Report on the method for determining the location of the polar vortex boundary region

To determine the boundary region of the polar vortex objectively using the PV distribution on isentropic surfaces, the equivalent latitude(Eql) of the polar vortex boundary was calculated using a slightly modified form of the technique of E.R. Nash et al.(J. Geophys. Res., 101D, 9471, 1996). Using the NCEP/NCAR reanal- ysis data, the Eql of the polar vortex boundary region in the winter of 1999/2000 was calculated, and compared with the ozone mixing ratio in the lower stratosphere over Eureka observatory(80°N , 86°W ). The results indicate that this method determines the boundary region of the polar vortex well

Can High Frequency Acoustic Waves Heat the Quiet Sun Chromosphere?

We use Hinode/SOT Ca II H-line and blue continuum broadband observations to study the presence and power of high frequency acoustic waves at high spatial resolution. We find that there is no dominant power at small spatial scales; the integrated power using the full resolution of Hinode (0.05'' pixels, 0.16'' resolution) is larger than the power in the data degraded to 0.5'' pixels (TRACE pixel size) by only a factor of 1.2. At 20 mHz the ratio is 1.6. Combining this result with the estimates of the acoustic flux based on TRACE data of Fossum & Carlsson (2006), we conclude that the total energy flux in acoustic waves of frequency 5-40 mHz entering the internetwork chromosphere of the quiet Sun is less than 800 W m$^{-2}$, inadequate to balance the radiative losses in a static chromosphere by a factor of five.Comment: 6 pages, 8 figures, accepted for publication in PASJ (special Hinode issue

Apparent stratospheric ozone loss rate over Eureka in 1994/95, 1995/96, and 1996/97 inferred from ECC ozonesonde observations

Many ECC-type ozonesondes were launched at the Canadian Arctic Eureka observatory(80°N , 86°W ), one of the most northern stations in the Arctic, during winters from 1993/94 to 2001/02, and the temporal evolutions of the vertical ozone profiles were obtained in detail. The lower stratospheric temperature over Eureka was very low inside the polar vortex and the largest ozone loss was observed in 1999/2000, as reported in a previous paper. Similarly, Eureka was often or persistently inside the vortex in the lower stratosphere(around the 470K isentropic surface level) in the winters of 1994/95, 1995/96, and 1996/97. Very low temperatures were observed inside the vortex in the lower stratosphere over Eureka, as indicated by detection of PSCs by Mie lidar. Observations of tracers(N_2O, total reactive nitrogen species(NOy), and others) inside the vortex during these winters using an ER-2 aircraft and balloons indicated that the effect of air parcel mixing across the vortex edge was minimal, based on the tracer-tracer relationship(e.g., Y. Kondo et al.; J. Geophys. Res., 104D, 8215, 1999). Therefore, significant decreases of the in-travortex ozone mixing ratio in the lower stratosphere were considered to be chemical ozone losses due to chlorine activation of PSCs following diabatic descent. The apparent ozone loss rate inside the vortex over Eureka was estimated for each year. The rates ranged from 0.01 to 0.03ppmv/day, less than that observed in 1999/2000(0.04ppmv/day). The observations were conducted at a single station; however, the apparent ozone loss rate over Eureka inside the vortex each year agrees with loss rates obtained in other studies

Observations of Sunspot Oscillations in G band and Ca II H line with Solar Optical Telescope on Hinode

Exploiting high-resolution observations made by the Solar Optical Telescope onboard Hinode, we investigate the spatial distribution of power spectral density of oscillatory signal in and around NOAA active region 10935. The G-band data show that in the umbra the oscillatory power is suppressed in all frequency ranges. On the other hand, in Ca II H intensity maps oscillations in the umbra, so-called umbral flashes, are clearly seen with the power peaking around 5.5 mHz. The Ca II H power distribution shows the enhanced elements with the spatial scale of the umbral flashes over most of the umbra but there is a region with suppressed power at the center of the umbra. The origin and property of this node-like feature remain unexplained.Comment: 7 pages, 8 figures, accepted for publication in PASJ (Hinode Special Issue

Development of a novel data mining tool to find cis-elements in rice gene promoter regions

<p>Abstract</p> <p>Background</p> <p>Information on more than 35 000 full-length <it>Oryza sativa </it>cDNAs, together with associated microarray gene expression data collected under various treatment conditions, has made it feasible to identify motifs that are conserved in gene promoters and may act as <it>cis</it>-regulatory elements with key roles under the various conditions.</p> <p>Results</p> <p>We have developed a novel tool that searches for <it>cis</it>-element candidates in the upstream, downstream, or coding regions of differentially regulated genes. The tool first lists <it>cis-</it>element candidates by motif searching based on the supposition that if there are <it>cis-</it>elements playing important roles in the regulation of a given set of genes, they will be statistically overrepresented and will be conserved. Then it evaluates the likelihood scores of the listed candidate motifs by association rule analysis. This strategy depends on the idea that motifs overrepresented in the promoter region could play specific roles in the regulation of expression of these genes. The tool is designed so that any biological researchers can use it easily at the publicly accessible Internet site <url>http://hpc.irri.cgiar.org/tool/nias/ces</url>. We evaluated the accuracy and utility of the tool by using a dataset of auxin-inducible genes that have well-studied <it>cis-</it>elements. The test showed the effectiveness of the tool in identifying significant relationships between <it>cis-</it>element candidates and related sets of genes.</p> <p>Conclusion</p> <p>The tool lists possible <it>cis-</it>element motifs corresponding to genes of interest, and it will contribute to the deeper understanding of gene regulatory mechanisms in plants.</p

Initial Helioseismic Observations by Hinode/SOT

Results from initial helioseismic observations by Solar Optical Telescope onboard Hinode are reported. It has been demonstrated that intensity oscillation data from Broadband Filter Imager can be used for various helioseismic analyses. The k-omega power spectra, as well as corresponding time-distance cross-correlation function that promises high-resolution time-distance analysis below 6-Mm travelling distance, were obtained for G-band and CaII-H data. Subsurface supergranular patterns have been observed from our first time-distance analysis. The results show that the solar oscillation spectrum is extended to much higher frequencies and wavenumbers, and the time-distance diagram is extended to much shorter travel distances and times than they were observed before, thus revealing great potential for high-resolution helioseismic observations from Hinode.Comment: 6 pages, accepted for publication in PAS

Emergence of a Helical Flux Rope Under an Active Region Prominence

Continuous observations were obtained of active region 10953 with the Solar Optical Telescope (SOT) on board the \emph{Hinode} satellite during 2007 April 28 to May 9. A prominence was located over the polarity inversion line (PIL) in the south-east of the main sunspot. These observations provided us with a time series of vector magnetic fields on the photosphere under the prominence. We found four features: (1) The abutting opposite-polarity regions on the two sides along the PIL first grew laterally in size and then narrowed. (2) These abutting regions contained vertically-weak, but horizontally-strong magnetic fields. (3) The orientations of the horizontal magnetic fields along the PIL on the photosphere gradually changed with time from a normal-polarity configuration to a inverse-polarity one. (4) The horizontal-magnetic field region was blueshifted. These indicate that helical flux rope was emerging from below the photosphere into the corona along the PIL under the pre-existing prominence. We suggest that this supply of a helical magnetic flux into the corona is associated with evolution and maintenance of active-region prominences.Comment: 10 pages, 2 figures, accepted for publication in ApJ Letter

Altered expression of a putative progenitor cell marker DCAMKL1 in the rat gastric mucosa in regeneration, metaplasia and dysplasia

<p>Abstract</p> <p>Background</p> <p>Doublecortin and calcium/calmodulin-dependent protein kinase-like-1 (DCAMKL1) is a candidate marker for progenitor cells in the gastrointestinal mucosa. Lineage cells in the gastric mucosa are derived from progenitor cells, but this process can be altered after injury. Therefore, we explored DCAMKL1 expression under pathological conditions.</p> <p>Methods</p> <p>An immunohistochemical analysis was performed in rat stomach with acute superficial injury, chronic ulcer, intestinal metaplasia and dysplasia.</p> <p>Results</p> <p>DCAMKL1 was exclusively expressed in immature quiescent cells in the isthmus of normal fundic glands, where putative progenitor cells are thought to reside. DCAMKL1-positive cells and proliferating cells shed into the lumen after superficial injury and re-appeared during the regenerative process, mainly in the superficial mucosa. In the marginal mucosa around the active ulcer, parietal and chief cells diminished, foveolar hyperplasia was evident, and trefoil factor family 2 (TFF2)/spasmolytic polypeptide-expressing metaplasia (SPEM) emerged at the gland base. DCAMKL1 cells re-emerged in the deep mucosa juxtaposed with SPEM and proliferating cells. In the healing ulcer, the TFF2 cell population expanded and seemed to redifferentiate to chief cells, while proliferating cells and DCAMKL1 cells appeared above and below the TFF2 cells to promote healing. SPEM appeared and PCNA cells increased in the intestinalized mucosa, and DCAMKL1 was expressed in the proximity of the PCNA cells in the deep mucosa. DCAMKL1, PCNA and TFF2 were expressed in different dysplastic cells lining dilated glands near SPEM.</p> <p>Conclusion</p> <p>The ultrastructural appearance of DCAMKL1-positive cells and the expression patterns of DCAMKL1 in normal and pathological states indicate that the cells belong to a progenitor cell population. DCAMKL1 expression is closely associated with TFF2/SPEM cells after injury. DCAMKL1 cells repopulate close to proliferating, hyperplastic, metaplastic and dysplastic cells, and the progenitor zone shifts according to the pathological circumstances.</p