TY  - JOUR
A1  - Khider, D.
A1  - Emile-Geay, J.
A1  - McKay, N. P.
A1  - Gil, Y.
A1  - Garijo, D.
A1  - Ratnakar, V
A1  - Alonso-Garcia, M.
A1  - Bertrand, S.
A1  - Bothe, O.
A1  - Brewer, P.
A1  - Bunn, A.
A1  - Chevalier, M.
A1  - Comas-Bru, L.
A1  - Csank, A.
A1  - Dassie, E.
A1  - DeLong, K.
A1  - Felis, T.
A1  - Francus, P.
A1  - Frappier, A.
A1  - Gray, W.
A1  - Goring, S.
A1  - Jonkers, L.
A1  - Kahle, M.
A1  - Kaufman, D.
A1  - Kehrwald, N. M.
A1  - Martrat, B.
A1  - McGregor, H.
A1  - Richey, J.
A1  - Schmittner, A.
A1  - Scroxton, N.
A1  - Sutherland, E.
A1  - Thirumalai, Kaustubh
A1  - Allen, K.
A1  - Arnaud, F.
A1  - Axford, Y.
A1  - Barrows, T.
A1  - Bazin, L.
A1  - Birch, S. E. Pilaar
A1  - Bradley, E.
A1  - Bregy, J.
A1  - Capron, E.
A1  - Cartapanis, O.
A1  - Chiang, H-W
A1  - Cobb, K. M.
A1  - Debret, M.
A1  - Dommain, Réne
A1  - Du, J.
A1  - Dyez, K.
A1  - Emerick, S.
A1  - Erb, M. P.
A1  - Falster, G.
A1  - Finsinger, W.
A1  - Fortier, D.
A1  - Gauthier, Nicolas
A1  - George, S.
A1  - Grimm, E.
A1  - Hertzberg, J.
A1  - Hibbert, F.
A1  - Hillman, A.
A1  - Hobbs, W.
A1  - Huber, M.
A1  - Hughes, A. L. C.
A1  - Jaccard, S.
A1  - Ruan, J.
A1  - Kienast, M.
A1  - Konecky, B.
A1  - Le Roux, G.
A1  - Lyubchich, V
A1  - Novello, V. F.
A1  - Olaka, L.
A1  - Partin, J. W.
A1  - Pearce, C.
A1  - Phipps, S. J.
A1  - Pignol, C.
A1  - Piotrowska, N.
A1  - Poli, M-S
A1  - Prokopenko, A.
A1  - Schwanck, F.
A1  - Stepanek, C.
A1  - Swann, G. E. A.
A1  - Telford, R.
A1  - Thomas, E.
A1  - Thomas, Z.
A1  - Truebe, S.
A1  - von Gunten, L.
A1  - Waite, A.
A1  - Weitzel, N.
A1  - Wilhelm, B.
A1  - Williams, J.
A1  - Winstrup, M.
A1  - Zhao, N.
A1  - Zhou, Y.
T1  - PaCTS 1.0: A Crowdsourced Reporting Standard for Paleoclimate Data
JF  - Paleoceanography and paleoclimatology
N2  - The progress of science is tied to the standardization of measurements, instruments, and data. This is especially true in the Big Data age, where analyzing large data volumes critically hinges on the data being standardized. Accordingly, the lack of community-sanctioned data standards in paleoclimatology has largely precluded the benefits of Big Data advances in the field. Building upon recent efforts to standardize the format and terminology of paleoclimate data, this article describes the Paleoclimate Community reporTing Standard (PaCTS), a crowdsourced reporting standard for such data. PaCTS captures which information should be included when reporting paleoclimate data, with the goal of maximizing the reuse value of paleoclimate data sets, particularly for synthesis work and comparison to climate model simulations. Initiated by the LinkedEarth project, the process to elicit a reporting standard involved an international workshop in 2016, various forms of digital community engagement over the next few years, and grassroots working groups. Participants in this process identified important properties across paleoclimate archives, in addition to the reporting of uncertainties and chronologies; they also identified archive-specific properties and distinguished reporting standards for new versus legacy data sets. This work shows that at least 135 respondents overwhelmingly support a drastic increase in the amount of metadata accompanying paleoclimate data sets. Since such goals are at odds with present practices, we discuss a transparent path toward implementing or revising these recommendations in the near future, using both bottom-up and top-down approaches.
KW  - standards
KW  - FAIR
KW  - paleoclimate
KW  - paleoceanography
KW  - data
KW  - best practices
Y1  - 2019
U6  - https://doi.org/10.1029/2019PA003632
SN  - 2572-4517
SN  - 2572-4525
VL  - 34
IS  - 10
SP  - 1570
EP  - 1596
PB  - American Geophysical Union
CY  - Washington
ER  - 
TY  - JOUR
A1  - Allen, C.
A1  - Archambault, S.
A1  - Archer, A.
A1  - Benbow, W.
A1  - Bird, R.
A1  - Bourbeau, E.
A1  - Brose, Robert
A1  - Buchovecky, M.
A1  - Buckley, J. H.
A1  - Bugaev, V.
A1  - Cardenzana, J. V.
A1  - Cerruti, M.
A1  - Chen, Xuhui
A1  - Christiansen, J. L.
A1  - Connolly, M. P.
A1  - Cui, W.
A1  - Daniel, M. K.
A1  - Eisch, J. D.
A1  - Falcone, Abe
A1  - Feng, Q.
A1  - Fernandez-Alonso, M.
A1  - Finley, J. P.
A1  - Fleischhack, H.
A1  - Flinders, A.
A1  - Fortson, L.
A1  - Furniss, A.
A1  - Gillanders, G. H.
A1  - Griffin, S.
A1  - Grube, J.
A1  - Huetten, M.
A1  - Hakansson, N.
A1  - Hanna, D.
A1  - Hervet, O.
A1  - Holder, J.
A1  - Hughes, G.
A1  - Humensky, T. B.
A1  - Johnson, C. A.
A1  - Kaaret, P.
A1  - Kar, P.
A1  - Kelley-Hoskins, N.
A1  - Kertzman, M.
A1  - Kieda, D.
A1  - Krause, M.
A1  - Krennrich, F.
A1  - Kumar, S.
A1  - Lang, M. J.
A1  - Maier, G.
A1  - McArthur, S.
A1  - McCann, A.
A1  - Meagher, K.
A1  - Moriarty, P.
A1  - Mukherjee, R.
A1  - Nguyen, T.
A1  - Nieto, D.
A1  - Ong, R. A.
A1  - Otte, A. N.
A1  - Park, N.
A1  - Petrashyk, A.
A1  - Pichel, A.
A1  - Pohl, Martin
A1  - Popkow, A.
A1  - Pueschel, Elisa
A1  - Quinn, J.
A1  - Ragan, K.
A1  - Reynolds, P. T.
A1  - Richards, G. T.
A1  - Roache, E.
A1  - Rovero, A. C.
A1  - Rulten, C.
A1  - Sadeh, I.
A1  - Santander, Marcos
A1  - Sembroski, G. H.
A1  - Shahinyan, K.
A1  - Telezhinsky, Igor O.
A1  - Tucci, J. V.
A1  - Tyler, J.
A1  - Wakely, S. P.
A1  - Weinstein, A.
A1  - Wilhelm, Alina
A1  - Williams, D. A.
T1  - Very-High-Energy gamma-Ray Observations of the Blazar 1ES 2344+514 with VERITAS
JF  - Monthly notices of the Royal Astronomical Society
N2  - We present very-high-energy gamma-ray observations of the BL Lac object 1ES 2344+514 taken by the Very Energetic Radiation Imaging Telescope Array System between 2007 and 2015. 1ES 2344+514 is detected with a statistical significance above the background of 20.8 sigma in 47.2 h (livetime) of observations, making this the most comprehensive very-high-energy study of 1ES 2344+514 to date. Using these observations, the temporal properties of 1ES 2344+514 are studied on short and long times-scales. We fit a constant-flux model to nightly and seasonally binned light curves and apply a fractional variability test to determine the stability of the source on different time-scales. We reject the constant-flux model for the 2007-2008 and 2014-2015 nightly binned light curves and for the long-term seasonally binned light curve at the > 3 sigma level. The spectra of the time-averaged emission before and after correction for attenuation by the extragalactic background light are obtained. The observed time-averaged spectrum above 200 GeV is satisfactorily fitted (x(2)/NDF = 7.89/6) by a power-law function with an index Gamma = 2.46 +/- 0.06(stat) +/- 0.20(sys) and extends to at least 8 TeV. The extragalactic-backgroundlight-deabsorbed spectrum is adequately fit (x(2)/NDF = 6.73/6) by a power-law function with an index Gamma = 2.15 +/- 0.06(stat) +/- 0.20(sys) while an F-test indicates that the power law with an exponential cut-off function provides a marginally better fit (x(2)/NDF = 2.56/5) at the 2.1 sigma level. The source location is found to be consistent with the published radio location and its spatial extent is consistent with a point source.
KW  - astroparticle physics
KW  - BL Lacertae objects: individual: 1ES 2344+514=VERJ2347+517
KW  - gamma-rays: galaxies
Y1  - 2017
U6  - https://doi.org/10.1093/mnras/stx1756
SN  - 0035-8711
SN  - 1365-2966
VL  - 471
SP  - 2117
EP  - 2123
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Archambault, S.
A1  - Archer, A.
A1  - Benbow, W.
A1  - Buchovecky, M.
A1  - Bugaev, V.
A1  - Cerruti, M.
A1  - Connolly, M. P.
A1  - Cui, W.
A1  - Falcone, A.
A1  - Alonso, M. Fernandez
A1  - Finley, J. P.
A1  - Fleischhack, H.
A1  - Fortson, L.
A1  - Furniss, A.
A1  - Griffin, S.
A1  - Hutten, M.
A1  - Hervet, O.
A1  - Holder, J.
A1  - Humensky, T. B.
A1  - Johnson, C. A.
A1  - Kaaret, P.
A1  - Kar, P.
A1  - Kieda, D.
A1  - Krause, M.
A1  - Krennrich, F.
A1  - Lang, M. J.
A1  - Lin, T. T. Y.
A1  - Maier, G.
A1  - McArthur, S.
A1  - Moriarty, P.
A1  - Nieto, D.
A1  - Ong, R. A.
A1  - Otte, A. N.
A1  - Pohl, M.
A1  - Popkow, A.
A1  - Pueschel, Elisa
A1  - Quinn, J.
A1  - Ragan, K.
A1  - Reynolds, P. T.
A1  - Richards, G. T.
A1  - Roache, E.
A1  - Rovero, A. C.
A1  - Sadeh, I.
A1  - Shahinyan, K.
A1  - Staszak, D.
A1  - Telezhinsky, Igor O.
A1  - Tyler, J.
A1  - Wakely, S. P.
A1  - Weinstein, A.
A1  - Weisgarber, T.
A1  - Wilcox, P.
A1  - Wilhelm, Alina
A1  - Williams, D. A.
A1  - Zitzer, B.
T1  - Search for Magnetically Broadened Cascade Emission from Blazars with VERITAS
JF  - The astrophysical journal : an international review of spectroscopy and astronomical physics
N2  - We present a search for magnetically broadened gamma-ray emission around active galactic nuclei (AGNs), using VERITAS observations of seven hard-spectrum blazars. A cascade process occurs when multi-TeV gamma-rays from an AGN interact with extragalactic background light (EBL) photons to produce electron-positron pairs, which then interact with cosmic microwave background photons via inverse-Compton scattering to produce gamma-rays. Due to the deflection of the electron- positron pairs, a non-zero intergalactic magnetic field (IGMF) would potentially produce detectable effects on the angular distribution of the cascade emission. In particular, an angular broadening compared to the unscattered emission could occur. Through non-detection of angularly broadened emission from 1ES 1218 vertical bar 304, the source with the largest predicted cascade fraction, we exclude a range of IGMF strengths around 10(-14) G at the 95% confidence level. The extent of the exclusion range varies with the assumptions made about the intrinsic spectrum of 1ES. 1218+304 and the EBL model used in the simulation of the cascade process. All of the sources are used to set limits on the flux due to extended emission.
KW  - BL Lacertae objects: general
KW  - galaxies: active
KW  - gamma rays: galaxies
KW  - magnetic fields
Y1  - 2017
U6  - https://doi.org/10.3847/1538-4357/835/2/288
SN  - 0004-637X
SN  - 1538-4357
VL  - 835
IS  - 2
PB  - IOP Publ. Ltd.
CY  - Bristol
ER  - 
TY  - JOUR
A1  - Chipman, Ariel D.
A1  - Ferrier, David E. K.
A1  - Brena, Carlo
A1  - Qu, Jiaxin
A1  - Hughes, Daniel S. T.
A1  - Schroeder, Reinhard
A1  - Torres-Oliva, Montserrat
A1  - Znassi, Nadia
A1  - Jiang, Huaiyang
A1  - Almeida, Francisca C.
A1  - Alonso, Claudio R.
A1  - Apostolou, Zivkos
A1  - Aqrawi, Peshtewani
A1  - Arthur, Wallace
A1  - Barna, Jennifer C. J.
A1  - Blankenburg, Kerstin P.
A1  - Brites, Daniela
A1  - Capella-Gutierrez, Salvador
A1  - Coyle, Marcus
A1  - Dearden, Peter K.
A1  - Du Pasquier, Louis
A1  - Duncan, Elizabeth J.
A1  - Ebert, Dieter
A1  - Eibner, Cornelius
A1  - Erikson, Galina
A1  - Evans, Peter D.
A1  - Extavour, Cassandra G.
A1  - Francisco, Liezl
A1  - Gabaldon, Toni
A1  - Gillis, William J.
A1  - Goodwin-Horn, Elizabeth A.
A1  - Green, Jack E.
A1  - Griffiths-Jones, Sam
A1  - Grimmelikhuijzen, Cornelis J. P.
A1  - Gubbala, Sai
A1  - Guigo, Roderic
A1  - Han, Yi
A1  - Hauser, Frank
A1  - Havlak, Paul
A1  - Hayden, Luke
A1  - Helbing, Sophie
A1  - Holder, Michael
A1  - Hui, Jerome H. L.
A1  - Hunn, Julia P.
A1  - Hunnekuhl, Vera S.
A1  - Jackson, LaRonda
A1  - Javaid, Mehwish
A1  - Jhangiani, Shalini N.
A1  - Jiggins, Francis M.
A1  - Jones, Tamsin E.
A1  - Kaiser, Tobias S.
A1  - Kalra, Divya
A1  - Kenny, Nathan J.
A1  - Korchina, Viktoriya
A1  - Kovar, Christie L.
A1  - Kraus, F. Bernhard
A1  - Lapraz, Francois
A1  - Lee, Sandra L.
A1  - Lv, Jie
A1  - Mandapat, Christigale
A1  - Manning, Gerard
A1  - Mariotti, Marco
A1  - Mata, Robert
A1  - Mathew, Tittu
A1  - Neumann, Tobias
A1  - Newsham, Irene
A1  - Ngo, Dinh N.
A1  - Ninova, Maria
A1  - Okwuonu, Geoffrey
A1  - Ongeri, Fiona
A1  - Palmer, William J.
A1  - Patil, Shobha
A1  - Patraquim, Pedro
A1  - Pham, Christopher
A1  - Pu, Ling-Ling
A1  - Putman, Nicholas H.
A1  - Rabouille, Catherine
A1  - Ramos, Olivia Mendivil
A1  - Rhodes, Adelaide C.
A1  - Robertson, Helen E.
A1  - Robertson, Hugh M.
A1  - Ronshaugen, Matthew
A1  - Rozas, Julio
A1  - Saada, Nehad
A1  - Sanchez-Gracia, Alejandro
A1  - Scherer, Steven E.
A1  - Schurko, Andrew M.
A1  - Siggens, Kenneth W.
A1  - Simmons, DeNard
A1  - Stief, Anna
A1  - Stolle, Eckart
A1  - Telford, Maximilian J.
A1  - Tessmar-Raible, Kristin
A1  - Thornton, Rebecca
A1  - van der Zee, Maurijn
A1  - von Haeseler, Arndt
A1  - Williams, James M.
A1  - Willis, Judith H.
A1  - Wu, Yuanqing
A1  - Zou, Xiaoyan
A1  - Lawson, Daniel
A1  - Muzny, Donna M.
A1  - Worley, Kim C.
A1  - Gibbs, Richard A.
A1  - Akam, Michael
A1  - Richards, Stephen
T1  - The first myriapod genome sequence reveals conservative arthropod gene content and genome organisation in the centipede Strigamia maritima
JF  - PLoS biology
N2  - Myriapods (e. g., centipedes and millipedes) display a simple homonomous body plan relative to other arthropods. All members of the class are terrestrial, but they attained terrestriality independently of insects. Myriapoda is the only arthropod class not represented by a sequenced genome. We present an analysis of the genome of the centipede Strigamia maritima. It retains a compact genome that has undergone less gene loss and shuffling than previously sequenced arthropods, and many orthologues of genes conserved from the bilaterian ancestor that have been lost in insects. Our analysis locates many genes in conserved macro-synteny contexts, and many small-scale examples of gene clustering. We describe several examples where S. maritima shows different solutions from insects to similar problems. The insect olfactory receptor gene family is absent from S. maritima, and olfaction in air is likely effected by expansion of other receptor gene families. For some genes S. maritima has evolved paralogues to generate coding sequence diversity, where insects use alternate splicing. This is most striking for the Dscam gene, which in Drosophila generates more than 100,000 alternate splice forms, but in S. maritima is encoded by over 100 paralogues. We see an intriguing linkage between the absence of any known photosensory proteins in a blind organism and the additional absence of canonical circadian clock genes. The phylogenetic position of myriapods allows us to identify where in arthropod phylogeny several particular molecular mechanisms and traits emerged. For example, we conclude that juvenile hormone signalling evolved with the emergence of the exoskeleton in the arthropods and that RR-1 containing cuticle proteins evolved in the lineage leading to Mandibulata. We also identify when various gene expansions and losses occurred. The genome of S. maritima offers us a unique glimpse into the ancestral arthropod genome, while also displaying many adaptations to its specific life history.
Y1  - 2014
U6  - https://doi.org/10.1371/journal.pbio.1002005
SN  - 1545-7885
VL  - 12
IS  - 11
PB  - PLoS
CY  - San Fransisco
ER  - 
TY  - JOUR
A1  - Tiegs, Scott D.
A1  - Costello, David M.
A1  - Isken, Mark W.
A1  - Woodward, Guy
A1  - McIntyre, Peter B.
A1  - Gessner, Mark O.
A1  - Chauvet, Eric
A1  - Griffiths, Natalie A.
A1  - Flecker, Alex S.
A1  - Acuna, Vicenc
A1  - Albarino, Ricardo
A1  - Allen, Daniel C.
A1  - Alonso, Cecilia
A1  - Andino, Patricio
A1  - Arango, Clay
A1  - Aroviita, Jukka
A1  - Barbosa, Marcus V. M.
A1  - Barmuta, Leon A.
A1  - Baxter, Colden V.
A1  - Bell, Thomas D. C.
A1  - Bellinger, Brent
A1  - Boyero, Luz
A1  - Brown, Lee E.
A1  - Bruder, Andreas
A1  - Bruesewitz, Denise A.
A1  - Burdon, Francis J.
A1  - Callisto, Marcos
A1  - Canhoto, Cristina
A1  - Capps, Krista A.
A1  - Castillo, Maria M.
A1  - Clapcott, Joanne
A1  - Colas, Fanny
A1  - Colon-Gaud, Checo
A1  - Cornut, Julien
A1  - Crespo-Perez, Veronica
A1  - Cross, Wyatt F.
A1  - Culp, Joseph M.
A1  - Danger, Michael
A1  - Dangles, Olivier
A1  - de Eyto, Elvira
A1  - Derry, Alison M.
A1  - Diaz Villanueva, Veronica
A1  - Douglas, Michael M.
A1  - Elosegi, Arturo
A1  - Encalada, Andrea C.
A1  - Entrekin, Sally
A1  - Espinosa, Rodrigo
A1  - Ethaiya, Diana
A1  - Ferreira, Veronica
A1  - Ferriol, Carmen
A1  - Flanagan, Kyla M.
A1  - Fleituch, Tadeusz
A1  - Shah, Jennifer J. Follstad
A1  - Frainer, Andre
A1  - Friberg, Nikolai
A1  - Frost, Paul C.
A1  - Garcia, Erica A.
A1  - Lago, Liliana Garcia
A1  - Garcia Soto, Pavel Ernesto
A1  - Ghate, Sudeep
A1  - Giling, Darren P.
A1  - Gilmer, Alan
A1  - Goncalves, Jose Francisco
A1  - Gonzales, Rosario Karina
A1  - Graca, Manuel A. S.
A1  - Grace, Mike
A1  - Grossart, Hans-Peter
A1  - Guerold, Francois
A1  - Gulis, Vlad
A1  - Hepp, Luiz U.
A1  - Higgins, Scott
A1  - Hishi, Takuo
A1  - Huddart, Joseph
A1  - Hudson, John
A1  - Imberger, Samantha
A1  - Iniguez-Armijos, Carlos
A1  - Iwata, Tomoya
A1  - Janetski, David J.
A1  - Jennings, Eleanor
A1  - Kirkwood, Andrea E.
A1  - Koning, Aaron A.
A1  - Kosten, Sarian
A1  - Kuehn, Kevin A.
A1  - Laudon, Hjalmar
A1  - Leavitt, Peter R.
A1  - Lemes da Silva, Aurea L.
A1  - Leroux, Shawn J.
A1  - Leroy, Carri J.
A1  - Lisi, Peter J.
A1  - MacKenzie, Richard
A1  - Marcarelli, Amy M.
A1  - Masese, Frank O.
A1  - Mckie, Brendan G.
A1  - Oliveira Medeiros, Adriana
A1  - Meissner, Kristian
A1  - Milisa, Marko
A1  - Mishra, Shailendra
A1  - Miyake, Yo
A1  - Moerke, Ashley
A1  - Mombrikotb, Shorok
A1  - Mooney, Rob
A1  - Moulton, Tim
A1  - Muotka, Timo
A1  - Negishi, Junjiro N.
A1  - Neres-Lima, Vinicius
A1  - Nieminen, Mika L.
A1  - Nimptsch, Jorge
A1  - Ondruch, Jakub
A1  - Paavola, Riku
A1  - Pardo, Isabel
A1  - Patrick, Christopher J.
A1  - Peeters, Edwin T. H. M.
A1  - Pozo, Jesus
A1  - Pringle, Catherine
A1  - Prussian, Aaron
A1  - Quenta, Estefania
A1  - Quesada, Antonio
A1  - Reid, Brian
A1  - Richardson, John S.
A1  - Rigosi, Anna
A1  - Rincon, Jose
A1  - Risnoveanu, Geta
A1  - Robinson, Christopher T.
A1  - Rodriguez-Gallego, Lorena
A1  - Royer, Todd V.
A1  - Rusak, James A.
A1  - Santamans, Anna C.
A1  - Selmeczy, Geza B.
A1  - Simiyu, Gelas
A1  - Skuja, Agnija
A1  - Smykla, Jerzy
A1  - Sridhar, Kandikere R.
A1  - Sponseller, Ryan
A1  - Stoler, Aaron
A1  - Swan, Christopher M.
A1  - Szlag, David
A1  - Teixeira-de Mello, Franco
A1  - Tonkin, Jonathan D.
A1  - Uusheimo, Sari
A1  - Veach, Allison M.
A1  - Vilbaste, Sirje
A1  - Vought, Lena B. M.
A1  - Wang, Chiao-Ping
A1  - Webster, Jackson R.
A1  - Wilson, Paul B.
A1  - Woelfl, Stefan
A1  - Xenopoulos, Marguerite A.
A1  - Yates, Adam G.
A1  - Yoshimura, Chihiro
A1  - Yule, Catherine M.
A1  - Zhang, Yixin X.
A1  - Zwart, Jacob A.
T1  - Global patterns and drivers of ecosystem functioning in rivers and riparian zones
JF  - Science Advances
N2  - River ecosystems receive and process vast quantities of terrestrial organic carbon, the fate of which depends strongly on microbial activity. Variation in and controls of processing rates, however, are poorly characterized at the global scale. In response, we used a peer-sourced research network and a highly standardized carbon processing assay to conduct a global-scale field experiment in greater than 1000 river and riparian sites. We found that Earth’s biomes have distinct carbon processing signatures. Slow processing is evident across latitudes, whereas rapid rates are restricted to lower latitudes. Both the mean rate and variability decline with latitude, suggesting temperature constraints toward the poles and greater roles for other environmental drivers (e.g., nutrient loading) toward the equator. These results and data set the stage for unprecedented “next-generation biomonitoring” by establishing baselines to help quantify environmental impacts to the functioning of ecosystems at a global scale.
Y1  - 2019
U6  - https://doi.org/10.1126/sciadv.aav0486
SN  - 2375-2548
VL  - 5
IS  - 1
PB  - American Assoc. for the Advancement of Science
CY  - Washington
ER  - 
TY  - JOUR
A1  - Gonzalez-Fortes, Gloria M.
A1  - Tassi, F.
A1  - Trucchi, E.
A1  - Henneberger, K.
A1  - Paijmans, Johanna L. A.
A1  - Diez-del-Molino, D.
A1  - Schroeder, H.
A1  - Susca, R. R.
A1  - Barroso-Ruiz, C.
A1  - Bermudez, F. J.
A1  - Barroso-Medina, C.
A1  - Bettencourt, A. M. S.
A1  - Sampaio, H. A.
A1  - Salas, A.
A1  - de Lombera-Hermida, A.
A1  - Fabregas Valcarce, Ramón
A1  - Vaquero, M.
A1  - Alonso, S.
A1  - Lozano, Marina
A1  - Rodriguez-Alvarez, Xose Pedro
A1  - Fernandez-Rodriguez, C.
A1  - Manica, Andrea
A1  - Hofreiter, Michael
A1  - Barbujani, Guido
T1  - A western route of prehistoric human migration from Africa into the Iberian Peninsula
JF  - Proceedings of the Royal Society of London : B, Biological sciences
N2  - Being at the western fringe of Europe, Iberia had a peculiar prehistory and a complex pattern of Neolithization. A few studies, all based on modern populations, reported the presence of DNA of likely African origin in this region, generally concluding it was the result of recent gene flow, probably during the Islamic period. Here, we provide evidence of much older gene flow from Africa to Iberia by sequencing whole genomes from four human remains from northern Portugal and southern Spain dated around 4000 years BP (from the Middle Neolithic to the Bronze Age). We found one of them to carry an unequivocal sub-Saharan mitogenome of most probably West or West-Central African origin, to our knowledge never reported before in prehistoric remains outside Africa. Our analyses of ancient nuclear genomes show small but significant levels of sub-Saharan African affinity in several ancient Iberian samples, which indicates that what we detected was not an occasional individual phenomenon, but an admixture event recognizable at the population level. We interpret this result as evidence of an early migration process from Africa into the Iberian Peninsula through a western route, possibly across the Strait of Gibraltar.
KW  - palaeogenome
KW  - Africa
KW  - Iberia
KW  - mitochondrial DNA
KW  - gene flow
KW  - admixture
Y1  - 2019
U6  - https://doi.org/10.1098/rspb.2018.2288
SN  - 0962-8452
SN  - 1471-2954
VL  - 286
IS  - 1895
PB  - Royal Society
CY  - London
ER  - 
TY  - JOUR
A1  - Kubin, Markus
A1  - Kern, Jan
A1  - Gul, Sheraz
A1  - Kroll, Thomas
A1  - Chatterjee, Ruchira
A1  - Loechel, Heike
A1  - Fuller, Franklin D.
A1  - Sierra, Raymond G.
A1  - Quevedo, Wilson
A1  - Weniger, Christian
A1  - Rehanek, Jens
A1  - Firsov, Anatoly
A1  - Laksmono, Hartawan
A1  - Weninger, Clemens
A1  - Alonso-Mori, Roberto
A1  - Nordlund, Dennis L.
A1  - Lassalle-Kaiser, Benedikt
A1  - Glownia, James M.
A1  - Krzywinski, Jacek
A1  - Moeller, Stefan
A1  - Turner, Joshua J.
A1  - Minitti, Michael P.
A1  - Dakovski, Georgi L.
A1  - Koroidov, Sergey
A1  - Kawde, Anurag
A1  - Kanady, Jacob S.
A1  - Tsui, Emily Y.
A1  - Suseno, Sandy
A1  - Han, Zhiji
A1  - Hill, Ethan
A1  - Taguchi, Taketo
A1  - Borovik, Andrew S.
A1  - Agapie, Theodor
A1  - Messinger, Johannes
A1  - Erko, Alexei
A1  - Föhlisch, Alexander
A1  - Bergmann, Uwe
A1  - Mitzner, Rolf
A1  - Yachandra, Vittal K.
A1  - Yano, Junko
A1  - Wernet, Philippe
T1  - Soft x-ray absorption spectroscopy of metalloproteins and high-valent metal-complexes at room temperature using free-electron lasers
JF  - Structural dynamics
N2  - X-ray absorption spectroscopy at the L-edge of 3d transition metals provides unique information on the local metal charge and spin states by directly probing 3d-derived molecular orbitals through 2p-3d transitions. However, this soft x-ray technique has been rarely used at synchrotron facilities for mechanistic studies of metalloenzymes due to the difficulties of x-ray-induced sample damage and strong background signals from light elements that can dominate the low metal signal. Here, we combine femtosecond soft x-ray pulses from a free-electron laser with a novel x-ray fluorescence-yield spectrometer to overcome these difficulties. We present L-edge absorption spectra of inorganic high-valent Mn complexes (Mn similar to 6-15 mmol/l) with no visible effects of radiation damage. We also present the first L-edge absorption spectra of the oxygen evolving complex (Mn4CaO5) in Photosystem II (Mn < 1 mmol/l) at room temperature, measured under similar conditions. Our approach opens new ways to study metalloenzymes under functional conditions. (C) 2017 Author(s).
Y1  - 2017
U6  - https://doi.org/10.1063/1.4986627
SN  - 2329-7778
VL  - 4
PB  - American Institute of Physics
CY  - Melville
ER  - 
TY  - JOUR
A1  - Miedema, Piter S.
A1  - Thielemann-Kühn, Nele
A1  - Calafell, Irati Alonso
A1  - Schüßler-Langeheine, Christian
A1  - Beye, Martin
T1  - Strain analysis from M-edge resonant inelastic X-ray scattering of nickel oxide films
JF  - Physical chemistry, chemical physics : a journal of European Chemical Societies
N2  - Electronic structure modifications due to strain are an effective method for tailoring nano-scale functional materials. Demonstrated on nickel oxide (NiO) thin films, Resonant Inelastic X-ray Scattering (RIXS) at the transition-metal M-2,M-3-edge is shown to be a powerful tool for measuring the electronic structure modification due to strain in the near-surface region. Analyses from the M-2,M-3-edge RIXS in comparison with dedicated crystal field multiplet calculations show distortions in 40 nm NiO grown on a magnesium oxide (MgO) substrate (NiO/MgO) similar to those caused by surface relaxation of bulk NiO. The films of 20 and 10 nm NiO/MgO show slightly larger differences from bulk NiO. Quantitatively, the NiO/MgO samples all are distorted from perfect octahedral (O-h) symmetry with a tetragonal parameter Ds of about -0.1 eV, very close to the Ds distortion from octahedral (O-h) symmetry parameter of -0.11 eV obtained for the surface-near region from a bulk NiO crystal. Comparing the spectra of a 20 nm film of NiO grown on a 20 nm magnetite (Fe3O4) film on a MgO substrate (NiO/Fe3O4/MgO) with the calculated multiplet analyses, the distortion parameter Ds appears to be closer to zero, showing that the surface-near region of this templated film is less distorted from O-h symmetry than the surface-near region in bulk NiO. Finally, the potential of M-2,M-3-edge RIXS for other investigations of strain on electronic structure is discussed.
Y1  - 2019
U6  - https://doi.org/10.1039/c9cp03593a
SN  - 1463-9076
SN  - 1463-9084
VL  - 21
IS  - 38
SP  - 21596
EP  - 21602
PB  - Royal Society of Chemistry
CY  - Cambridge
ER  - 
TY  - JOUR
A1  - Kroll, Thomas
A1  - Kern, Jan
A1  - Kubin, Markus
A1  - Ratner, Daniel
A1  - Gul, Sheraz
A1  - Fuller, Franklin D.
A1  - Löchel, Heike
A1  - Krzywinski, Jacek
A1  - Lutman, Alberto
A1  - Ding, Yuantao
A1  - Dakovski, Georgi L.
A1  - Moeller, Stefan
A1  - Turner, Joshua J.
A1  - Alonso-Mori, Roberto
A1  - Nordlund, Dennis L.
A1  - Rehanek, Jens
A1  - Weniger, Christian
A1  - Firsov, Alexander
A1  - Brzhezinskaya, Maria
A1  - Chatterjee, Ruchira
A1  - Lassalle-Kaiser, Benedikt
A1  - Sierra, Raymond G.
A1  - Laksmono, Hartawan
A1  - Hill, Ethan
A1  - Borovik, Andrew S.
A1  - Erko, Alexei
A1  - Föhlisch, Alexander
A1  - Mitzner, Rolf
A1  - Yachandra, Vittal K.
A1  - Yano, Junko
A1  - Wernet, Philippe
A1  - Bergmann, Uwe
T1  - X-ray absorption spectroscopy using a self-seeded soft X-ray free-electron laser
JF  - Optics express : the international electronic journal of optics
N2  - X-ray free electron lasers (XFELs) enable unprecedented new ways to study the electronic structure and dynamics of transition metal systems. L-edge absorption spectroscopy is a powerful technique for such studies and the feasibility of this method at XFELs for solutions and solids has been demonstrated. However, the required x-ray bandwidth is an order of magnitude narrower than that of self-amplified spontaneous emission (SASE), and additional monochromatization is needed. Here we compare L-edge x-ray absorption spectroscopy (XAS) of a prototypical transition metal system based on monochromatizing the SASE radiation of the linac coherent light source (LCLS) with a new technique based on self-seeding of LCLS. We demonstrate how L-edge XAS can be performed using the self-seeding scheme without the need of an additional beam line monochromator. We show how the spectral shape and pulse energy depend on the undulator setup and how this affects the x-ray spectroscopy measurements. (C) 2016 Optical Society of America
Y1  - 2016
U6  - https://doi.org/10.1364/OE.24.022469
SN  - 1094-4087
VL  - 24
SP  - 22469
EP  - 22480
PB  - Optical Society of America
CY  - Washington
ER  - 
TY  - JOUR
A1  - Mitzner, Rolf
A1  - Rehanek, Jens
A1  - Kern, Jan
A1  - Gul, Sheraz
A1  - Hattne, Johan
A1  - Taguchi, Taketo
A1  - Alonso-Mori, Roberto
A1  - Tran, Rosalie
A1  - Weniger, Christian
A1  - Schröder, Henning
A1  - Quevedo, Wilson
A1  - Laksmono, Hartawan
A1  - Sierra, Raymond G.
A1  - Han, Guangye
A1  - Lassalle-Kaiser, Benedikt
A1  - Koroidov, Sergey
A1  - Kubicek, Katharina
A1  - Schreck, Simon
A1  - Kunnus, Kristjan
A1  - Brzhezinskaya, Maria
A1  - Firsov, Alexander
A1  - Minitti, Michael P.
A1  - Turner, Joshua J.
A1  - Möller, Stefan
A1  - Sauter, Nicholas K.
A1  - Bogan, Michael J.
A1  - Nordlund, Dennis
A1  - Schlotter, William F.
A1  - Messinger, Johannes
A1  - Borovik, Andrew S.
A1  - Techert, Simone
A1  - de Groot, Frank M. F.
A1  - Föhlisch, Alexander
A1  - Erko, Alexei
A1  - Bergmann, Uwe
A1  - Yachandra, Vittal K.
A1  - Wernet, Philippe
A1  - Yano, Junko
T1  - L-edge x-ray absorption spectroscopy of dilute systems relevant to metalloproteins using an X-ray free-electron laser
JF  - The journal of physical chemistry letters
N2  - L-edge spectroscopy of 3d transition metals provides important electronic structure information and has been used in many fields. However, the use of this method for studying dilute aqueous systems, such as metalloenzymes, has not been prevalent because of severe radiation damage and the lack of suitable detection systems. Here we present spectra from a dilute Mn aqueous solution using a high-transmission zone-plate spectrometer at the Linac Coherent Light Source (LCLS). The spectrometer has been optimized for discriminating the Mn L-edge signal from the overwhelming 0 K-edge background that arises from water and protein itself, and the ultrashort LCLS X-ray pulses can outrun X-ray induced damage. We show that the deviations of the partial-fluorescence yield-detected spectra from the true absorption can be well modeled using the state-dependence of the fluorescence yield, and discuss implications for the application of our concept to biological samples.
Y1  - 2013
U6  - https://doi.org/10.1021/jz401837f
SN  - 1948-7185
VL  - 4
IS  - 21
SP  - 3641
EP  - 3647
PB  - American Chemical Society
CY  - Washington
ER  - 
TY  - JOUR
A1  - Abeysekara, A. U.
A1  - Archer, A.
A1  - Benbow, Wystan
A1  - Bird, Ralph
A1  - Brill, A.
A1  - Brose, Robert
A1  - Buchovecky, M.
A1  - Calderon-Madera, D.
A1  - Christiansen, J. L.
A1  - Cui, W.
A1  - Daniel, M. K.
A1  - Falcone, A.
A1  - Feng, Q.
A1  - Fernandez-Alonso, M.
A1  - Finley, J. P.
A1  - Fortson, Lucy
A1  - Furniss, Amy
A1  - Gent, A.
A1  - Giuri, C.
A1  - Gueta, O.
A1  - Hanna, David
A1  - Hassan, T.
A1  - Hervet, Oliver
A1  - Holder, J.
A1  - Hughes, G.
A1  - Humensky, T. B.
A1  - Johnson, Caitlin A.
A1  - Kaaret, P.
A1  - Kertzman, M.
A1  - Kieda, David
A1  - Krause, Maria
A1  - Krennrich, F.
A1  - Kumar, S.
A1  - Lang, M. J.
A1  - Maier, Gernot
A1  - Moriarty, P.
A1  - Mukherjee, Reshmi
A1  - Nievas-Rosillo, M.
A1  - Ong, R. A.
A1  - Pfrang, Konstantin Johannes
A1  - Pohl, Martin
A1  - Prado, R. R.
A1  - Pueschel, Elisa
A1  - Quinn, J.
A1  - Ragan, K.
A1  - Reynolds, P. T.
A1  - Ribeiro, D.
A1  - Richards, G. T.
A1  - Roache, E.
A1  - Rovero, A. C.
A1  - Sadeh, Iftach
A1  - Santander, M.
A1  - Sembroski, G. H.
A1  - Shahinyan, Karlen
A1  - Sushch, Iurii
A1  - Svraka, T.
A1  - Weinstein, A.
A1  - Wells, R. M.
A1  - Wilcox, Patrick
A1  - Wilhelm, Alina
A1  - Williams, David Arnold
A1  - Williamson, T. J.
A1  - Zitzer, B.
T1  - Measurement of the Extragalactic Background Light Spectral Energy Distribution with VERITAS
JF  - The astrophysical journal : an international review of spectroscopy and astronomical physics
N2  - The extragalactic background light (EBL), a diffuse photon field in the optical and infrared range, is a record of radiative processes over the universe?s history. Spectral measurements of blazars at very high energies (>100 GeV) enable the reconstruction of the spectral energy distribution (SED) of the EBL, as the blazar spectra are modified by redshift- and energy-dependent interactions of the gamma-ray photons with the EBL. The spectra of 14 VERITAS-detected blazars are included in a new measurement of the EBL SED that is independent of EBL SED models. The resulting SED covers an EBL wavelength range of 0.56?56 ?m, and is in good agreement with lower limits obtained by assuming that the EBL is entirely due to radiation from cataloged galaxies.
KW  - Extragalactic astronomy
KW  - Active galactic nuclei
KW  - Diffuse radiation
KW  - Cosmology
Y1  - 2019
U6  - https://doi.org/10.3847/1538-4357/ab4817
SN  - 0004-637X
SN  - 1538-4357
VL  - 885
IS  - 2
PB  - IOP Publ. Ltd.
CY  - Bristol
ER  - 
TY  - JOUR
A1  - Gimenez-Garcia, Ana
A1  - Shenar, Tomer
A1  - Torrejon, J. M.
A1  - Oskinova, Lidia M.
A1  - Martinez-Nunez, S.
A1  - Hamann, Wolf-Rainer
A1  - Rodes-Roca, J. J.
A1  - González-Galan, A.
A1  - Alonso-Santiago, J.
A1  - González-Fernández, C.
A1  - Bernabeu, Guillermo
A1  - Sander, Andreas Alexander Christoph
T1  - Measuring the stellar wind parameters in IGR J17544-2619 and Vela X-1 constrains the accretion physics in supergiant fast X-ray transient and classical supergiant X-ray binaries
JF  - Siberian Mathematical Journal
N2  - Aims. To close this gap, we perform a comparative analysis of the optical companion in two important systems: IGR J175442619 (SFXT) and Vela X-1 (SGXB). We analyze the spectra of each star in detail and derive their stellar and wind properties. As a next step, we compare the wind parameters, giving us an excellent chance of recognizing key differences between donor winds in SFXTs and SGXBs. Methods. We use archival infrared, optical and ultraviolet observations, and analyze them with the non-local thermodynamic equilibrium (NLTE) Potsdam Wolf-Rayet model atmosphere code. We derive the physical properties of the stars and their stellar winds, accounting for the influence of X-rays on the stellar winds. Results. We find that the stellar parameters derived from the analysis generally agree well with the spectral types of the two donors: O9I (IGR J17544-2619) and B0.5Iae (Vela X-1). The distance to the sources have been revised and also agree well with the estimations already available in the literature. In IGR J17544-2619 we are able to narrow the uncertainty to d = 3.0 +/- 0.2 kpc. From the stellar radius of the donor and its X-ray behavior, the eccentricity of IGR J17544-2619 is constrained to e < 0.25. The derived chemical abundances point to certain mixing during the lifetime of the donors. An important difference between the stellar winds of the two stars is their terminal velocities (v(infinity) = 1500 km s(-1) in IGR J17544-2619 and v(infinity) = 700 km s(-1) in Vela X-1), which have important consequences on the X-ray luminosity of these sources. Conclusions. The donors of IGR J17544-2619 and Vela X-1 have similar spectral types as well as similar parameters that physically characterize them and their spectra. In addition, the orbital parameters of the systems are similar too, with a nearly circular orbit and short orbital period. However, they show moderate differences in their stellar wind velocity and the spin period of their neutron star which has a strong impact on the X-ray luminosity of the sources. This specific combination of wind speed and pulsar spin favors an accretion regime with a persistently high luminosity in Vela X-1, while it favors an inhibiting accretion mechanism in IGR J17544-2619. Our study demonstrates that the relative wind velocity is critical in class determination for the HMXBs hosting a supergiant donor, given that it may shift the accretion mechanism from direct accretion to propeller regimes when combined with other parameters.
KW  - accretion, accretion disks
KW  - methods: observational
KW  - techniques: spectroscopic
KW  - stars: atmospheres
KW  - X-rays: binaries
KW  - stars: winds, outflows
Y1  - 2016
U6  - https://doi.org/10.1051/0004-6361/201527551
SN  - 1432-0746
VL  - 591
PB  - EDP Sciences
CY  - Les Ulis
ER  -