One of the main challenges for computer-assisted surgery (CAS) is to determine the intra-operative morphology and motion of soft-tissues. This information is prerequisite to the registration of multi-modal patient-specific data for enhancing the surgeon's navigation capabilites by observing beyond exposed tissue surfaces and for providing intelligent control of robotic-assisted instruments. In minimally invasive surgery (MIS), optical techniques are an increasingly attractive approach for in vivo 3D reconstruction of the soft-tissue surface geometry. This paper reviews the state-of-the-art methods for optical intra-operative 3D reconstruction in laparoscopic surgery and discusses the technical challenges and future perspectives towards clinical translation. With the recent paradigm shift of surgical practice towards MIS and new developments in 3D optical imaging, this is a timely discussion about technologies that could facilitate complex CAS procedures in dynamic and deformable anatomical regions.

Analyses of organic matter content, organic carbon, nitrogen, sulfur and granulometric variables were performed on 101 surface sediment samples from Ubatuba Bay in order to investigate the spatial distribution of organic matter, its origin and the relationships among its components. The samples were obtained with a manual corer, from water depths between 1 and 15m during 5 cruises of the R/V ''Veliger II'', two months apart. Pearson correlation, regression and Principal Component Analysis (PCA) statistical methods were used to analyze the data. Strong correlations between organic matter and fine sediment fractions were obtained. The PCA revealed at least two main sample groups that reflect the different environmental conditions prevalent in the bay. There is a simple linear relationship between organic carbon content and the organic matter content determined by the calcination technique. Taking into account that the analysis of organic matter content is less expensive and less time consuming than the analysis of organic carbon, the present method of estimation can be useful when fast evaluation of the organic carbon content is needed for samples from similar environments.

BackgroundFree-living flatworms, in both marine and freshwater environments, are able to adhere to and release from a substrate several times within a second. This reversible adhesion relies on adhesive organs comprised of three cell types: an adhesive gland cell, a releasing gland cell, and an anchor cell, which is a modified epidermal cell responsible for structural support. However, nothing is currently known about the molecules that are involved in this adhesion process.ResultsIn this study we present the detailed morphology of the adhesive organs of the free-living marine flatworm Macrostomum lignano. About 130 adhesive organs are located in a horse-shoe-shaped arc along the ventral side of the tail plate. Each organ consists of exactly three cells, an adhesive gland cell, a releasing gland cell, and an anchor cell. The necks of the two gland cells penetrate the anchor cell through a common pore. Modified microvilli of the anchor cell form a collar surrounding the necks of the adhesive- and releasing glands, jointly forming the papilla, the outer visible part of the adhesive organs. Next, we identified an intermediate filament (IF) gene, macif1, which is expressed in the anchor cells. RNA interference mediated knock-down resulted in the first experimentally induced non-adhesion phenotype in any marine animal. Specifically, the absence of intermediate filaments in the anchor cells led to papillae with open tips, a reduction of the cytoskeleton network, a decline in hemidesmosomal connections, and to shortened microvilli containing less actin.ConclusionOur findings reveal an elaborate biological adhesion system in a free-living flatworm, which permits impressively rapid temporary adhesion-release performance in the marine environment. We demonstrate that the structural integrity of the supportive cell, the anchor cell, is essential for this adhesion process: the knock-down of the anchor cell-specific intermediate filament gene resulted in the inability of the animals to adhere. The RNAi mediated changes of the anchor cell morphology are comparable to situations observed in human gut epithelia. Therefore, our current findings and future investigations using this powerful flatworm model system might contribute to a better understanding of the function of intermediate filaments and their associated human diseases.

No abstract

The differentiated ectodermal basal disc cells of the freshwater cnidarian Hydra secrete proteinaceous glue to temporarily attach themselves to underwater surfaces. Using transcriptome sequencing and a basal disc-specific RNA-seq combined with in situ hybridisation a highly specific set of candidate adhesive genes was identified. A de novo transcriptome assembly of 55,849 transcripts (>200 bp) was generated using paired-end and single reads from Illumina libraries constructed from different polyp conditions. Differential transcriptomics and spatial gene expression analysis by in situ hybridisation allowed the identification of 40 transcripts exclusively expressed in the ectodermal basal disc cells. Comparisons after mass spectrometry analysis of the adhesive secretion showed a total of 21 transcripts to be basal disc specific and eventually secreted through basal disc cells. This is the first study to survey adhesion-related genes in Hydra. The candidate list presented in this study provides a platform for unravelling the molecular mechanism of underwater adhesion of Hydra.

No abstract

This document is the author deposited version. You are advised to consult the publisher's version if you wish to cite from it. SIDDEQ, M and RODRIGUES, Marcos (2015). A novel 2D image compression algorithm based on two levels DWT and DCT transforms with enhanced minimizematrix-size algorithm for high resolution structured light 3D surface reconstruction. 3D Research, 6 (3), p. 26. Published version Copyright and re-use policy AbstractImage compression techniques are widely used in 2D and 3D image and video sequences. There are many types of compression techniques and among the most popular are JPEG and JPEG2000. In this research, we introduce a new compression method based on applying a two level Discrete Wavelet Transform (DWT) and a two level Discrete Cosine Transform (DCT) in connection with novel compression steps for high-resolution images. The proposed image compression algorithm consists of 4 steps: 1) Transform an image by a two level DWT followed by a DCT to produce two matrices: DC-and AC-Matrix, or low and high frequency matrix respectively; 2) apply a second level DCT to the DC-Matrix to generate two arrays, namely nonzero-array and zero-array; 3) apply the Minimize-Matrix-Size (MMS) algorithm to the AC-Matrix and to the other high-frequencies generated by the second level DWT; 4) apply arithmetic coding to the output of previous steps. A novel Fast-Match-Search (FMS) decompression algorithm is used to reconstruct all high-frequency matrices. The FMS-algorithm computes all compressed data probabilities by using a table of data, and then using a binary search algorithm for finding decompressed data inside the table. Thereafter, all decoded DC-values with the decoded AC-coefficients are combined into one matrix followed by inverse two level DCT with two level DWT. The technique is tested by compression and reconstruction of 3D surface patches. Additionally, this technique is compared with JPEG and JPEG2000 algorithm through 2D and 3D RMSE following reconstruction. The results demonstrate that the proposed compression method has better visual properties than JPEG and JPEG2000 and is able to more accurately reconstruct surface patches in 3D.

No abstract