approach to directly measure mechanical forces on nuclear lamins at the protein level. To overcome this limitation, we developed a nanobody-based intermolecular tension FRET biosensor capable of measuring the mechanical strain of lamin filaments. Using this sensor, we were able to show that the nuclear lamina is subjected to significant force. These forces are dependent on nuclear volume, actomyosin contractility, functional LINC complex, chromatin condensation state, cell cycle, and EMT. Interestingly, large forces were also present on nucleoplasmic lamins, indicating that these lamins may also have an important mechanical role in the nucleus. Overall, we demonstrate that nanobody-based approach allows construction of novel force biosensors for mechanobiology studies.

biophysics↗

bioRxiv2021

Following the track: accuracy and reproducibility of predation assessment on artificial caterpillars

Experimental studies of biotic interactions in real field conditions are essential to understand the structure and functioning of ecological networks. The use of artificial caterpillars to mimic actual prey availability is generally seen as a standard approach to compare the activity and diversity of predators along environmental gradients. Yet, even with standardized material and procedures, biases may still affect data from multiple observers with different expertise. We used pictures of artificial caterpillars with or without various predation marks, in an online survey that was targeted for the participants of the project, to evaluate the reliability of predation marks identification made by non-scientists and by scientists with and without previous experience in predation mark identification. Pictures of artificial caterpillars displayed typical marks left by birds, mammals and arthropods, as well as non-predation marks ( false positive). 357 respondents scanned 7140 pictures of these pictures. Self-declared scientists were more confident and accurate in their observations than non-scientists, but the differences in correct identifications among scientists and non-scientists were low. Self-declared scientists with previous experience were also more accurate than scientists without previous experience, while there were no differences in self-confidence among scientists with and without previous experience. Accuracy in predation mark identification did not differ among types of predators, but respondents were more keen to identify marks left by birds or mammals than arthropods. Our results have practical implications for the design of multi-observer projects relying on artificial caterpillars as a proxy to assess predation intensity, in particular in the context of citizen science.

ecology↗