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To validate these findings further, we performed a regional analysis using the same window size and MAF restrictions in the validation data set (Fig. 3b). A well-described pathogenic founder missense variant, c.2386T>C (p.C796R), was overrepresented in these definite ARVC probands. For this reason, only this region of the transcript met statistical significance at FDR 0.01. However, the odds of disease association in this analysis do reproduce several armadillo repeats and also display a peak near the HR2 domain, overlapping with many of the enriched windows identified in the discovery data set analysis.
Desmosomal cadherins (desmogleins and desmocollins) are located at desmosomes. They have five EC domains, a transmembrane domain, and an intracellular CCD that interacts with armadillo family members plakoglobin and plakophilin, which link the cadherins to intermediate filaments via the protein desmoplakin [25, 26].
Cadherins have classically been described as molecules that regulate calcium-dependent cell adhesion in metazoans [30,31,32,33]. However, cadherins containing EC domains, EGF-like domains and a single pass transmembrane domain have been identified in the genome of the unicellular filasterean Capsaspora owczarzaki and of several choanoflagellates, implying cadherins are a shared feature of Filozoa [34, 35]. A classical-like cadherin similar to Type-IV superfamily members, containing both EC repeats and a CCD was identified in the sponge Oscarella carmela, suggesting that interaction with armadillo family proteins evolved in an ancestral metazoan [35, 36].
The Stanford Distributed Acoustic Sensing Array (SDASA-1) has been continuously recording seismic data since September 2016 on 2.5 km of single mode fiber optics in existing telecommunications conduits under Stanford's campus. The array is figure-eight shaped and roughly 600 m along its widest side with a channel spacing of roughly 8 m. This array is easy to maintain and is nonintrusive, making it well suited to urban environments, but it sacrifices some cable-to-ground coupling compared to more traditional seismometers. We have been testing its utility for earthquake recording, active seismic, and ambient noise interferometry. This talk will focus on earthquake observations. We will show comparisons between the strain rates measured throughout the DAS array and the particle velocities measured at the nearby Jasper Ridge Seismic Station (JRSC). In some of these events, we will point out directionality features specific to DAS that can require slight modifications in data processing. We also compare repeatability of DAS and JRSC recordings of blasts from a nearby quarry. Using existing earthquake databases, we have created a small catalog of DAS earthquake observations by pulling records of over 700 Northern California events spanning Sep. 2016 to Jul. 2017 from both the DAS data and JRSC. On these events we have tested common array methods for earthquake detection and location including beamforming and STA/LTA analysis in time and frequency. We have analyzed these events to approximate thresholds on what distances and magnitudes are clearly detectible by the DAS array. Further analysis should be done on detectability with methods tailored to small events (for example, template matching). In creating this catalog, we have developed open source software available for free download that can manage large sets of continuous seismic data files (both existing files, and files as they stream in). This software can both interface with existing earthquake networks, and
About half of the mammalian genome is composed of retroposons. Long interspersed elements (LINEs) and short interspersed elements (SINEs) are the most abundant repetitive elements and account for about 21% and 13% of the human genome, respectively. SINEs have been detected in all major mammalian lineages, except for the South American order Xenarthra, also termed Edentata (armadillos, anteaters, and sloths). Investigating this order, we discovered a novel high-copy-number family of tRNA derived SINEs in the nine-banded armadillo Dasypus novemcinctus, a species that successfully crossed the Central American land bridge to North America in the Pliocene. A specific computer algorithm was developed, and we detected and extracted 687 specific SINEs from databases. Termed DAS-SINEs, we further divided them into six distinct subfamilies. We extracted tRNA(Ala)-derived monomers, two types of dimers, and three subfamilies of chimeric fusion products of a tRNA(Ala) domain and an approximately 180-nt sequence of thus far unidentified origin. Comparisons of secondary structures of the DAS-SINEs' tRNA domains suggest selective pressure to maintain a tRNA-like D-arm structure in the respective founder RNAs, as shown by compensatory mutations. By analysis of subfamily-specific genetic variability, comparison of the proportion of direct repeats, and analysis of self-integrations as well as key events of dimerization and deletions or insertions, we were able to delineate the evolutionary history of the DAS-SINE subfamilies.
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