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  • 1
    Publication Date: 2013-04-26
    Description: We report on multiwavelength observations of the blazar PKS 0537–441 ( z  = 0.896) obtained from microwaves through -rays by Submillimeter Array, Rapid Eye Mounting, Automatic Telescope for Optical Monitoring (ATOM), Swift and Fermi mostly during 2008 August–2010 April. Strong variability has been observed in -rays, with two major flaring episodes (2009 July and 2010 March) and a harder-when-brighter behaviour, quite common for flat spectrum radio quasars and low-synchrotron-peaked BL Lacertae objects (BL Lacs), in 2010 March. In the same way, the spectral energy distribution (SED) of the source cannot be modelled by a simple synchrotron self-Compton model, as opposed to many BL Lacs, but the addition of an external Compton component of seed photons from a dust torus is needed. The 230 GHz light curve showed an increase simultaneous with the -ray one, indicating co-spatiality of the mm and -ray emission region likely at large distance from the central engine. The low, average, and high activity SED of the source could be fit changing only the electron distribution parameters, but two breaks in the electron distribution are necessary. The ensuing extra spectral break, located at near-infrared (NIR)–optical frequencies, together with that in -rays seem to indicate a common origin, most likely due to an intrinsic feature in the underlying electron distribution. An overall correlation between the -ray band with the R band and K band has been observed with no significant time lag. On the other hand, when inspecting the light curves on short time-scales some differences are evident. In particular, flaring activity has been detected in NIR and optical bands with no evident -ray counterparts in 2009 September and November. Moderate variability has been observed in X-rays with no correlation between flux and photon index. An increase of the detected X-ray flux with no counterpart at the other wavelengths has been observed in 2008 October, suggesting once more a complex correlation between the emission at different energy bands.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 2
    Publication Date: 2016-07-19
    Description: The gel-forming mucins are large glycosylated proteins that are essential components of the mucus layers covering epithelial cells. Using novel methods of identifying mucins based on profile hidden Markov models, we have found a large number of such proteins in Metazoa, aiding in their classification and allowing evolutionary studies. Most vertebrates have 5–6 gel-forming mucin genes and the genomic arrangement of these genes is well conserved throughout vertebrates. An exception is the frog Xenopus tropicalis with an expanded repertoire of at least 26 mucins of this type. Furthermore, we found that the ovomucin protein, originally identified in chicken, is characteristic of reptiles, birds, and amphibians. Muc6 is absent in teleost fish, but we now show that it is present in animals such as ghost sharks, demonstrating an early origin in vertebrate evolution. Public RNA-Seq data were analyzed with respect to mucins in zebrafish, frog, and chicken, thus allowing comparison in regard of tissue and developmental specificity. Analyses of invertebrate proteins reveal that gel-forming-mucin type of proteins is widely distributed also in this group. Their presence in Cnidaria, Porifera, and in Ctenophora (comb jellies) shows that these proteins were present early in metazoan evolution. Finally, we examined the evolution of the FCGBP protein, abundant in mucus and related to gel-forming mucins in terms of structure and localization. We demonstrate that FCGBP, ubiquitous in vertebrates, has a conserved N-terminal domain. Interestingly, this domain is also present as an N-terminal sequence in a number of bacterial proteins.
    Print ISSN: 0737-4038
    Electronic ISSN: 1537-1719
    Topics: Biology
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  • 3
    Publication Date: 2015-12-01
    Description: Mitochondrial dysfunction is a well-established cause of sensorineural deafness, but the pathophysiological events are poorly understood. Non-syndromic deafness and predisposition to aminoglycoside-induced deafness can be caused by specific mutations in the 12S rRNA gene of mtDNA and are thus maternally inherited traits. The pathophysiology induced by mtDNA mutations has traditionally been attributed to deficient oxidative phosphorylation, which causes energy crisis with functional impairment of multiple cellular processes. In contrast, it was recently reported that signaling induced by ‘hypermethylation’ of two conserved adenosines of 12S rRNA in the mitoribosome is of key pathophysiological importance in sensorineural deafness. In support for this concept, it was reported that overexpression of the essential mitochondrial methyltransferase TFB1M in the mouse was sufficient to induce mitoribosomal hypermethylation and deafness. At variance with this model, we show here that 12S rRNA is near fully methylated in vivo in the mouse and thus cannot be further methylated to any significant extent. Furthermore, bacterial artificial chromosome transgenic mice overexpressing TFB1M have no increase of 12S rRNA methylation levels and hear normally. We thus conclude that therapies directed against mitoribosomal methylation are unlikely to be beneficial to patients with sensorineural hearing loss or other types of mitochondrial disease.
    Print ISSN: 0964-6906
    Electronic ISSN: 1460-2083
    Topics: Biology , Medicine
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  • 4
    Publication Date: 2012-07-21
    Description: : Although small non-coding RNAs, such as microRNAs, have well-established functions in the cell, long non-coding RNAs (lncRNAs) have only recently started to emerge as abundant regulators of cell physiology, and their functions may be diverse. A small number of studies describe interactions between small and lncRNAs, with lncRNAs acting either as inhibitory decoys or as regulatory targets of microRNAs, but such interactions are still poorly explored. To facilitate the study of microRNA–lncRNA interactions, we implemented miRcode: a comprehensive searchable map of putative microRNA target sites across the complete GENCODE annotated transcriptome, including 10 419 lncRNA genes in the current version. Availability: http://www.mircode.org Contact: erik.larsson@gu.se Supplementary Information: Supplementary data are available at Bioinformatics online.
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
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  • 5
    Publication Date: 2012-05-02
    Description: KCNQ1 (Kv7.1) is a unique member of the superfamily of voltage-gated K+ channels in that it displays a remarkable range of gating behaviors tuned by coassembly with different β subunits of the KCNE family of proteins. To better understand the basis for the biophysical diversity of KCNQ1 channels, we here investigate the basis of KCNQ1 gating in the absence of β subunits using voltage-clamp fluorometry (VCF). In our previous study, we found the kinetics and voltage dependence of voltage-sensor movements are very similar to those of the channel gate, as if multiple voltage-sensor movements are not required to precede gate opening. Here, we have tested two different hypotheses to explain KCNQ1 gating: (i) KCNQ1 voltage sensors undergo a single concerted movement that leads to channel opening, or (ii) individual voltage-sensor movements lead to channel opening before all voltage sensors have moved. Here, we find that KCNQ1 voltage sensors move relatively independently, but that the channel can conduct before all voltage sensors have activated. We explore a KCNQ1 point mutation that causes some channels to transition to the open state even in the absence of voltage-sensor movement. To interpret these results, we adopt an allosteric gating scheme wherein KCNQ1 is able to transition to the open state after zero to four voltage-sensor movements. This model allows for widely varying gating behavior, depending on the relative strength of the opening transition, and suggests how KCNQ1 could be controlled by coassembly with different KCNE family members.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 6
    Publication Date: 2011-01-04
    Description: The delayed rectifier IKs potassium channel, formed by coassembly of α- (KCNQ1) and β- (KCNE1) subunits, is essential for cardiac function. Although KCNE1 is necessary to reproduce the functional properties of the native IKs channel, the mechanism(s) through which KCNE1 modulates KCNQ1 is unknown. Here we report measurements of voltage sensor movements in KCNQ1 and KCNQ1/KCNE1 channels using voltage clamp fluorometry. KCNQ1 channels exhibit indistinguishable voltage dependence of fluorescence and current signals, suggesting a one-to-one relationship between voltage sensor movement and channel opening. KCNE1 coexpression dramatically separates the voltage dependence of KCNQ1/KCNE1 current and fluorescence, suggesting an imposed requirement for movements of multiple voltage sensors before KCNQ1/KCNE1 channel opening. This work provides insight into the mechanism by which KCNE1 modulates the IKs channel and presents a mechanism for distinct β-subunit regulation of ion channel proteins.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 7
    Publication Date: 2012-10-10
    Description: Transcription factor A (TFAM) functions as a DNA packaging factor in mammalian mitochondria. TFAM also binds sequence-specifically to sites immediately upstream of mitochondrial promoters, but there are conflicting data regarding its role as a core component of the mitochondrial transcription machinery. We here demonstrate that TFAM is required for transcription...
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 8
    Publication Date: 2009-02-21
    Description: Gamma-ray bursts (GRBs) are highly energetic explosions signaling the death of massive stars in distant galaxies. The Gamma-ray Burst Monitor and Large Area Telescope onboard the Fermi Observatory together record GRBs over a broad energy range spanning about 7 decades of gammaray energy. In September 2008, Fermi observed the exceptionally luminous GRB 080916C, with the largest apparent energy release yet measured. The high-energy gamma rays are observed to start later and persist longer than the lower energy photons. A simple spectral form fits the entire GRB spectrum, providing strong constraints on emission models. The known distance of the burst enables placing lower limits on the bulk Lorentz factor of the outflow and on the quantum gravity mass.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Fermi LAT and Fermi GBM Collaborations -- Abdo, A A -- Ackermann, M -- Arimoto, M -- Asano, K -- Atwood, W B -- Axelsson, M -- Baldini, L -- Ballet, J -- Band, D L -- Barbiellini, G -- Baring, M G -- Bastieri, D -- Battelino, M -- Baughman, B M -- Bechtol, K -- Bellardi, F -- Bellazzini, R -- Berenji, B -- Bhat, P N -- Bissaldi, E -- Blandford, R D -- Bloom, E D -- Bogaert, G -- Bogart, J R -- Bonamente, E -- Bonnell, J -- Borgland, A W -- Bouvier, A -- Bregeon, J -- Brez, A -- Briggs, M S -- Brigida, M -- Bruel, P -- Burnett, T H -- Burrows, D -- Busetto, G -- Caliandro, G A -- Cameron, R A -- Caraveo, P A -- Casandjian, J M -- Ceccanti, M -- Cecchi, C -- Celotti, A -- Charles, E -- Chekhtman, A -- Cheung, C C -- Chiang, J -- Ciprini, S -- Claus, R -- Cohen-Tanugi, J -- Cominsky, L R -- Connaughton, V -- Conrad, J -- Costamante, L -- Cutini, S -- Deklotz, M -- Dermer, C D -- de Angelis, A -- de Palma, F -- Digel, S W -- Dingus, B L -- do Couto E Silva, E -- Drell, P S -- Dubois, R -- Dumora, D -- Edmonds, Y -- Evans, P A -- Fabiani, D -- Farnier, C -- Favuzzi, C -- Finke, J -- Fishman, G -- Focke, W B -- Frailis, M -- Fukazawa, Y -- Funk, S -- Fusco, P -- Gargano, F -- Gasparrini, D -- Gehrels, N -- Germani, S -- Giebels, B -- Giglietto, N -- Giommi, P -- Giordano, F -- Glanzman, T -- Godfrey, G -- Goldstein, A -- Granot, J -- Greiner, J -- Grenier, I A -- Grondin, M-H -- Grove, J E -- Guillemot, L -- Guiriec, S -- Haller, G -- Hanabata, Y -- Harding, A K -- Hayashida, M -- Hays, E -- Hernando Morat, J A -- Hoover, A -- Hughes, R E -- Johannesson, G -- Johnson, A S -- Johnson, R P -- Johnson, T J -- Johnson, W N -- Kamae, T -- Katagiri, H -- Kataoka, J -- Kavelaars, A -- Kawai, N -- Kelly, H -- Kennea, J -- Kerr, M -- Kippen, R M -- Knodlseder, J -- Kocevski, D -- Kocian, M L -- Komin, N -- Kouveliotou, C -- Kuehn, F -- Kuss, M -- Lande, J -- Landriu, D -- Larsson, S -- Latronico, L -- Lavalley, C -- Lee, B -- Lee, S-H -- Lemoine-Goumard, M -- Lichti, G G -- Longo, F -- Loparco, F -- Lott, B -- Lovellette, M N -- Lubrano, P -- Madejski, G M -- Makeev, A -- Marangelli, B -- Mazziotta, M N -- McBreen, S -- McEnery, J E -- McGlynn, S -- Meegan, C -- Meszaros, P -- Meurer, C -- Michelson, P F -- Minuti, M -- Mirizzi, N -- Mitthumsiri, W -- Mizuno, T -- Moiseev, A A -- Monte, C -- Monzani, M E -- Moretti, E -- Morselli, A -- Moskalenko, I V -- Murgia, S -- Nakamori, T -- Nelson, D -- Nolan, P L -- Norris, J P -- Nuss, E -- Ohno, M -- Ohsugi, T -- Okumura, A -- Omodei, N -- Orlando, E -- Ormes, J F -- Ozaki, M -- Paciesas, W S -- Paneque, D -- Panetta, J H -- Parent, D -- Pelassa, V -- Pepe, M -- Perri, M -- Pesce-Rollins, M -- Petrosian, V -- Pinchera, M -- Piron, F -- Porter, T A -- Preece, R -- Raino, S -- Ramirez-Ruiz, E -- Rando, R -- Rapposelli, E -- Razzano, M -- Razzaque, S -- Rea, N -- Reimer, A -- Reimer, O -- Reposeur, T -- Reyes, L C -- Ritz, S -- Rochester, L S -- Rodriguez, A Y -- Roth, M -- Ryde, F -- Sadrozinski, H F-W -- Sanchez, D -- Sander, A -- Saz Parkinson, P M -- Scargle, J D -- Schalk, T L -- Segal, K N -- Sgro, C -- Shimokawabe, T -- Siskind, E J -- Smith, D A -- Smith, P D -- Spandre, G -- Spinelli, P -- Stamatikos, M -- Starck, J-L -- Stecker, F W -- Steinle, H -- Stephens, T E -- Strickman, M S -- Suson, D J -- Tagliaferri, G -- Tajima, H -- Takahashi, H -- Takahashi, T -- Tanaka, T -- Tenze, A -- Thayer, J B -- Thayer, J G -- Thompson, D J -- Tibaldo, L -- Torres, D F -- Tosti, G -- Tramacere, A -- Turri, M -- Tuvi, S -- Usher, T L -- van der Horst, A J -- Vigiani, L -- Vilchez, N -- Vitale, V -- von Kienlin, A -- Waite, A P -- Williams, D A -- Wilson-Hodge, C -- Winer, B L -- Wood, K S -- Wu, X F -- Yamazaki, R -- Ylinen, T -- Ziegler, M -- New York, N.Y. -- Science. 2009 Mar 27;323(5922):1688-93. doi: 10.1126/science.1169101. Epub 2009 Feb 19.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19228997" target="_blank"〉PubMed〈/a〉
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 9
    Publication Date: 2013-11-23
    Description: Gamma-ray burst (GRB) 130427A is one of the most energetic GRBs ever observed. The initial pulse up to 2.5 seconds is possibly the brightest well-isolated pulse observed to date. A fine time resolution spectral analysis shows power-law decays of the peak energy from the onset of the pulse, consistent with models of internal synchrotron shock pulses. However, a strongly correlated power-law behavior is observed between the luminosity and the spectral peak energy that is inconsistent with curvature effects arising in the relativistic outflow. It is difficult for any of the existing models to account for all of the observed spectral and temporal behaviors simultaneously.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Preece, R -- Burgess, J Michael -- von Kienlin, A -- Bhat, P N -- Briggs, M S -- Byrne, D -- Chaplin, V -- Cleveland, W -- Collazzi, A C -- Connaughton, V -- Diekmann, A -- Fitzpatrick, G -- Foley, S -- Gibby, M -- Giles, M -- Goldstein, A -- Greiner, J -- Gruber, D -- Jenke, P -- Kippen, R M -- Kouveliotou, C -- McBreen, S -- Meegan, C -- Paciesas, W S -- Pelassa, V -- Tierney, D -- van der Horst, A J -- Wilson-Hodge, C -- Xiong, S -- Younes, G -- Yu, H-F -- Ackermann, M -- Ajello, M -- Axelsson, M -- Baldini, L -- Barbiellini, G -- Baring, M G -- Bastieri, D -- Bellazzini, R -- Bissaldi, E -- Bonamente, E -- Bregeon, J -- Brigida, M -- Bruel, P -- Buehler, R -- Buson, S -- Caliandro, G A -- Cameron, R A -- Caraveo, P A -- Cecchi, C -- Charles, E -- Chekhtman, A -- Chiang, J -- Chiaro, G -- Ciprini, S -- Claus, R -- Cohen-Tanugi, J -- Cominsky, L R -- Conrad, J -- D'Ammando, F -- de Angelis, A -- de Palma, F -- Dermer, C D -- Desiante, R -- Digel, S W -- Di Venere, L -- Drell, P S -- Drlica-Wagner, A -- Favuzzi, C -- Franckowiak, A -- Fukazawa, Y -- Fusco, P -- Gargano, F -- Gehrels, N -- Germani, S -- Giglietto, N -- Giordano, F -- Giroletti, M -- Godfrey, G -- Granot, J -- Grenier, I A -- Guiriec, S -- Hadasch, D -- Hanabata, Y -- Harding, A K -- Hayashida, M -- Iyyani, S -- Jogler, T -- Johannesson, G -- Kawano, T -- Knodlseder, J -- Kocevski, D -- Kuss, M -- Lande, J -- Larsson, J -- Larsson, S -- Latronico, L -- Longo, F -- Loparco, F -- Lovellette, M N -- Lubrano, P -- Mayer, M -- Mazziotta, M N -- Michelson, P F -- Mizuno, T -- Monzani, M E -- Moretti, E -- Morselli, A -- Murgia, S -- Nemmen, R -- Nuss, E -- Nymark, T -- Ohno, M -- Ohsugi, T -- Okumura, A -- Omodei, N -- Orienti, M -- Paneque, D -- Perkins, J S -- Pesce-Rollins, M -- Piron, F -- Pivato, G -- Porter, T A -- Racusin, J L -- Raino, S -- Rando, R -- Razzano, M -- Razzaque, S -- Reimer, A -- Reimer, O -- Ritz, S -- Roth, M -- Ryde, F -- Sartori, A -- Scargle, J D -- Schulz, A -- Sgro, C -- Siskind, E J -- Spandre, G -- Spinelli, P -- Suson, D J -- Tajima, H -- Takahashi, H -- Thayer, J G -- Thayer, J B -- Tibaldo, L -- Tinivella, M -- Torres, D F -- Tosti, G -- Troja, E -- Usher, T L -- Vandenbroucke, J -- Vasileiou, V -- Vianello, G -- Vitale, V -- Werner, M -- Winer, B L -- Wood, K S -- Zhu, S -- New York, N.Y. -- Science. 2014 Jan 3;343(6166):51-4. doi: 10.1126/science.1242302. Epub 2013 Nov 21.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Space Science, University of Alabama in Huntsville, Huntsville, AL 35899, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24263132" target="_blank"〉PubMed〈/a〉
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 10
    Publication Date: 2009-08-08
    Description: Flowering time is a complex trait that controls adaptation of plants to their local environment in the outcrossing species Zea mays (maize). We dissected variation for flowering time with a set of 5000 recombinant inbred lines (maize Nested Association Mapping population, NAM). Nearly a million plants were assayed in eight environments but showed no evidence for any single large-effect quantitative trait loci (QTLs). Instead, we identified evidence for numerous small-effect QTLs shared among families; however, allelic effects differ across founder lines. We identified no individual QTLs at which allelic effects are determined by geographic origin or large effects for epistasis or environmental interactions. Thus, a simple additive model accurately predicts flowering time for maize, in contrast to the genetic architecture observed in the selfing plant species rice and Arabidopsis.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Buckler, Edward S -- Holland, James B -- Bradbury, Peter J -- Acharya, Charlotte B -- Brown, Patrick J -- Browne, Chris -- Ersoz, Elhan -- Flint-Garcia, Sherry -- Garcia, Arturo -- Glaubitz, Jeffrey C -- Goodman, Major M -- Harjes, Carlos -- Guill, Kate -- Kroon, Dallas E -- Larsson, Sara -- Lepak, Nicholas K -- Li, Huihui -- Mitchell, Sharon E -- Pressoir, Gael -- Peiffer, Jason A -- Rosas, Marco Oropeza -- Rocheford, Torbert R -- Romay, M Cinta -- Romero, Susan -- Salvo, Stella -- Sanchez Villeda, Hector -- da Silva, H Sofia -- Sun, Qi -- Tian, Feng -- Upadyayula, Narasimham -- Ware, Doreen -- Yates, Heather -- Yu, Jianming -- Zhang, Zhiwu -- Kresovich, Stephen -- McMullen, Michael D -- New York, N.Y. -- Science. 2009 Aug 7;325(5941):714-8. doi: 10.1126/science.1174276.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉U.S. Department of Agriculture (USDA)-Agricultural Research Service (USDA-ARS), USA. esb33@cornell.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19661422" target="_blank"〉PubMed〈/a〉
    Keywords: Alleles ; Chromosome Mapping ; Chromosomes, Plant/genetics ; Epistasis, Genetic ; Flowers/*genetics/growth & development ; Gene Frequency ; Genes, Plant ; Genetic Variation ; Geography ; Inbreeding ; Phenotype ; Polymorphism, Single Nucleotide ; *Quantitative Trait Loci ; Quantitative Trait, Heritable ; Recombination, Genetic ; Time Factors ; Zea mays/*genetics/growth & development/physiology
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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