We present a new method to detect and count bright spots in fluorescence images coming from biological immunomicroscopy experiments. It is based on the multiscale product of subband images resulting ...from the à trous wavelet transform decomposition of the original image, after thresholding of non-significant coefficients. The multiscale correlation of the filtered wavelet coefficients, which allows to enhance multiscale peaks due to spots while reducing noise, combines information coming from different levels of resolution and gives a clear and distinctive chacterization of the spots. Results are presented for the analysis of typical immunofluorescence images.
Cell migrations and deformations play essential roles in biological processes, such as parasite invasion, immune response, embryonic development, and cancer. We describe a fully automatic ...segmentation and tracking method designed to enable quantitative analyses of cellular shape and motion from dynamic three-dimensional microscopy data. The method uses multiple active surfaces with or without edges, coupled by a penalty for overlaps, and a volume conservation constraint that improves outlining of cell/cell boundaries. Its main advantages are robustness to low signal-to-noise ratios and the ability to handle multiple cells that may touch, divide, enter, or leave the observation volume. We give quantitative validation results based on synthetic images and show two examples of applications to real biological data.
Oyster culture structures support a host of epibionts belonging to the same suspension-feeding guild, which are considered to be potential competitors for food with cultivated oysters. In an ...intertidal shellfish ecosystem on the northern French coast, an approach based on stable isotopes (13C and15N) was used to investigate intra- and interspecific food resource partitioning among cultivated oysters and the main associated wild sessile epibionts such as polychaetes, barnacles, mussels and ascidians. The main objective of the present study was to determine inter- and intraspecific food partitioning, along with small-scale spatial variability, within the guild of suspension feeders. We demonstrated that interspecific competition was limited among co-occurring suspension-feeders (ascidians, serpulid and terebellid polychaetes, bivalves and barnacles). None of the studied species had similar δ13C and δ15N signatures, indicating that relative contributions of organic matter sources may differ for each suspension-feeding species. Spatial variability was investigated both from the view of intra- and interspecific variability. Intraspecific variability was examined with regard to species’ feeding biology and the trophic plasticity of co-occurring suspension-feeders. Mantel tests indicated that spatial heterogeneity resulted not only from environmental conditions, such as elevation above sea level (a.s.l.) and sediment features, but also from the inherent spatial structure of isotopic signatures. Our results show that isotopic approaches that are limited to sampling in one area and at one time are at risk of mistaking trophic interactions.
Coupled parametric active contours Zimmer, C.; Olivo-Marin, J.-C.
IEEE transactions on pattern analysis and machine intelligence,
11/2005, Letnik:
27, Številka:
11
Journal Article
Recenzirano
We propose an extension of parametric active contours designed to track nonoccluding objects transiently touching each other, a task where both parametric and single level set-based methods usually ...fail. Our technique minimizes a cost functional that depends on all contours simultaneously and includes a penalty for contour overlaps. This scheme allows us to take advantage of known constraints on object topology, namely, that objects cannot merge. The coupled contours preserve the identity of previously isolated objects during and after a contact event, thus allowing segmentation and tracking to proceed as desired.
We propose a method to detect and track multiple moving biological spot-like particles showing different kinds of dynamics in image sequences acquired through multidimensional fluorescence ...microscopy. It enables the extraction and analysis of information such as number, position, speed, movement, and diffusion phases of, e.g., endosomal particles. The method consists of several stages. After a detection stage performed by a three-dimensional (3-D) undecimated wavelet transform, we compute, for each detected spot, several predictions of its future state in the next frame. This is accomplished thanks to an interacting multiple model (IMM) algorithm which includes several models corresponding to different biologically realistic movement types. Tracks are constructed, thereafter, by a data association algorithm based on the maximization of the likelihood of each IMM. The last stage consists of updating the IMM filters in order to compute final estimations for the present image and to improve predictions for the next image. The performances of the method are validated on synthetic image data and used to characterize the 3-D movement of endocytic vesicles containing quantum dots.
This paper presents a segmentation and tracking method for quantitative analysis of cell dynamics from in vitro videomicroscopy data. The method is based on parametric active contours and includes ...several adaptations that address important difficulties of cellular imaging, particularly the presence of low-contrast boundary deformations known as pseudopods, and the occurence of multiple contacts between cells. First, we use an edge map based on the average intensity dispersion that takes advantage of relative background homogeneity to facilitate the detection of both pseudopods and interfaces between adjacent cells. Second, we introduce a repulsive interaction between contours that allows correct segmentation of objects in contact and overcomes the shortcomings of previously reported techniques to enforce contour separation. Our tracking technique was validated on a realistic data set by comparison with a manually defined ground-truth and was successfully applied to study the motility of amoebae in a biological research project.
In the yeast Saccharomyces cerevisiae that lacks lamins, the nuclear pore complex (NPC) has been proposed to serve a role in chromatin organization. Here, using fluorescence microscopy in living ...cells, we show that nuclear pore proteins of the Nup84 core complex, Nup84p, Nup145Cp, Nup120p, and Nup133p, serve to anchor telomere XI-L at the nuclear periphery. The integrity of this complex is shown to be required for repression of a URA3 gene inserted in the subtelomeric region of this chromosome end. Furthermore, altering the integrity of this complex decreases the efficiency of repair of a DNA double-strand break (DSB) only when it is generated in the subtelomeric region, even though the repair machinery is functional. These effects are specific to the Nup84 complex. Our observations thus confirm and extend the role played by the NPC, through the Nup84 complex, in the functional organization of chromatin. They also indicate that anchoring of telomeres is essential for efficient repair of DSBs occurring therein and is important for preserving genome integrity.
In mammals, the olfactory bulb (OB) constitutes one of two regions of the postnatal brain with continuous neurogenesis throughout life. Despite intense explorations of neuronal replacement in the ...adult OB, little is known about the mechanisms that operate at earlier postnatal stages. This question is particularly pertinent, because the majority of local interneurons are born in the neonate, when olfaction controls vital functions. Here, we analyzed the recruitment of newborn cells to the granule cell (GC) layer (GCL) and found that the postnatal mouse OB is supplied with two spatiotemporally distinct populations of newborn interneurons. Early born postnatal day 3 (P3) to P7 GCs constitute a threefold larger population compared with those generated later (P14-P60), and some of them are produced locally within the OB itself. Newborn interneurons generated at P3-P7 were predominantly targeted to the external edge of the GCL, whereas newly generated cells were positioned deeper in older mice. Additionally, although approximately 50% of adult newborn cells were eliminated within a few weeks of reaching the OB, almost the entire population of early born GCs survived until adulthood. Importantly, early olfactory experience specifically modifies the number of newborn GCs in neonates but leaves unaltered the amount of neurons generated during adulthood. Together, these results demonstrate that early postnatal neurogenesis endows the neonate bulbar circuit with newborn GCs that differ morphologically and functionally from those produced in the adult.
Summary
Malaria is contracted when Plasmodium sporozoites are inoculated into the vertebrate host during the blood meal of a mosquito. In infected mosquitoes, sporozoites are present in large numbers ...in the secretory cavities of the salivary glands at the most distal site of the salivary system. However, how sporozoites move through the salivary system of the mosquito, both in resting and feeding mosquitoes, is unknown. Here, we observed fluorescent Plasmodium berghei sporozoites within live Anopheles stephensi mosquitoes and their salivary glands and ducts. We show that sporozoites move in the mosquito by gliding, a type of motility associated with their capacity to invade host cells. Unlike in vitro, sporozoite gliding inside salivary cavities and ducts is modulated in speed and motion pattern. Imaging of sporozoite discharge through the proboscis of salivating mosquitoes indicates that sporozoites need to locomote from cavities into ducts to be ejected and that their progression inside ducts favours their early ejection. These observations suggest that sporozoite gliding allows not only for cell invasion but also for parasite locomotion in host tissues, and that it may control parasite transmission.
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