HuR biological function involves RRM3-mediated dimerization and RNA binding by all three RRMs

HuR/ELAVL1 is an RNA-binding protein involved in differentiation and stress response that acts primarily by stabilizing messenger RNA (mRNA) targets. HuR comprises three RNA recognition motifs (RRMs) where the structure and RNA binding of RRM3 and of full-length HuR remain poorly understood. Here, we report crystal structures of RRM3 free and bound to cognate RNAs. Our structural, NMR and biochemical data show that RRM3 mediates canonical RNA interactions and reveal molecular details of a dimerization interface localized on the α-helical face of RRM3. NMR and SAXS analyses indicate that the three RRMs in full-length HuR are flexibly connected in the absence of RNA, while they adopt a more compact arrangement when bound to RNA. Based on these data and crystal structures of tandem RRM1,2-RNA and our RRM3-RNA complexes, we present a structural model of RNA recognition involving all three RRM domains of full-length HuR. Mutational analysis demonstrates that RRM3 dimerization and RNA binding is required for functional activity of full-length HuR in vitro and to regulate target mRNAs levels in human cells, thus providing a fine-tuning for HuR activity in vivo.España, MINECO BFU2015-71017España, Junta de Andalucía CVI-BIO198; P11-CVI7216 to I.D.M

SuprimeCam Observation of Sporadic Meteors during Perseids 2004

We report the serendipitous findings of 13 faint meteors and 44 artificial space objects by Subaru SuprimeCam imaging observations during 11-16 August 2004. The meteors, at about 100km altitude, and artificial satellites/debris in orbit, at 500km altitude or higher, were clearly discriminated by their apparent defocused image sizes. CCD photometry of the 13 meteors, including 1 Perseid, 1 Aquarid, and 11 sporadic meteors, was performed. We defined a peak video-rate magnitude by comparing the integrated photon counts from the brightest portion of the track traversed within 33ms to those from a 0-mag star during the same time duration. This definition gives magnitudes in the range 4.0< V_{vr} <6.4 and 4.1< I_{vr}<5.9 for these 13 meteors. The corresponding magnitude for virtual naked-eye observers could be somewhat fainter especially for the V-band observation, in which the [OI] 5577 line lasting about 1 sec as an afterglow could contribute to the integrated flux of the present 5-10 min CCD exposures. Although the spatial resolution is insufficient to resolve the source size of anything smaller than about 1 m, we developed a new estimate of the collisionally excited column diameter of these meteors. A diameter as small as a few mm was derived from their collisionally excited photon rates, meteor speed, and the volume density of the oxygen atoms at the 100km altitude. The actual column diameter of the radiating zone, however, could be as large as few 100m because the excited atoms travel that distance before they emit forbidden lines in 0.7 sec of its average lifetime. Among the 44 artificial space objects, we confirmed that 17 were cataloged satellites/space debris.Comment: 14 pages, 13 figures, 5 tables, submitted to PAS

Automatic Change of SDR Parameters\u27 Values During Runtime in GNURADIO for Satellite Communication Subsystem

Shifting from traditional hardware radios to the Software-Defined Radio (SDR) is becoming reality, and SDRs are going rapidly to dominate the satellite communication subsystems. For testing designs, researchers use many tools such as the popular GNURADIO software which programs and controls SDR devices by providing signal processing blocks implementing the desired signals as well as hardware interface blocks. It is user-friendly and simple to beginners. Moreover, it has powerful and advanced capabilities for more complex missions. In some cases, we need to modify communication parameters such as frequency, data rate or modulation scheme without relaunching the program. Many times, the values of these changes are not available until the runtime, thus parameter’s new values need to be fed to the communication program while it is running. As a case study, this paper presents a method of changing SDR transmit and receive frequency in GNURADIO to compensate for the doppler shift effect. The main code that is generated by GNURADIO in Python is modified and linked with another Python program to calculate doppler shift frequencies. The real-time frequency value is fed to the SDR device blocks in GNURADIO while it is running using networking protocols. The frequency calculation code is based on PyEphem library. This program uses the two-line elements set (TLE) to know the satellite position then it uses the ground station coordinates as an input in order to find the relative velocity which is the main factor to calculate the doppler shift frequencies. The system is tested using a laptop, Raspberry Pi 4, LimeSDR and RTL-SDR devices. Methods of handling such issues directly affect the efficiency of the communication which lead to more robust links to improve satellites data delivery capacity

Optical to Near-IR Spectrum of a Massive Evolved Galaxy at z = 1.26

We present the optical to near-infrared (IR) spectrum of the galaxy TSPS J1329-0957, a red and bright member of the class of extremely red objects (EROs) at z = 1.26. This galaxy was found in the course of the Tokyo-Stromlo Photometry Survey (TSPS) which we are conducting in the southern sky. The spectroscopic observations were carried out with the Gemini Multi-Object Spectrograph (GMOS) and the Gemini Near Infra-Red Spectrograph (GNIRS) mounted on the Gemini-South telescope. The wide wavelength coverage of 0.6 - 2.3 um provides useful clues as to the nature of EROs while most published spectra are limited to a narrower spectral range which is dictated by the need for efficient redshift determination in a large survey. We compare our spectrum with several optical composite spectra obtained in recent large surveys, and with stellar population synthesis models. The effectiveness of using near-IR broad-band data, instead of the spectral data, in deriving the galaxy properties are also investigated. We find that TSPS J1329-0957 formed when the universe was 2 - 3 Gyr old, and subsequently evolved passively to become one of the most massive galaxies found in the z = 1 - 2 universe. Its early type and estimated stellar mass of M* = 10^{11.5} Msun clearly point to this galaxy being a direct ancestor of the brightest elliptical and spheroidal galaxies in the local universe.Comment: 18 pages, 4 figures. Accepted for publication in Ap

Theory of ac electrokinetic behavior of spheroidal cell suspensions with an intrinsic dispersion

The dielectric dispersion, dielectrophoretic (DEP) and electrorotational (ER) spectra of spheroidal biological cell suspensions with an intrinsic dispersion in the constituent dielectric constants are investigated. By means of the spectral representation method, we express analytically the characteristic frequencies and dispersion strengths both for the effective dielectric constant and the Clausius-Mossotti factor (CMF). We identify four and six characteristic frequencies for the effective dielectric spectra and CMF respectively, all of them being dependent on the depolarization factor (or the cell shape). The analytical results allow us to examine the effects of the cell shape, the dispersion strength and the intrinsic frequency on the dielectric dispersion, DEP and ER spectra. Furthermore, we include the local-field effects due to the mutual interactions between cells in a dense suspension, and study the dependence of co-field or anti-field dispersion peaks on the volume fractions.Comment: accepted by Phys. Rev.

Automatic Change of SDR Parameters\u27 Values During Runtime in GNURADIO for Satellite Communication Subsystem

Shifting from traditional hardware radios to the Software-Defined Radio (SDR) is becoming reality, and SDRs are going rapidly to dominate the satellite communication subsystems. For testing designs, researchers use many tools such as the popular GNURADIO software which programs and controls SDR devices by providing signal processing blocks implementing the desired signals as well as hardware interface blocks. It is user-friendly and simple to beginners. Moreover, it has powerful and advanced capabilities for more complex missions. In some cases, we need to modify communication parameters such as frequency, data rate or modulation scheme without relaunching the program. Many times, the values of these changes are not available until the runtime, thus parameter’s new values need to be fed to the communication program while it is running. As a case study, this paper presents a method of changing SDR transmit and receive frequency in GNURADIO to compensate for the doppler shift effect. The main code that is generated by GNURADIO in Python is modified and linked with another Python program to calculate doppler shift frequencies. The real-time frequency value is fed to the SDR device blocks in GNURADIO while it is running using networking protocols. The frequency calculation code is based on PyEphem library. This program uses the two-line elements set (TLE) to know the satellite position then it uses the ground station coordinates as an input in order to find the relative velocity which is the main factor to calculate the doppler shift frequencies. The system is tested using a laptop, Raspberry Pi 4, LimeSDR and RTL-SDR devices. Methods of handling such issues directly affect the efficiency of the communication which lead to more robust links to improve satellites data delivery capacity.35th Annual Small Satellite Conference, August 7-12, 2021, United States (Virtual

Design of Software-Defined Radio-Based Adaptable Packet Communication System for Small Satellites

Software-defined radio (SDR) devices have made a massive contribution to communication systems by reducing the cost and development time for radio frequency (RF) designs. SDRs opened the gate to programmers and enabled them to increase the capabilities of these easily manipulated systems. The next step is to upgrade the reconfigurability into adaptability, which is the focus of this paper. This research contributes to improving SDR-based systems by designing an adaptable packet communication transmitter and receiver that can utilize the communication window of CubeSats and small satellites. According to the feedback from the receiver, the transmitter modifies the characteristics of the signal. Theoretically, the system can adopt many modes, but for simplicity and to prove the concept, here, the changes are limited to three data rates of the Gaussian minimum shift keying (GMSK) modulation scheme, i.e., 2400 bps GMSK, 4800 bps GMSK and 9600 bps GMSK, which are the most popular in amateur small satellites. The system program was developed using GNU Radio Companion (GRC) software and Python scripts. With the help of GRC software, the design was simulated and its behavior in simulated conditions observed. The transmitter packetizes the data into AX.25 packets and transmits them in patches. Between these patches, it sends signaling packets. The patch size is preselected. Alternatively, the receiver extracts the data and saves it in a dedicated file. It directly replies with a feedback message whenever it gets the signaling packets. Based on the content of the feedback message, the characteristics of the transmitted signal are altered. The packet rate and the actual useful data rate are measured and compared with the selected data rate, and the packet success rate of the system operating at a fixed data rate is also measured while simulating channel noise to achieve the desired Signal-to-Noise Ratio (SNR)

Left-right asymmetric expression of dpp in the mantle of gastropods correlates with asymmetric shell coiling

This is the final version of the article. Available from BMC via the DOI in this record.BACKGROUND: Various shapes of gastropod shells have evolved ever since the Cambrian. Although theoretical analyses of morphogenesis exist, the molecular basis of shell development remains unclear. We compared expression patterns of the decapentaplegic (dpp) gene in the shell gland and mantle tissues at various developmental stages between coiled-shell and non-coiled-shell gastropods. RESULTS: We analyzed the expression patterns of dpp for the two limpets Patella vulgata and Nipponacmea fuscoviridis, and for the dextral wild-type and sinistral mutant lineage of the pond snail Lymnaea stagnalis. The limpets had symmetric expression patterns of dpp throughout ontogeny, whereas in the pond snail, the results indicated asymmetric and mirror image patterns between the dextral and sinistral lineages. CONCLUSION: We hypothesize that Dpp induces mantle expansion, and the presence of a left/right asymmetric gradient of the Dpp protein causes the formation of a coiled shell. Our results provide a molecular explanation for shell, coiling including new insights into expression patterns in post-embryonic development, which should aid in understanding how various shell shapes are formed and have evolved in the gastropods.This study was supported by the JSPS Grants-in-Aid for Scientific Research 15104009