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8. Bacterial Vaginosis and Its Association with Infertility, Endometritis, and Pelvic Inflammatory Disease

Author

Ravel J, Moreno I, and Simon C

Abstract

Bacterial vaginosis (BV), pelvic inflammatory disease (PID), and endometritis are infections of the genital tract that can lead to many adverse health outcomes, including infertility. BV is characterized by a lower prevalence of lactobacilli and a higher prevalence of anaerobic bacteria, including Gardnerella vaginalis, Megasphaera spp., and Atopobium vaginae. Endometritis and PID are caused by the ascension of pathogenic bacteria to the uterus, although the mechanisms by which they do so is unclear. BV, chronic endometritis, and PID have been linked with infertility in retrospective and prospective trials. Similarly, the causes of BV and endometritis-related infertility are likely multifactorial and stem from inflammation, immune targeting of sperm antigens, the presence of bacterial toxins, and increased risk of sexually transmitted infections. Diagnosis and treatment of BV, chronic endometritis and PID prior to attempting conception may be important components of preconceptional care for symptomatic women to improve outcomes of natural and assisted reproduction.

Published
2021

9. COVID-19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms (vol 17, e10387, 2021)

Author

Ostaszewski, M, Niarakis, A, Mazein, A, Kuperstein, I, Phair, R, Orta-Resendiz, A, Singh, V, Aghamiri, S, Acencio, M, Glaab, E, Ruepp, A, Fobo, G, Montrone, C, Brauner, B, Frishman, G, Gomez, L, Somers, J, Hoch, M, Gupta, S, Scheel, J, Borlinghaus, H, Czauderna, T, Schreiber, F, Montagud, A, de Leon, M, Funahashi, A, Hiki, Y, Hiroi, N, Yamada, T, Drager, A, Renz, A, Naveez, M, Bocskei, Z, Messina, F, Bornigen, D, Fergusson, L, Conti, M, Rameil, M, Nakonecnij, V, Vanhoefer, J, Schmiester, L, Wang, M, Ackerman, E, Shoemaker, J, Zucker, J, Oxford, K, Teuton, J, Kocakaya, E, Summak, G, Hanspers, K, Kutmon, M, Coort, S, Eijssen, L, Ehrhart, F, Rex, D, Slenter, D, Martens, M, Pham, N, Haw, R, Jassal, B, Matthews, L, Orlic-Milacic, M, Senff-Ribeiro, A, Rothfels, K, Shamovsky, V, Stephan, R, Sevilla, C, Varusai, T, Ravel, J, Fraser, R, Ortseifen, V, Marchesi, S, Gawron, P, Smula, E, Heirendt, L, Satagopam, V, Gm, W, Riutta, A, Golebiewski, M, Owen, S, Goble, C, Xm, H, Overall, R, Maier, D, Bauch, A, Gyori, B, Bachman, J, Vega, C, Groues, V, Vazquez, M, Porras, P, Licata, L, Iannuccelli, M, Sacco, F, Nesterova, A, Yuryev, A, de Waard, A, Turei, D, Luna, A, Babur, O, Soliman, S, Valdeolivas, A, Esteban-Medina, M, Pena-Chilet, M, Rian, K, Helikar, T, Puniya, B, Modos, D, Treveil, A, Olbei, M, De Meulder, B, Ballereau, S, Dugourd, A, Naldi, A, Noel, V, Calzone, L, Sander, C, Demir, E, Korcsmaros, T, Freeman, T, Auge, F, Beckmann, J, Hasenauer, J, Wolkenhauer, O, Willighagen, E, Pico, A, Evelo, C, Gillespie, M, Stein, L, Hermjakob, H, D'Eustachio, P, Saez-Rodriguez, J, Dopazo, J, Valencia, A, Kitano, H, Barillot, E, Auffray, C, Balling, R, and Schneider, R

Subjects
Settore BIO/18, Settore BIO/11
Published
2021

10. Construction of a comprehensive bacterial genome catalogue for the female genital tract identifies hundreds of new species

Author

Hayward, M., Bloom, S., France, M., Mafunda, N., Xu, J., Rice, J., Ghebermichael, M., Marrazzo, J., Mitchell, C., Ravel, J., Huttenhower, C., and Kwon, D.

Subjects
Nucleotide sequencing -- Usage, Genomics -- Methods, Microbiota (Symbiotic organisms) -- Identification and classification, DNA sequencing -- Usage, Reproductive organs, Female -- Health aspects, Health
Abstract

Background: Specific cervicovaginal bacteria are associated with elevated inflammation in the female genital tract (FGT) and a number of poor reproductive outcomes, including HIV acquisition. These associations have been identified using bacterial 16S rRNA gene sequencing, which has limited resolution and often fails to achieve species-level taxonomic assignment. Genome sequencing of bacteria affords strain-level resolution, revealing that many species contain enough genes to make multiple independent genomes, reflecting a tremendous amount of diversity in potential phenotypes (virulence factors, antibiotic resistance, metabolic function, etc.). Few studies have used these methods to characterize the FGT microbiome, leaving much of the microbial diversity unexplored. Methods: We isolated 1400 bacteria using selective media and performed whole genome sequencing, applying cutting-edge methods for combining these data with assembled microbial genomes from over 1200 newly shotgun sequenced metagenomes from multiple geographic locations, to produce a comprehensive genome catalogue. Imposing species-level phylogenetic clustering on the resulting genomes allowed us to identify both known and previously unknown species. Mapping of shotgun metagenomic reads to these genomes allowed us to determine prevalence and amount of genetic diversity accounted for by these new species across multiple demographic factors (race, ethnicity, geography, pregnancy and menopause). Results: We identified 605 species in the female genital tract, 130 of which have not been previously described. Of these, 46 were only found in samples from African American and African women. Many of these new species were highly prevalent and co-occurred with known and previously unknown species in community assemblages. Furthermore, we significantly increased observable genetic diversity for known species associated with poor reproductive outcomes. One notable example is Prevotella bivia, a bacterium associated with increased HIV acquisition risk, was found to be different in both metabolic and antibiotic resistance gene content in South African isolates when compared to those from North America. Conclusions: We have massively expanded the observable genetic diversity in the FGT microbiome and identified both new species and previously unrecognized sub-species structures. This catalogue will contribute to developing novel approaches to modulate the vaginal microbiome and reduce poor reproductive outcomes, including HIV acquisition risk., OA19.02 M. Hayward (1); S. Bloom (1); M. France (2); N. Mafunda (1); J. Xu (1); J. Rice (1); M. Ghebermichael (3); J. Marrazzo (4); C. Mitchell (5); J. Ravel [...]

Published
2021
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11. Evidence that human Chlamydia pneumoniae was zoonotically acquired

Author

Myers, G.S.A., Mathews, S.A., Eppinger, M., Mitchell, C., O'Brien, K.K., White, O.R., Benahmed, F., Brunham, R.C., Read, T.D., Ravel, J., Bavoil, P.M., and Timms, P.

Subjects
Disease transmission -- Research, Chlamydia -- Distribution, Chlamydia -- Health aspects, Zoonoses -- Complications and side effects, Company distribution practices, Biological sciences
Abstract

Zoonotic infections are a growing threat to global health. Chlamydia pneumoniae is a major human pathogen that is widespread in human populations, causing acute respiratory disease, and has been associated with chronic disease. C. pneumoniae was first identified solely in human populations; however, its host range now includes other mammals, marsupials, amphibians, and reptiles. Australian koalas (Phascolarctos cinereus) are widely infected with two species of Chlamydia, C. pecorum and C. pneumoniae. Transmission of C. pneumoniae between animals and humans has not been reported; however, two other chlamydial species, C. psittaci and C. abortus, are known zoonotic pathogens. We have sequenced the 1,241,024-bp chromosome and a 7.5-kb cryptic chlamydial plasmid of the koala strain of C. pneumoniae (LPCoLN) using the whole-genome shotgun method. Comparative genomic analysis, including pseudogene and single-nucleotide polymorphism (SNP) distribution, and phylogenetic analysis of conserved genes and SNPs against the human isolates of C. pneumoniae show that the LPCoLN isolate is basal to human isolates. Thus, we propose based on compelling genomic and phylogenetic evidence that humans were originally infected zoonotically by an animal isolate(s) of C. pneumoniae which adapted to humans primarily through the processes of gene decay and plasmid loss, to the point where the animal reservoir is no longer required for transmission. doi: 10.1128/JB.00746-09

Published
2009

12. Letter to the Editor, BJOG Exchange

Author

Borgogna, JLC, Shardell, MD, Santori, EK, Nelson, TM, Rath, JM, Glover, ED, Ravel, J, Gravitt, P, Yeoman, CJ, and Brotman, RM

Subjects
Cross-Sectional Studies, Microbiota, Papillomavirus Infections, Metabolome, Humans, Female, Cervix Uteri, Article
Published
2020

17. Data access: Toward unrestricted use of public genomic data

Author

Amann, RI, Baichoo, S, Blencowe, BJ, Bork, P, Borodovsky, M, Brooksbank, C, Chain, PSG, Colwell, RR, Daffonchio, DG, Danchin, A, De Lorenzo, V, Dorrestein, PC, Finn, RD, Fraser, CM, Gilbert, JA, Hallam, SJ, Hugenholtz, P, Ioannidis, JPA, Jansson, JK, Kim, JF, Klenk, HP, Klotz, MG, Knight, R, Konstantinidis, KT, Kyrpides, NC, Mason, CE, McHardy, AC, Meyer, F, Ouzounis, CA, Patrinos, AAN, Podar, M, Pollard, KS, Ravel, J, Muñoz, AR, Roberts, RJ, Rosselló-Móra, R, Sansone, SA, Schloss, PD, Schriml, LM, Setubal, JC, Sorek, R, Stevens, RL, Tiedje, JM, Turjanski, A, Tyson, GW, Ussery, DW, Weinstock, GM, White, O, Whitman, WB, and Xenarios, I

Subjects
General Science & Technology, MD Multidisciplinary
Published
2019
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18. The Evolving Facets of Bacterial Vaginosis: Implications for HIV Transmission

Author

McKinnon, LR, Achilles, SL, Bradshaw, CS, Burgener, A, Crucitti, T, Fredricks, DN, Jaspan, HB, Kaul, R, Kaushic, C, Klatt, N, Kwon, DS, Marrazzo, JM, Masson, L, McClelland, RS, Ravel, J, van de Wijgert, JHHM, Vodstrcil, LA, Tachedjian, G, McKinnon, LR, Achilles, SL, Bradshaw, CS, Burgener, A, Crucitti, T, Fredricks, DN, Jaspan, HB, Kaul, R, Kaushic, C, Klatt, N, Kwon, DS, Marrazzo, JM, Masson, L, McClelland, RS, Ravel, J, van de Wijgert, JHHM, Vodstrcil, LA, and Tachedjian, G

Abstract

Bacterial vaginosis (BV) is a common yet poorly understood vaginal condition that has become a major focus of HIV transmission and immunology research. Varied terminologies are used by clinicians and researchers to describe microbial communities that reside in the female reproductive tract (FRT), which is driven, in part, by microbial genetic and metabolic complexity, evolving diagnostic and molecular techniques, and multidisciplinary perspectives of clinicians, epidemiologists, microbiologists, and immunologists who all appreciate the scientific importance of understanding mechanisms that underlie BV. This Perspectives article aims to clarify the varied terms used to describe the cervicovaginal microbiota and its "nonoptimal" state, under the overarching term of BV. The ultimate goal is to move toward language standardization in future literature that facilitates a better understanding of the impact of BV on FRT immunology and risk of sexually transmitted infections, including HIV.

Published
2019

26. Cigarette smoking is associated with an altered vaginal tract metabolomic profile

Author

Nelson, TM, Borgogna, JC, Michalek, RD, Roberts, DW, Rath, JM, Glover, ED, Ravel, J, Shardell, MD, Yeoman, CJ, Brotman, RM, Nelson, TM, Borgogna, JC, Michalek, RD, Roberts, DW, Rath, JM, Glover, ED, Ravel, J, Shardell, MD, Yeoman, CJ, and Brotman, RM

Abstract

Cigarette smoking has been associated with both the diagnosis of bacterial vaginosis (BV) and a vaginal microbiota lacking protective Lactobacillus spp. As the mechanism linking smoking with vaginal microbiota and BV is unclear, we sought to compare the vaginal metabolomes of smokers and non-smokers (17 smokers/19 non-smokers). Metabolomic profiles were determined by gas and liquid chromatography mass spectrometry in a cross-sectional study. Analysis of the 16S rRNA gene populations revealed samples clustered into three community state types (CSTs) ---- CST-I (L. crispatus-dominated), CST-III (L. iners-dominated) or CST-IV (low-Lactobacillus). We identified 607 metabolites, including 12 that differed significantly (q-value < 0.05) between smokers and non-smokers. Nicotine, and the breakdown metabolites cotinine and hydroxycotinine were substantially higher in smokers, as expected. Among women categorized to CST-IV, biogenic amines, including agmatine, cadaverine, putrescine, tryptamine and tyramine were substantially higher in smokers, while dipeptides were lower in smokers. These biogenic amines are known to affect the virulence of infective pathogens and contribute to vaginal malodor. Our data suggest that cigarette smoking is associated with differences in important vaginal metabolites, and women who smoke, and particularly women who are also depauperate for Lactobacillus spp., may have increased susceptibilities to urogenital infections and increased malodor.

Published
2018

27. Cervicovaginal microbiota, women's health, and reproductive outcomes

Author

Kroon, SJ, Ravel, J, Huston, WM, Kroon, SJ, Ravel, J, and Huston, WM

Abstract

© 2018 American Society for Reproductive Medicine The human microbiome project has shown a remarkable diversity of microbial ecology within the human body. The vaginal microbiota is unique in that in many women it is most often dominated by Lactobacillus species. However, in some women it lacks Lactobacillus spp. and is comprised of a wide array of strict and facultative anaerobes, a state that broadly correlates with increased risk for infection, disease, and poor reproductive and obstetric outcomes. Interestingly, the level of protection against infection can also vary by species and strains of Lactobacillus, and some species although dominant are not always optimal. This factors into the risk of contracting sexually transmitted infections and possibly influences the occurrence of resultant adverse reproductive outcomes such as tubal factor infertility. The composition and function of the vaginal microbiota appear to play an important role in pregnancy and fertility treatment outcomes and future research in this field will shed further translational mechanistic understanding onto the interplay of the vaginal microbiota with women's health and reproduction.

Published
2018

28. A retrospective pilot study to determine whether the reproductive tract microbiota differs between women with a history of infertility and fertile women

Author

Wee, BA, Thomas, M, Sweeney, EL, Frentiu, FD, Samios, M, Ravel, J, Gajer, P, Myers, G, Timms, P, Allan, JA, Huston, WM, Wee, BA, Thomas, M, Sweeney, EL, Frentiu, FD, Samios, M, Ravel, J, Gajer, P, Myers, G, Timms, P, Allan, JA, and Huston, WM

Abstract

© 2017 The Royal Australian and New Zealand College of Obstetricians and Gynaecologists Background: We know very little about the microbiota inhabiting the upper female reproductive tract and how it impacts on fertility. Aims: This pilot study aimed to examine the vaginal, cervical and endometrial microbiota for women with a history of infertility compared to women with a history of fertility. Materials and methods: Using a retrospective case–control study design, women were recruited for collection of vaginal, cervical and endometrial samples. The microbiota composition was analysed by 16S ribosomal RNA (rRNA) gene amplification and endometrial expression of selected human genes by quantitative reverse transcription polymerase chain reaction. Results: Sixty-five specimens from the reproductive tract of 31 women were successfully analysed using 16S rRNA gene amplicon sequencing (16 controls and 15 cases). The dominant microbial community members were consistent in the vagina and cervix, and generally consistent with the endometrium although the relative proportions varied. We detected three major microbiota clusters that did not group by tissue location or case–control status. There was a trend that infertile women more often had Ureaplasma in the vagina and Gardnerella in the cervix. Testing for the expression of selected genes in the endometrium did not show evidence of correlation with case–control status, or with microbial community composition, although Tenascin-C expression correlated with a history of miscarriage. Conclusions: There is a need for further exploration of the endometrial microbiota, and how the microbiota members or profile interplays with fertility or assisted reproductive technologies.

Published
2018

29. The vaginal metabolome and microbiota of cervical HPV-positive and HPV-negative women: a cross-sectional analysis.

Author

Borgogna, JC, Shardell, MD, Santori, EK, Nelson, TM, Rath, JM, Glover, ED, Ravel, J, Gravitt, PE, Yeoman, CJ, Brotman, RM, Borgogna, J C, Shardell, M D, Santori, E K, Nelson, T M, Rath, J M, Glover, E D, Gravitt, P E, Yeoman, C J, and Brotman, R M

Subjects
CROSS-sectional method, BACTERIAL vaginitis, BIOGENIC amines, VAGINAL discharge, BEHAVIORAL research, HEALTH behavior, METABOLITES, COMPARATIVE studies, LACTOBACILLUS, RESEARCH methodology, MEDICAL cooperation, METABOLISM, PAPILLOMAVIRUS diseases, RESEARCH, RESEARCH funding, RNA, VAGINA, EVALUATION research, SEQUENCE analysis
Abstract

Objective: Characterise the vaginal metabolome of cervical HPV-infected and uninfected women.Design: Cross-sectional.Setting: The Center for Health Behavior Research at the University of Maryland School of Public Health.Sample: Thirty-nine participants, 13 categorised as HPV-negative and 26 as HPV-positive (any genotype; HPV+ ), 14 of whom were positive with at least one high-risk HPV strain (hrHPV).Method: Self-collected mid-vaginal swabs were profiled for bacterial composition by 16S rRNA gene amplicon sequencing, metabolites by both gas and liquid chromatography mass spectrometry, and 37 types of HPV DNA.Main Outcome Measures: Metabolite abundances.Results: Vaginal microbiota clustered into Community State Type (CST) I (Lactobacillus crispatus-dominated), CST III (Lactobacillus iners-dominated), and CST IV (low-Lactobacillus, 'molecular-BV'). HPV+ women had higher biogenic amine and phospholipid concentrations compared with HPV- women after adjustment for CST and cigarette smoking. Metabolomic profiles of HPV+ and HPV- women differed in strata of CST. In CST III, there were higher concentrations of biogenic amines and glycogen-related metabolites in HPV+ women than in HPV- women. In CST IV, there were lower concentrations of glutathione, glycogen, and phospholipid-related metabolites in HPV+ participants than in HPV- participants. Across all CSTs, women with hrHPV strains had lower concentrations of amino acids, lipids, and peptides compared with women who had only low-risk HPV (lrHPV).Conclusions: The vaginal metabolome of HPV+ women differed from HPV- women in terms of several metabolites, including biogenic amines, glutathione, and lipid-related metabolites. If the temporal relation between increased levels of reduced glutathione and oxidised glutathione and HPV incidence/persistence is confirmed in future studies, anti-oxidant therapies may be considered as a non-surgical HPV control intervention.Tweetable Abstract: Metabolomics study: Vaginal microenvironment of HPV+ women may be informative for non-surgical interventions. [ABSTRACT FROM AUTHOR]

Published
2020
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31. Association of HPV infection and clearance with cervicovaginal immunology and the vaginal microbiota

Author

Shannon, B., primary, Yi, T.J., additional, Perusini, S., additional, Gajer, P., additional, Ma, B., additional, Humphrys, M.S., additional, Thomas-Pavanel, J., additional, Chieza, L., additional, Janakiram, P., additional, Saunders, M., additional, Tharao, W., additional, Huibner, S., additional, Shahabi, K., additional, Ravel, J., additional, Rebbapragada, A., additional, and Kaul, R., additional

Published
2017
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37. Erratum: HLA-DPB1 and HLA class i confer risk of and protection from narcolepsy (American Journal of Human Genetics (2015) 96 (136-146))

Author

Ollila, H. M., Ravel, J. -M., Han, F., Faraco, J., Lin, L., Zheng, X., Plazzi, G., Dauvilliers, Y., Pizza, F., Hong, S. -C., Jennum, P., Knudsen, S., Kornum, B. R., Dong, X. S., Yan, H., Hong, H., Coquillard, C., Mahlios, J., Jolanki, O., Einen, M., Arnulf, I., Hogl, B., Frauscher, B., Crowe, C., Partinen, M., Huang, Y. S., Bourgin, P., Vaarala, O., Desautels, A., Montplaisir, J., Mack, S. J., Mindrinos, M., Fernandez-Vina, M., and Mignot, E.

Published
2015

38. Chlamydia caviae infection alters abundance but not composition of the guinea pig vaginal microbiota

Author

Neuendorf, E, Gajer, P, Bowlin, AK, Marques, PX, Ma, B, Yang, H, Fu, L, Humphrys, MS, Forney, LJ, Myers, GSA, Bavoil, PM, Rank, RG, Ravel, J, Neuendorf, E, Gajer, P, Bowlin, AK, Marques, PX, Ma, B, Yang, H, Fu, L, Humphrys, MS, Forney, LJ, Myers, GSA, Bavoil, PM, Rank, RG, and Ravel, J

Abstract

© FEMS 2015. In humans, the vaginal microbiota is thought to be the first line of defense again pathogens including Chlamydia trachomatis. The guinea pig has been extensively used as a model to study chlamydial infection because it shares anatomical and physiological similarities with humans, such as a squamous vaginal epithelium as well as some of the long-term outcomes caused by chlamydial infection. In this study, we aimed to evaluate the guinea pig-C. caviae model of genital infection as a surrogate for studying the role of the vaginal microbiota in the early steps of C. trachomatis infection in humans. We used culture-independent molecular methods to characterize the relative and absolute abundance of bacterial phylotypes in the guinea pig vaginal microbiota in animals non-infected, mock-infected or infected by C. caviae. We showed that the guinea pig and human vaginal microbiotas are of different bacterial composition and abundance. Chlamydia caviae infection had a profound effect on the absolute abundance of bacterial phylotypes but not on the composition of the guinea pig vaginal microbiota. Our findings compromise the validity of the guinea pig-C. caviae model to study the role of the vaginal microbiota during the early steps of sexually transmitted infection.

Published
2015

41. The rapid atmospheric monitoring system of the Pierre Auger Observatory

Author

Abreu, P., Aglietta, M, Ahlers, M., Ahn, M., Albuquerque, E. J., Allard, I. F. M., Allekotte, D., Allen, I., Allison, J., Almela, P., Castillo, A., Alvarez Muniz, J. A., Batista, J., Ambrosio, R. A., Aminaei, M., Anchordoqui, A., Andringa, L., Antici'C, S., Aramo, T., Arganda, C., Arqueros, E., Asorey, F., Assis, H., Aublin, P., Ave, J., Avenier, M., Avila, M., Badescu, G., Balzer, A. M., Barber, M., Barbosa, K. B., Bardenet, A. F., Barroso, R., Baughman, S. L. C., Bauml, B., Baus, J., Beatty, C., Becker, J. J., Belletoile, K. H., Bellido, A., Benzvi, J. A., Berat, S., Bertou, C., Biermann, X., Billoir, P. L., Blanco, P., Blanco, F., Bleve, M., Blumer, C., Bohacova, H., Boncioli, M., Bonifazi, D., Bonino, C., Borodai, R., Brack, N., Brancus, J., Brogueira, I., Brown, P., Bruijn, W. C., Buchholz, R., Bueno, P., Buroker, A., Burton, L., Caballero Mora, R. E., Caccianiga, K. S., Caramete, B., Caruso, L., Castellina, R., Catalano, A., Cataldi, O., Cazon, G., Cester, L., Chauvin, R., Cheng, J., Chiavassa, S. H., Chinellato, A., Diaz, J. A., Chudoba, J. C., Cilmo, J., Clay, M., Cocciolo, R. W., Collica, G., Coluccia, L., Conceicao, M. R., Contreras, R., Cook, F., Cooper, H., Coppens, M. J., Cordier, J., Coutu, A., Covault, S., Creusot, C. E., Criss, A., Cronin, A., Curutiu, J., Dagoret Campagne, A., Dallier, S., Daniel, R., Dasso, B., Daumiller, S., Dawson, K., de Almeida, B. R., De Domenico, R. M., De Donato, M., de Jong, C., De la Vega, S. J., de Mello, G., Neto, W. J. M., Mitri, Jrtd, de Souza, I., de Vries, V., del Peral, K. D., del Rio, L., Deligny, M., Dembinski, O., Dhital, H., Di Giulio, N., Castro, C., Diep, M. L. D., Diogo, P. N., Dobrigkeit, F., Docters, C., D'Olivo, W., Dong, J. C., Dorofeev, P. N., dos Anjos, A., Dova, J. C., D'Urso, M. T., Dutan, D., Ebr, I., Engel, J., Erdmann, R., Escobar, M., Espadanal, C. O., Etchegoyen, J., Luis, A., Falcke, P. F. S., Fang, H., Farrar, K., Fauth, G., Fazzini, A. C., Ferguson, N., Fick, A. P., Figueira, B., Filevich, J. M., Filipcic, A., Fliescher, A., Fracchiolla, S., Fraenkel, C. E., Fratu, E. D., Frohlich, O., Fuchs, U., Gaior, B., Gamarra, R., Gambetta, R. F., Garcia, S., Roca, B., Garcia Gamez, S. T. G., Garcia Pinto, D., Garilli, D., Bravo, G., Gemmeke, A. G., Ghia, H., Giller, P. L., Gitto, M., Glass, J., Gold, H., Golup, M. S., Albarracin, G., Berisso, F. G., Vitale, M. G., Goncalves, P. F. G., Gonzalez, P., Gookin, G., Gorgi, B., Gouffon, A., Grashorn, P., Grebe, E., Griffith, S., Grillo, N., Guardincerri, A. F., Guarino, Y., Guedes, F., Hansen, G. P., Harari, P., Harrison, D., Harton, T. A., Haungs, J. L., Hebbeker, A., Heck, T., Herve, D., Hojvat, A. E., Hollon, C., Holmes, N., Homola, V. C., Horandel, P., Horvath, J. R., Hrabovsky, P., Huber, M., Huege, D., Insolia, T., Ionita, A., Italiano, F., Jansen, A., Jarne, S., Jiraskova, C., Josebachuili, S., Kadija, M., Kampert, K., Karhan, K. H., Kasper, P., Katkov, P., Kegl, I., Keilhauer, B., Keivani, B., Kelley, A., Kemp, J. L., Kieckhafer, E., Klages, R. M., Kleifges, H. O., Kleinfeller, M., Knapp, J., Koang, J., Kotera, D. H., Krohm, K., Kromer, N., Kruppke Hansen, O., Kuempel, D., Kulbartz, D., Kunka, J. K., La Rosa, N., Lachaud, G., Lahurd, C., Latronico, D., Lauer, L., Lautridou, R., Le Coz, P., Leao, S., Lebrun, Msab and, Lebrun, D., de Oliveira, P., Letessier Selvon, M. A. L., Lhenry Yvon, A., Link, I., Lopez, K., Aguera, R., Louedec, A. L., Bahilo, K., J. L., Lu, Lucero, L., Ludwig, A., Lyberis, M., Maccarone, H., Macolino, M. C., Maldera, C., Maller, S., Mandat, J., Mantsch, D., Mariazzi, P., Marin, A. G., Marin, J., Maris, V., Falcon, I. C., Marsella, H. R. M., Martello, G., Martin, D., Martinez, L., Bravo, H., Martraire, O. M., Meza, D., Mathes, J. J. M., Matthews, H. J., Matthews, J., Matthiae, A. J., Maurel, G., Maurizio, D., Mazur, D., Medina Tanco, P. O., Melissas, G., Melo, M., Menichetti, D., Menshikov, E., Mertsch, A., Meurer, P., Meyhandan, C., Mi'Canovi'C, R., Micheletti, S., Minaya, M. I., Miramonti, I. A., Molina Bueno, L., Mollerach, L., Monasor, S., Ragaigne, M., Montanet, D. M., Morales, F., Morello, B., Moreno, C., Moreno, E., Mostafa, J. C., Moura, M., Muller, C. A., Muller, M. A., Munchmeyer, G., Mussa, M., Navarra, R., Navarro, G., Navas, J. L., Necesal, S., Nellen, P., Nelles, L., Neuser, A., Nhung, J., Niechciol, P. T., Niemietz, M., Nierstenhoefer, L., Nitz, N., Nosek, D., Nozka, D., Oehlschlager, L., Olinto, J., Ortiz, A., Pacheco, M., Selmi Dei, N., Palatka, D. P., Pallotta, M., Palmieri, J., Parente, N., Parizot, G., Parra, E., Pastor, A., Paul, S., Pech, T., Pekala, M., Pelayo, J., Pepe, R., Perrone, I. M., Pesce, L., Petermann, R., Petrera, E., Petrolini, Alessandro, Petrov, A., Pfendner, Y., Piegaia, C., Pierog, R., Pieroni, T., Pimenta, P., Pirronello, M., Platino, V., Plum, M., Ponce, M., Pontz, V. H., Porcelli, M., Privitera, A., Prouza, P., Quel, M., Querchfeld, E. J., Rautenberg, S., Ravel, J., Ravignani, O., Revenu, D., Ridky, B., Riggi, J., Risse, S., Ristori, M., Rivera, P., Rizi, H., Roberts, V., de Carvalho, J., Rodriguez, W. R., Cabo, G., Martino, I. R., Rojo, J. R., Rodriguez Frias, J. R., Ros, M. D., Rosado, G., Rossler, J., Roth, T., Rouille d'Orfeuil, M., Roulet, B., Rovero, E., Ruhle, A. C., Saftoiu, C., Salamida, A., Salazar, F., Greus, H., Salina, F. S., Sanchez, G., Santo, F., Santos, C. E., Santos, E., Sarazin, E. M., Sarkar, F., Sarkar, B., Sato, S., Scharf, R., Scherini, N., Schieler, V., Schiffer, H., Schmidt, P., Scholten, A., Schoorlemmer, O., Schovancova, H., Schovanek, J., Schroder, P., Schulte, F., Schuster, S., Sciutto, D., Scuderi, S. J., Segreto, M., Settimo, A., Shadkam, M., Shellard, A., Sidelnik, R. C., Sigl, I., Lopez, G., Sima, H. H. S., Smialkowski, O., Smida, A., Snow, R., Sommers, G. R., Sorokin, P., Spinka, J., Squartini, H., Srivastava, R., Stanic, Y. N., Stapleton, S., Stasielak, J., Stephan, J., Stutz, M., Suarez, A., Suomijarvi, F., Supanitsky, T., Susa, A. D., Sutherland, T., Swain, M. S., Szadkowski, J., Szuba, Z., Tapia, M., Tartare, A., Tascau, M., Tcaciuc, O., Thao, R., Thomas, N. T., Tiffenberg, D., Timmermans, J., Tkaczyk, C., Peixoto, W., Toma, C. J. T., Tomankova, G., Tome, L., Tonachini, B., Travnicek, A., Tridapalli, P., Tristram, D. B., Trovato, G., Tueros, E., Ulrich, M., Unger, R., Urban, M., Galicia, M., Valino, J. F. V., Valore, I., Van Aar, L., van den Berg, G., van Vliet, A. M., Varela, A., Cardenas, E., Vazquez, B. V., Vazquez, J. R., Veberic, R. A., Verzi, D., Vicha, V., Videla, J., Villasenor, M., Wahlberg, L., Wahrlich, H., Wainberg, P., Walz, O., Watson, D., Weber, A. A., Weidenhaupt, M., Weindl, K., Werner, A., Westerhoff, F., Whelan, S., Widom, B. J., Wieczorek, A., Wiencke, G., Wilczynska, L., Wilczynski, B., Will, H., Williams, M., Winchen, C., Wommer, T., Wundheiler, M., Yamamoto, B., Yapici, T., Younk, T., Yuan, P., Yushkov, G., Garcia, A., Zas, B. Z., Zavrtanik, E., Zavrtanik, D., Zaw, M., Zepeda, I., Zhou, A., Zhu, J., Silva, Y., Ziolkowski, M. Z., Pierre Auger, M., APC - Astrophysique des Hautes Energies (APC - AHE), AstroParticule et Cosmologie (APC (UMR_7164)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Observatoire de Paris, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Observatoire de Paris, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS)-Alma Mater Studiorum Università di Bologna [Bologna] (UNIBO), Laboratoire de Physique Subatomique et de Cosmologie (LPSC), Université Joseph Fourier - Grenoble 1 (UJF)-Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP )-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Institut Polytechnique de Grenoble - Grenoble Institute of Technology-Centre National de la Recherche Scientifique (CNRS), Laboratoire de l'Accélérateur Linéaire (LAL), Université Paris-Sud - Paris 11 (UP11)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Laboratoire SUBATECH Nantes (SUBATECH), Mines Nantes (Mines Nantes)-Université de Nantes (UN)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), Institut de Physique Nucléaire d'Orsay (IPNO), PIERRE AUGER, P., Abreu, M., Aglietta, M., Ahler, E. J., Ahn, I. F. M., Albuquerque, D., Allard, I., Allekotte, J., Allen, P., Allison, A., Almela, J., Alvarez Castillo, J., Alvarez Muñiz, R., Alves Batista, M., Ambrosio, A., Aminaei, L., Anchordoqui, S., Andringa, T., Antičić, C., Aramo, E., Arganda, F., Arquero, H., Asorey, P., Assi, J., Aublin, M., Ave, M., Avenier, G., Avila, A. M., Badescu, M., Balzer, K. B., Barber, A. F., Barbosa, R., Bardenet, S. L. C., Barroso, B., Baughman f, J., Bäuml, C., Bau, J. J., Beatty, K. H., Becker, A., Bellétoile, J. A., Bellido, S., Benzvi, C., Berat, X., Bertou, P. L., Biermann, P., Billoir, F., Blanco, M., Blanco, C., Bleve, H., Blümer, M., Boháčová, D., Boncioli, C., Bonifazi, R., Bonino, N., Borodai, J., Brack, I., Brancu, P., Brogueira, W. C., Brown, R., Bruijn i, P., Buchholz, A., Bueno, L., Buroker, R. E., Burton, K. S., Caballero Mora, B., Caccianiga, L., Caramete, R., Caruso, A., Castellina, O., Catalano, G., Cataldi, L., Cazon, R., Cester, J., Chauvin, S. H., Cheng, A., Chiavassa, J. A., Chinellato, J., Chirinos Diaz, J., Chudoba, M., Cilmo, R. W., Clay, Cocciolo, Giuseppe, L., Collica, Coluccia, MARIA RITA, R., Conceição, F., Contrera, H., Cook, M. J., Cooper, J., Coppen, A., Cordier, S., Coutu, C. E., Covault, A., Creusot, A., Cri, J., Cronin, A., Curutiu, S., Dagoret Campagne, R., Dallier, B., Daniel, S., Dasso, K., Daumiller, B. R., Dawson, R. M., de Almeida, M., De Domenico, C., De Donato, S. J., de Jong, G., De La Vega, W. J. M., de Mello Junior, J. R. T., de Mello Neto, DE MITRI, Ivan, V., de Souza, K. D., de Vrie, L., del Peral, M., del Río, O., Deligny, H., Dembinski, N., Dhital, C., Di Giulio, M. L., Díaz Castro, P. N., Diep, F., Diogo, C., Dobrigkeit, W., Docter, J. C., D'Olivo, P. N., Dong, A., Dorofeev, J. C., dos Anjo, M. T., Dova, D., D'Urso, I., Dutan, J., Ebr, R., Engel, M., Erdmann, C. O., Escobar, J., Espadanal, A., Etchegoyen, P., Facal San Lui, H., Falcke, K., Fang, G., Farrar, A. C., Fauth, N., Fazzini, A. P., Ferguson, B., Fick, J. M., Figueira, A., Filevich, A., Filipčič, S., Fliescher, C. E., Fracchiolla, E. D., Fraenkel!, O., Fratu, U., Fröhlich, B., Fuch, R., Gaior, R. F., Gamarra, S., Gambetta, B., García, S. T., Garcia Roca, D., Garcia Gamez, D., Garcia Pinto, G., Garilli, A., Gascon Bravo, H., Gemmeke, P. L., Ghia, M., Giller, J., Gitto, H., Gla, M. S., Gold, G., Golup, F., Gomez Albarracin, M., Gómez Berisso, P. F., Gómez Vitale, P., Gonçalve, J. G., Gonzalez, B., Gookin, A., Gorgi, P., Gouffon, E., Grashorn, S., Grebe, N., Griffith, A. F., Grillo, Y., Guardincerri, F., Guarino, G. P., Guede, P., Hansen, D., Harari, T. A., Harrison, J. L., Harton, A., Haung, T., Hebbeker, D., Heck, A. E., Herve, C., Hojvat, N., Hollon, V. C., Holme, P., Homola, J. R., Hörandel, P., Horvath, M., Hrabovský, D., Huber, T., Huege, A., Insolia, F., Ionita, A., Italiano, S., Jansen, C., Jarne, S., Jiraskova, M., Josebachuili, K., Kadija, K. H., Kampert, P., Karhan, P., Kasper, I., Katkov, B., Kégl, B., Keilhauer, A., Keivani, J. L., Kelley, E., Kemp, R. M., Kieckhafer, H. O., Klage, M., Kleifge, J., Kleinfeller, J., Knapp, D. H., Koang, K., Kotera, N., Krohm, O., Krömer, D., Kruppke Hansen, D., Kuempel, J. K., Kulbartz, N., Kunka, G., La Rosa, C., Lachaud, D., Lahurd, L., Latronico, R., Lauer, P., Lautridou, S., Le Coz, M. S. A. B., Leão, D., Lebrun, P., Lebrun, M. A., Leigui de Oliveira, A., Letessier Selvon, I., Lhenry Yvon, K., Link, R., López, A., Lopez Agüera, K., Louedec, J., Lozano Bahilo, L., Lu, A., Lucero, M., Ludwig, H., Lyberi, M. C., Maccarone, C., Macolino, S., Maldera, J., Maller, D., Mandat, P., Mantsch, A. G., Mariazzi, J., Marin, V., Marin, I. C., Mari, H. R., Marquez Falcon, Marsella, Giovanni, Martello, Daniele, L., Martin, H., Martinez, O., Martínez Bravo, D., Martraire, J. J., Masías Meza, H. J., Mathe, J., Matthew, J. A. J., Matthew, G., Matthiae, D., Maurel, D., Maurizio, P. O., Mazur, G., Medina Tanco, M., Melissa, D., Melo, E., Menichetti, A., Menshikov, P., Mertsch, C., Meurer, R., Meyhandan, S., Mićanović, M. I., Micheletti, I. A., Minaya, L., Miramonti, L., Molina Bueno, S., Mollerach, M., Monasor, D., Monnier Ragaigne, F., Montanet, B., Morale, C., Morello, E., Moreno, J. C., Moreno, M., Mostafá, C. A., Moura, M. A., Muller, G., Müller, M., Münchmeyer, R., Mussa, G., Navarra ‡, J. L., Navarro, S., Nava, P., Necesal, L., Nellen, A., Nelle, J., Neuser, P. T., Nhung, M., Niechciol, L., Niemietz, N., Nierstenhoefer, D., Nitz, D., Nosek, L., Nožka, J., Oehlschläger, A., Olinto, M., Ortiz, N., Pacheco, D., Pakk Selmi Dei, M., Palatka, J., Pallotta, N., Palmieri, G., Parente, E., Parizot, A., Parra, S., Pastor, T., Paul, M., Pech, J., Pękala, R., Pelayo, I. M., Pepe, Perrone, Lorenzo, R., Pesce, E., Petermann, S., Petrera, A., Petrolini, Y., Petrov, C., Pfendner, R., Piegaia, T., Pierog, P., Pieroni, M., Pimenta, V., Pirronello, M., Platino, M., Plum, V. H., Ponce, M., Pontz, A., Porcelli, P., Privitera, M., Prouza, E. J., Quel, S., Querchfeld, J., Rautenberg, O., Ravel, D., Ravignani, B., Revenu, J., Ridky, S., Riggi, M., Risse, P., Ristori, H., Rivera, V., Rizi, J., Robert, W., Rodrigues de Carvalho, G., Rodriguez, I., Rodriguez Cabo, J., Rodriguez Martino, J., Rodriguez Rojo, M. D., Rodríguez Fría, G., Ro, J., Rosado, T., Rossler, M., Roth, B., Rouillé d'Orfeuil, E., Roulet, A. C., Rovero, C., Rühle, A., Saftoiu, F., Salamida, H., Salazar, F., Salesa Greu, G., Salina, F., SÃ! ¡nchez, C. E., Santo, E., Santo, E. M., Santo, F., Sarazin, B., Sarkar, S., Sarkar, R., Sato, N., Scharf, V., Scherini, H., Schieler, P., Schiffer, A., Schmidt, O., Scholten, H., Schoorlemmer, J., Schovancova, P., Schovánek, F., Schröder, S., Schulte, D., Schuster, S. J., Sciutto, M., Scuderi, A., Segreto, M., Settimo, A., Shadkam, R. C., Shellard, I., Sidelnik, G., Sigl, H. H., Silva Lopez, O., Sima, A., Śmiałkowski, R., Šmída, G. R., Snow, P., Sommer, J., Sorokin, H., Spinka, R., Squartini, Y. N., Srivastava, S., Stanic, J., Stapleton, J., Stasielak, M., Stephan, A., Stutz, F., Suarez, T., Suomijärvi, A. D., Supanitsky, T., Šuša, M. S., Sutherland, J., Swain, Z., Szadkowski, M., Szuba, A., Tapia, M., Tartare, O., Taşcău, R., Tcaciuc, N. T., Thao, D., Thoma, J., Tiffenberg, C., Timmerman, W., Tkaczyk, C. J., Todero Peixoto, G., Toma, L., Tomankova, B., Tomé, A., Tonachini, P., Travnicek, D. B., Tridapalli, G., Tristram, E., Trovato, M., Tuero, R., Ulrich, M., Unger, M., Urban, J. F., Valdés Galicia, I., Valiño, L., Valore, G., van Aar, A. M., van den Berg, A., van Vliet, E., Varela, B., Vargas Cárdena, J. R., Vázquez, R. A., Vázquez, D., Veberič, V., Verzi, J., Vicha, M., Videla, L., Villaseñor, H., Wahlberg, P., Wahrlich, O., Wainberg, D., Walz, A. A., Watson, M., Weber, K., Weidenhaupt, A., Weindl, F., Werner, S., Westerhoff, B. J., Whelan, A., Widom, G., Wieczorek, L., Wiencke, B., Wilczyńska, H., Wilczyński, M., Will, C., William, T., Winchen, M., Wommer, B., Wundheiler, T., Yamamoto a, T., Yapici, P., Younk, G., Yuan, A., Yushkov, B., Zamorano Garcia, E., Za, D., Zavrtanik, M., Zavrtanik, I., Zaw h, A., Zepeda b, J., Zhou, Y., Zhu, M., Zimbres Silva, M. Ziolkowski, ., P. Abreu, M. Aglietta, M. Ahler, E.J. Ahn, I.F.M. Albuquerque, D. Allard, I. Allekotte, J. Allen, P. Allison, A. Almela, J. Alvarez Castillo, J. Alvarez-Muñiz, R. Alves Batista, M. Ambrosio, A. Aminaei, L. Anchordoqui, S. Andringa, T. Antičić, C. Aramo, E. Arganda, F. Arquero, H. Asorey, P. Assi, J. Aublin, M. Ave, M. Avenier, G. Avila, A.M. Badescu, M. Balzer, K.B. Barber, A.F. Barbosa, R. Bardenet, S.L.C. Barroso, B. Baughman f, J. Bäuml, C. Bau, J.J. Beatty, K.H. Becker, A. Bellétoile, J.A. Bellido, S. BenZvi, C. Berat, X. Bertou, P.L. Biermann, P. Billoir, F. Blanco, M. Blanco, C. Bleve, H. Blümer, M. Boháčová, D. Boncioli, C. Bonifazi, R. Bonino, N. Borodai, J. Brack, I. Brancu, P. Brogueira, W.C. Brown, R. Bruijn i, P. Buchholz, A. Bueno, L. Buroker, R.E. Burton, K.S. Caballero-Mora, B. Caccianiga, L. Caramete, R. Caruso, A. Castellina, O. Catalano, G. Cataldi, L. Cazon, R. Cester, J. Chauvin, S.H. Cheng, A. Chiavassa, J.A. Chinellato, J. Chirinos Diaz, J. Chudoba, M. Cilmo, R.W. Clay, G. Cocciolo, L. Collica, M.R. Coluccia, R. Conceição, F. Contrera, H. Cook, M.J. Cooper, J. Coppen, A. Cordier, S. Coutu, C.E. Covault, A. Creusot, A. Cri, J. Cronin, A. Curutiu, S. Dagoret-Campagne, R. Dallier, B. Daniel, S. Dasso, K. Daumiller, B.R. Dawson, R.M. de Almeida, M. De Domenico, C. De Donato, S.J. de Jong, G. De La Vega, W.J.M. de Mello Junior, J.R.T. de Mello Neto, I. De Mitri, V. de Souza, K.D. de Vrie, L. del Peral, M. del Río, O. Deligny, H. Dembinski, N. Dhital, C. Di Giulio, M.L. Díaz Castro, P.N. Diep, F. Diogo, C. Dobrigkeit, W. Docter, J.C. D'Olivo, P.N. Dong, A. Dorofeev, J.C. dos Anjo, M.T. Dova, D. D'Urso, I. Dutan, J. Ebr, R. Engel, M. Erdmann, C.O. Escobar, J. Espadanal, A. Etchegoyen, P. Facal San Lui, H. Falcke, K. Fang, G. Farrar, A.C. Fauth, N. Fazzini, A.P. Ferguson, B. Fick, J.M. Figueira, A. Filevich, A. Filipčič, S. Fliescher, C.E. Fracchiolla, E.D. Fraenkel!, O. Fratu, U. Fröhlich, B. Fuch, R. Gaior, R.F. Gamarra, S. Gambetta, B. García, S.T. Garcia Roca, D. Garcia-Gamez, D. Garcia-Pinto, G. Garilli, A. Gascon Bravo, H. Gemmeke, P.L. Ghia, M. Giller, J. Gitto, H. Gla, M.S. Gold, G. Golup, F. Gomez Albarracin, M. Gómez Berisso, P.F. Gómez Vitale, P. Gonçalve, J.G. Gonzalez, B. Gookin, A. Gorgi, P. Gouffon, E. Grashorn, S. Grebe, N. Griffith, A.F. Grillo, Y. Guardincerri, F. Guarino, G.P. Guede, P. Hansen, D. Harari, T.A. Harrison, J.L. Harton, A. Haung, T. Hebbeker, D. Heck, A.E. Herve, C. Hojvat, N. Hollon, V.C. Holme, P. Homola, J.R. Hörandel, P. Horvath, M. Hrabovský, D. Huber, T. Huege, A. Insolia, F. Ionita, A. Italiano, S. Jansen, C. Jarne, S. Jiraskova, M. Josebachuili, K. Kadija, K.H. Kampert, P. Karhan, P. Kasper, I. Katkov, B. Kégl, B. Keilhauer, A. Keivani, J.L. Kelley, E. Kemp, R.M. Kieckhafer, H.O. Klage, M. Kleifge, J. Kleinfeller, J. Knapp, D.-H. Koang, K. Kotera, N. Krohm, O. Krömer, D. Kruppke-Hansen, D. Kuempel, J.K. Kulbartz, N. Kunka, G. La Rosa, C. Lachaud, D. LaHurd, L. Latronico, R. Lauer, P. Lautridou, S. Le Coz, M.S.A.B. Leão, D. Lebrun, P. Lebrun, M.A. Leigui de Oliveira, A. Letessier-Selvon, I. Lhenry-Yvon, K. Link, R. López, A. Lopez Agüera, K. Louedec, J. Lozano Bahilo, L. Lu, A. Lucero, M. Ludwig, H. Lyberi, M.C. Maccarone, C. Macolino, S. Maldera, J. Maller, D. Mandat, P. Mantsch, A.G. Mariazzi, J. Marin, V. Marin, I.C. Mari, H.R. Marquez Falcon, G. Marsella, D. Martello, L. Martin, H. Martinez, O. Martínez Bravo, D. Martraire, J.J. Masías Meza, H.J. Mathe, J. Matthew, J.A.J. Matthew, G. Matthiae, D. Maurel, D. Maurizio, P.O. Mazur, G. Medina-Tanco, M. Melissa, D. Melo, E. Menichetti, A. Menshikov, P. Mertsch, C. Meurer, R. Meyhandan, S. Mićanović, M.I. Micheletti, I.A. Minaya, L. Miramonti, L. Molina-Bueno, S. Mollerach, M. Monasor, D. Monnier Ragaigne, F. Montanet, B. Morale, C. Morello, E. Moreno, J.C. Moreno, M. Mostafá, C.A. Moura, M.A. Muller, G. Müller, M. Münchmeyer, R. Mussa, G. Navarra ‡, J.L. Navarro, S. Nava, P. Necesal, L. Nellen, A. Nelle, J. Neuser, P.T. Nhung, M. Niechciol, L. Niemietz, N. Nierstenhoefer, D. Nitz, D. Nosek, L. Nožka, J. Oehlschläger, A. Olinto, M. Ortiz, N. Pacheco, D. Pakk Selmi-Dei, M. Palatka, J. Pallotta, N. Palmieri, G. Parente, E. Parizot, A. Parra, S. Pastor, T. Paul, M. Pech, J. Pękala, R. Pelayo, I.M. Pepe, L. Perrone, R. Pesce, E. Petermann, S. Petrera, A. Petrolini, Y. Petrov, C. Pfendner, R. Piegaia, T. Pierog, P. Pieroni, M. Pimenta, V. Pirronello, M. Platino, M. Plum, V.H. Ponce, M. Pontz, A. Porcelli, P. Privitera, M. Prouza, E.J. Quel, S. Querchfeld, J. Rautenberg, O. Ravel, D. Ravignani, B. Revenu, J. Ridky, S. Riggi, M. Risse, P. Ristori, H. Rivera, V. Rizi, J. Robert, W. Rodrigues de Carvalho, G. Rodriguez, I. Rodriguez Cabo, J. Rodriguez Martino, J. Rodriguez Rojo, M.D. Rodríguez-Fría, G. Ro, J. Rosado, T. Rossler, M. Roth, B. Rouillé-d'Orfeuil, E. Roulet, A.C. Rovero, C. Rühle, A. Saftoiu, F. Salamida, H. Salazar, F. Salesa Greu, G. Salina, F. SÃ! ¡nchez, C.E. Santo, E. Santo, E.M. Santo, F. Sarazin, B. Sarkar, S. Sarkar, R. Sato, N. Scharf, V. Scherini, H. Schieler, P. Schiffer, A. Schmidt, O. Scholten, H. Schoorlemmer, J. Schovancova, P. Schovánek, F. Schröder, S. Schulte, D. Schuster, S.J. Sciutto, M. Scuderi, A. Segreto, M. Settimo, A. Shadkam, R.C. Shellard, I. Sidelnik, G. Sigl, H.H. Silva Lopez, O. Sima, A. Śmiałkowski, R. Šmída, G.R. Snow, P. Sommer, J. Sorokin, H. Spinka, R. Squartini, Y.N. Srivastava, S. Stanic, J. Stapleton, J. Stasielak, M. Stephan, A. Stutz, F. Suarez, T. Suomijärvi, A.D. Supanitsky, T. Šuša, M.S. Sutherland, J. Swain, Z. Szadkowski, M. Szuba, A. Tapia, M. Tartare, O. Taşcău, R. Tcaciuc, N.T. Thao, D. Thoma, J. Tiffenberg, C. Timmerman, W. Tkaczyk, C.J. Todero Peixoto, G. Toma, L. Tomankova, B. Tomé, A. Tonachini, P. Travnicek, D.B. Tridapalli, G. Tristram, E. Trovato, M. Tuero, R. Ulrich, M. Unger, M. Urban, J.F. Valdés Galicia, I. Valiño, L. Valore, G. van Aar, A.M. van den Berg, A. van Vliet, E. Varela, B. Vargas Cárdena, J.R. Vázquez, R.A. Vázquez, D. Veberič, V. Verzi, J. Vicha, M. Videla, L. Villaseñor, H. Wahlberg, P. Wahrlich, O. Wainberg, D. Walz, A.A. Watson, M. Weber, K. Weidenhaupt, A. Weindl, F. Werner, S. Westerhoff, B.J. Whelan, A. Widom, G. Wieczorek, L. Wiencke, B. Wilczyńska, H. Wilczyński, M. Will, C. William, T. Winchen, M. Wommer, B. Wundheiler, T. Yamamoto a, T. Yapici, P. Younk, G. Yuan, A. Yushkov, B. Zamorano Garcia, E. Za, D. Zavrtanik, M. Zavrtanik, I. Zaw h, A. Zepeda b, J. Zhou, Y. Zhu, M. Zimbres Silva, M. Ziolkowski ., Observatoire de Paris, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Observatoire de Paris, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Dipartimento di Astronomia, Universita degli Studi di Bologna, Alma Mater Studiorum Università di Bologna [Bologna] (UNIBO)-Alma Mater Studiorum Università di Bologna [Bologna] (UNIBO), Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP )-Institut Polytechnique de Grenoble - Grenoble Institute of Technology-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Université Joseph Fourier - Grenoble 1 (UJF)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Université Paris-Sud - Paris 11 (UP11), Centre National de la Recherche Scientifique (CNRS)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Université de Nantes (UN)-Mines Nantes (Mines Nantes), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3), Aramo, Carla, D'Urso, Domenico, Guarino, Fausto, Valore, Laura, The Pierre Auger, Collaboration, KVI - Center for Advanced Radiation Technology, Research unit Astroparticle Physics, Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Observatoire de Paris, PSL Research University (PSL)-PSL Research University (PSL)-Université Paris Diderot - Paris 7 (UPD7)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Observatoire de Paris, PSL Research University (PSL)-PSL Research University (PSL)-Université Paris Diderot - Paris 7 (UPD7)-Dipartimento di Astronomia, Universita degli Studi di Bologna, Università di Bologna [Bologna] (UNIBO)-Università di Bologna [Bologna] (UNIBO), Université Joseph Fourier - Grenoble 1 (UJF)-Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Institut Polytechnique de Grenoble - Grenoble Institute of Technology-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA), and PSL Research University (PSL)-PSL Research University (PSL)-Université Paris Diderot - Paris 7 (UPD7)

Subjects
[PHYS.ASTR.HE]Physics [physics]/Astrophysics [astro-ph]/High Energy Astrophysical Phenomena [astro-ph.HE], Astronomy, FOS: Physical sciences, Cosmic ray, Real-time monitoring, 01 natural sciences, Large detector systems for particle and astroparticle physics, Real-time monitoring, Control and monitor systems online, Optical telescope, Observatory, 0103 physical sciences, SHOWERS, Large detector systems for particle and astroparticle physics, Control and monitor systems online, FLUORESCENCE, 010303 astronomy & astrophysics, Instrumentation, Instrumentation and Methods for Astrophysics (astro-ph.IM), DETECTOR, Mathematical Physics, Remote sensing, Event reconstruction, Pierre Auger Observatory, High Energy Astrophysical Phenomena (astro-ph.HE), 010308 nuclear & particles physics, [SDU.ASTR.HE]Sciences of the Universe [physics]/Astrophysics [astro-ph]/High Energy Astrophysical Phenomena [astro-ph.HE], Física, ENERGY-SPECTRUM, Monitoring program, Aerosol, ATMOSFERA (MONITORAMENTO), Air shower, Experimental High Energy Physics, Física nuclear, Astrophysics - Instrumentation and Methods for Astrophysics, Astrophysics - High Energy Astrophysical Phenomena
Abstract

The Pierre Auger Observatory is a facility built to detect air showers produced by cosmic rays above 1017 eV. During clear nights with a low illuminated moon fraction, the UV fluorescence light produced by air showers is recorded by optical telescopes at the Observatory. To correct the observations for variations in atmospheric conditions, atmospheric monitoring is performed at regular intervals ranging from several minutes (for cloud identification) to several hours (for aerosol conditions) to several days (for vertical profiles of temperature, pressure, and humidity). In 2009, the monitoring program was upgraded to allow for additional targeted measurements of atmospheric conditions shortly after the detection of air showers of special interest, e. g., showers produced by very high-energy cosmic rays or showers with atypical longitudinal profiles. The former events are of particular importance for the determination of the energy scale of the Observatory, and the latter are characteristic of unusual air shower physics or exotic primary particle types. The purpose of targeted (or "rapid") monitoring is to improve the resolution of the atmospheric measurements for such events. In this paper, we report on the implementation of the rapid monitoring program and its current status. The rapid monitoring data have been analyzed and applied to the reconstruction of air showers of high interest, and indicate that the air fluorescence measurements affected by clouds and aerosols are effectively corrected using measurements from the regular atmospheric monitoring program. We find that the rapid monitoring program has potential for supporting dedicated physics analyses beyond the standard event reconstruction.

Published
2012
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48. Prevalent high-risk HPV infection and vaginal microbiota in Nigerian women

Author

DARENG, E. O., primary, MA, B., additional, FAMOOTO, A. O., additional, AKAROLO-ANTHONY, S. N., additional, OFFIONG, R. A., additional, OLANIYAN, O., additional, DAKUM, P. S., additional, WHEELER, C. M., additional, FADROSH, D., additional, YANG, H., additional, GAJER, P., additional, BROTMAN, R. M., additional, RAVEL, J., additional, and ADEBAMOWO, C. A., additional

Published
2015
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49. The pangenome structure of Escherichia coli: Comparative genomic analysis of E. coli commensal and pathogenic isolates

Author

Rasko, DA, Rosovitz, MJ, Myers, GSA, Mongodin, EF, Fricke, WF, Gajer, P, Crabtree, J, Sebaihia, M, Thomson, NR, Chaudhuri, R, Henderson, IR, Sperandio, V, and Ravel, J

Subjects
DNA, Bacterial, Adult, Virulence Factors, Molecular Sequence Data, Computational Biology, Genomics, Microbiology, Genes, Bacterial, Escherichia coli, Animals, Humans, Rabbits, Conserved Sequence, Genome, Bacterial
Abstract

Whole-genome sequencing has been skewed toward bacterial pathogens as a consequence of the prioritization of medical and veterinary diseases. However, it is becoming clear that in order to accurately measure genetic variation within and between pathogenic groups, multiple isolates, as well as commensal species, must be sequenced. This study examined the pangenomic content of Escherichia coli. Six distinct E. coli pathovars can be distinguished using molecular or phenotypic markers, but only two of the six pathovars have been subjected to any genome sequencing previously. Thus, this report provides a seminal description of the genomic contents and unique features of three unsequenced pathovars, enterotoxigenic E. coli, enteropathogenic E. coli, and enteroaggregative E. coli. We also determined the first genome sequence of a human commensal E. coli isolate, E. coli HS, which will undoubtedly provide a new baseline from which workers can examine the evolution of pathogenic E. coli. Comparison of 17 E. coli genomes, 8 of which are new, resulted in identification of ∼2,200 genes conserved in all isolates. We were also able to identify genes that were isolate and pathovar specific. Fewer pathovar-specific genes were identified than anticipated, suggesting that each isolate may have independently developed virulence capabilities. Pangenome calculations indicate that E. coli genomic diversity represents an open pangenome model containing a reservoir of more than 13,000 genes, many of which may be uncharacterized but important virulence factors. This comparative study of the species E. coli, while descriptive, should provide the basis for future functional work on this important group of pathogens. Copyright © 2008, American Society for Microbiology. All Rights Reserved.

Published
2008

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