نتائج البحث - "Mossong, J"

الوصف: Background: Transmission of respiratory pathogens such as SARS-CoV-2 depends on patterns of contact and mixing across populations. Understanding this is crucial to predict pathogen spread and the effectiveness of control efforts. Most analyses of contact patterns to date have focused on high-income settings. Methods: Here, we conduct a systematic review and individual-participant meta-analysis of surveys carried out in low- and middle-income countries and compare patterns of contact in these settings to surveys previously carried out in high-income countries. Using individual-level data from 28,503 participants and 413,069 contacts across 27 surveys, we explored how contact characteristics (number, location, duration, and whether physical) vary across income settings. Results: Contact rates declined with age in high- and upper-middle-income settings, but not in low-income settings, where adults aged 65+ made similar numbers of contacts as younger individuals and mixed with all age groups. Across all settings, increasing household size was a key determinant of contact frequency and characteristics, with low-income settings characterised by the largest, most intergenerational households. A higher proportion of contacts were made at home in low-income settings, and work/school contacts were more frequent in high-income strata. We also observed contrasting effects of gender across income strata on the frequency, duration, and type of contacts individuals made. Conclusions: These differences in contact patterns between settings have material consequences for both spread of respiratory pathogens and the effectiveness of different non-pharmaceutical interventions. Funding: This work is primarily being funded by joint Centre funding from the UK Medical Research Council and DFID (MR/R015600/1).

العلاقة: https://ora.ox.ac.uk/objects/uuid:d16ea302-1f8f-481f-a5c4-85b9b5c2f48cTest; https://doi.org/10.7554/elife.70294Test

الإتاحة: https://doi.org/10.7554/elife.70294Test
https://ora.ox.ac.uk/objects/uuid:d16ea302-1f8f-481f-a5c4-85b9b5c2f48cTest

View record in BASE

4

دورية أكاديمية

Risk of hospitalization and death for healthcare workers with COVID-19 in nine European countries, January 2020–January 2021

المصدر: Journal of Hospital Infection ; volume 119, page 170-174 ; ISSN 0195-6701

مصطلحات موضوعية: Infectious Diseases, Microbiology (medical), General Medicine

الإتاحة: https://doi.org/10.1016Test/j.jhin.2021.10.015
https://api.elsevier.com/content/article/PII:S0195670121003790?httpAccept=text/xmlTest
https://api.elsevier.com/content/article/PII:S0195670121003790?httpAccept=text/plainTest

View record in BASE

5

دورية أكاديمية

Characteristics of SARS-CoV-2 variants of concern B.1.1.7, B.1.351 or P.1: data from seven EU/EEA countries, weeks 38/2020 to 10/2021

المؤلفون: Funk T., Pharris A., Spiteri G., Bundle N., Melidou A., Carr M., Gonzalez G., Garcia-Leon A., Crispie F., O'Connor L., Murphy N., Mossong J., Vergison A., Wienecke-Baldacchino A. K., Abdelrahman T., Riccardo F., Stefanelli P., Di Martino A., Bella A., Lo Presti A., Casaca P., Moreno J., Borges V., Isidro J., Ferreira R., Gomes J. P., Dotsenko L., Suija H., Epstein J., Sadikova O., Sepp H., Ikonen N., Savolainen-Kopra C., Blomqvist S., Mottonen T., Helve O., Gomes-Dias J., Adlhoch C., Macori G., Russell L., Yandle Z., Bennett C., O'Byrne E., Murphy A., Tuite G., Conroy A., Duffy M., Morley U., Keoghan B., Ford I., Kennedy M., McDonnell S., Flynn A., Clarke A., Crowley A., Martin C., Kelly E., Foxton J., Hare D., Dunford L., Connell J., Moran J., Dean J., Fanning S., Rajan L., De Gascun C., Kenny J., Cotter P., Walsh C., Lawton E., Fitzpatrick A., Mullins E., Della Bartola M., McCabe M., Stapleton P., Meaney C., Fanning L., Prentice M., MacSharry J., Dempsey C., Mallon P., Leon A., Chaturvedi A., Coughlan S., McAndrew G., Reddington K., Walsh F., Fitzpatrick D., Smyth C., O'Dwyer T., Chambers T., Clarke L., Jebb D., Klopp J., Kavanagh D., Haslam K., Buckley P., Lemass K., Fitzpatrick F., Burns K., Cafferkey J., Richmond A., Foley M., Sanchez-Morgado J., Chalapati S., Pinnamaneni N., Crosbie C., Limbachiya D., Tinago W., Garcia Leon A. A., Miles S., Alalwan D., Negi R., Macken A., Feeney E., Kenny G., McCann K., Kelly N., Blair M., McCann R., Kenny C., O'Brion C., Waqas S., Savinelli S., Doran P., Bracken T., Varghese P., Lambert J. S., Cotter A., Muldoon E., Sheehan G., McGinty T., Lambert J., Green S., Leamy K., de Barra E., McConkey S., Kelly C., Horgan M., Sadlier C., Yousif O., O'Donnell J., Fitzgerald M., Petty-Saphon N., Cuddihy J., Fiore S., Fabiani C., Benedetti E., Di Mario G., Facchini M., Puzelli S., Calzoletti L., Fontana S., Venturi G., Fortuna C., Marsili G., Amendola A., Stuppia L., Savini G., Picerno A., Lopizzo T., Dell'Edera D., Minchella P., Greco F., Mauro M. V., Viglietto G., Atripaldi L., Limone A., D'Agaro P., Licastro D., Marcello A., Capobianchi M. R., Icardi G., Bruzzone B., Lillo F., Orsi A., Pariani E., Baldanti F., Gismondo M. R., Maggi F., Caruso A., Ceriotti F., Boniotti B., Bagnarelli P., Garofalo S., Scutella M., Pagani E., Collini L., Ghisetti V., Ru G., Chironna M., Parisi A., Rubino S., Serra C., Piras G., Coghe F., Vitale F., Tramuto F., Scalia G., Palermo C. I., Mancuso G., Di Gaudio F., Vullo S., Reale S., Cusi M. G., Rossolini G. M., Pistello M., Mencacci A., Camilloni B., Severini S., Di Benedetto M., Calogero T., Monne I., Biscaro V., COVID Study Groups

المساهمون: Funk, T., Pharris, A., Spiteri, G., Bundle, N., Melidou, A., Carr, M., Gonzalez, G., Garcia-Leon, A., Crispie, F., O'Connor, L., Murphy, N., Mossong, J., Vergison, A., Wienecke-Baldacchino, A. K., Abdelrahman, T., Riccardo, F., Stefanelli, P., Di Martino, A., Bella, A., Lo Presti, A., Casaca, P., Moreno, J., Borges, V., Isidro, J., Ferreira, R., Gomes, J. P., Dotsenko, L., Suija, H., Epstein, J., Sadikova, O., Sepp, H., Ikonen, N., Savolainen-Kopra, C., Blomqvist, S., Mottonen, T., Helve, O., Gomes-Dias, J., Adlhoch, C., Macori, G., Russell, L., Yandle, Z., Bennett, C., O'Byrne, E., Murphy, A., Tuite, G., Conroy, A., Duffy, M., Morley, U., Keoghan, B., Ford, I., Kennedy, M., Mcdonnell, S., Flynn, A., Clarke, A., Crowley, A., Martin, C., Kelly, E., Foxton, J., Hare, D., Dunford, L., Connell, J., Moran, J., Dean, J., Fanning, S., Rajan, L., De Gascun, C., Kenny, J., Cotter, P., Walsh, C., Lawton, E., Fitzpatrick, A., Mullins, E., Della Bartola, M., Mccabe, M., Stapleton, P., Meaney, C., Fanning, L., Prentice, M., Macsharry, J., Dempsey, C., Mallon, P., Leon, A., Chaturvedi, A., Coughlan, S., Mcandrew, G., Reddington, K., Walsh, F., Fitzpatrick, D., Smyth, C., O'Dwyer, T., Chambers, T., Clarke, L., Jebb, D., Klopp, J., Kavanagh, D., Haslam, K., Buckley, P., Lemass, K., Fitzpatrick, F., Burns, K.

مصطلحات موضوعية: COVID-19, Europe, SARS-CoV-2, surveillance, variants of concern

وصف الملف: ELETTRONICO

العلاقة: info:eu-repo/semantics/altIdentifier/pmid/33890566; info:eu-repo/semantics/altIdentifier/wos/WOS:000648516400001; volume:26; issue:16; firstpage:1; lastpage:10; numberofpages:10; journal:EUROSURVEILLANCE; http://hdl.handle.net/11365/1147106Test; info:eu-repo/semantics/altIdentifier/scopus/2-s2.0-85105089603; https://www.eurosurveillance.org/content/10.2807/1560-7917.ES.2021.26.16.2100348Test; https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8063589Test/

الإتاحة: https://doi.org/10.2807/1560-7917.ES.2021.26.16.2100348Test
http://hdl.handle.net/11365/1147106Test
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8063589Test/

View record in BASE

6

دورية أكاديمية

Proficiency Testing of Metagenomics-Based Detection of Food-Borne Pathogens Using a Complex Artificial Sequencing Dataset

المؤلفون: Hoper D., Grutzke J., Brinkmann A., Mossong J., Matamoros S., Ellis R. J., Deneke C., Tausch S. H., Cuesta I., Monzon S., Julia M., Petersen T. N., Hendriksen R. S., Pamp S. J., Leijon M., Hakhverdyan M., Walsh A. M., Cotter P. D., Chandrasekaran L., Tay M. Y. F., Schlundt J., Sala C., De Cesare A., Nitsche A., Beer M., Wylezich C.

المساهمون: Hoper D., Grutzke J., Brinkmann A., Mossong J., Matamoros S., Ellis R.J., Deneke C., Tausch S.H., Cuesta I., Monzon S., Julia M., Petersen T.N., Hendriksen R.S., Pamp S.J., Leijon M., Hakhverdyan M., Walsh A.M., Cotter P.D., Chandrasekaran L., Tay M.Y.F., Schlundt J., Sala C., De Cesare A., Nitsche A., Beer M., Wylezich C.

مصطلحات موضوعية: background contamination, diagnostic assessment, high-throughput sequencing, metagenomic, pathogen, proficiency test, training

الوصف: Metagenomics-based high-throughput sequencing (HTS) enables comprehensive detection of all species comprised in a sample with a single assay and is becoming a standard method for outbreak investigation. However, unlike real-time PCR or serological assays, HTS datasets generated for pathogen detection do not easily provide yes/no answers. Rather, results of the taxonomic read assignment need to be assessed by trained personnel to gain information thereof. Proficiency tests are important instruments of validation, harmonization, and standardization. Within the European Union funded project COMPARE [COllaborative Management Platform for detection and Analyses of (Re-) emerging and foodborne outbreaks in Europe], we conducted a proficiency test to scrutinize the ability to assess diagnostic metagenomics data. An artificial dataset resembling shotgun sequencing of RNA from a sample of contaminated trout was provided to 12 participants with the request to provide a table with per-read taxonomic assignments at species level and a report with a summary and assessment of their findings, considering different categories like pathogen, background, or contaminations. Analysis of the read assignment tables showed that the software used reliably classified the reads taxonomically overall. However, usage of incomplete reference databases or inappropriate data pre-processing caused difficulties. From the combination of the participants’ reports with their read assignments, we conclude that, although most species were detected, a number of important taxa were not or not correctly categorized. This implies that knowledge of and awareness for potentially dangerous species and contaminations need to be improved, hence, capacity building for the interpretation of diagnostic metagenomics datasets is necessary.

وصف الملف: ELETTRONICO

العلاقة: info:eu-repo/semantics/altIdentifier/pmid/33250869; info:eu-repo/semantics/altIdentifier/wos/WOS:000589963000001; volume:11; firstpage:1; lastpage:11; numberofpages:11; journal:FRONTIERS IN MICROBIOLOGY; info:eu-repo/grantAgreement/EC/H2020/643476; http://hdl.handle.net/11585/785383Test; info:eu-repo/semantics/altIdentifier/scopus/2-s2.0-85096197743; https://www.frontiersin.org/articles/10.3389/fmicb.2020.575377/full?utm_source=F-AAE&utm_medium=EMLF&utm_campaign=MRK_1481182_51_Microb_20201112_arts_ATest

الإتاحة: https://doi.org/10.3389/fmicb.2020.575377Test
http://hdl.handle.net/11585/785383Test

View record in BASE

7

دورية أكاديمية

Metagenomics-based proficiency test of smoked salmon spiked with a mock community

المساهمون: Sala C., Mordhorst H., Grutzke J., Brinkmann A., Petersen T.N., Poulsen C., Cotter P.D., Crispie F., Ellis R.J., Castellani G., Amid C., Hakhverdyan M., Le Guyader S., Manfreda G., Mossong J., Nitsche A., Ragimbeau C., Schaeffer J., Schlundt J., Tay M.Y.F., Aarestrup F.M., Hendriksen R.S., Pamp S.J., De Cesare A.

مصطلحات موضوعية: Experimentally spiked sample, Proficiency test, Shotgun metagenomic, Smoked salmon, Wet-lab protocols

الوصف: An inter-laboratory proficiency test was organized to assess the ability of participants to perform shotgun metagenomic sequencing of cold smoked salmon, experimentally spiked with a mock community composed of six bacteria, one parasite, one yeast, one DNA, and two RNA viruses. Each participant applied its in-house wet-lab workflow(s) to obtain the metagenomic dataset(s), which were then collected and analyzed using MG-RAST. A total of 27 datasets were analyzed. Sample pre-processing, DNA extraction protocol, library preparation kit, and sequencing platform, influenced the abundance of specific microorganisms of the mock community. Our results highlight that despite differences in wet-lab protocols, the reads corresponding to the mock community members spiked in the cold smoked salmon, were both detected and quantified in terms of relative abundance, in the metagenomic datasets, proving the suitability of shotgun metagenomic sequencing as a genomic tool to detect microorganisms belonging to different domains in the same food matrix. The implementation of standardized wet-lab protocols would highly facilitate the comparability of shotgun metagenomic sequencing dataset across laboratories and sectors. Moreover, there is a need for clearly defining a sequencing reads threshold, to consider pathogens as detected or undetected in a food sample.

وصف الملف: ELETTRONICO

العلاقة: info:eu-repo/semantics/altIdentifier/pmid/33255715; info:eu-repo/semantics/altIdentifier/wos/WOS:000602538500001; volume:8; issue:12; firstpage:1; lastpage:16; numberofpages:16; journal:MICROORGANISMS; info:eu-repo/grantAgreement/EC/H2020/643476; http://hdl.handle.net/11585/785328Test; info:eu-repo/semantics/altIdentifier/scopus/2-s2.0-85096678578; https://www.mdpi.com/2076-2607/8/12/1861Test

الإتاحة: https://doi.org/10.3390/microorganisms8121861Test
http://hdl.handle.net/11585/785328Test
https://www.mdpi.com/2076-2607/8/12/1861Test

View record in BASE

8

دورية أكاديمية

Global prevalence, treatment, and prevention of hepatitis B virus infection in 2016: a modelling study

المؤلفون: Razavi-Shearer, D, Gamkrelidze, I, Nguyen, MH, Chen, DS, Van Damme, P, Abbas, Z, Abdulla, M, Abou Rached, A, Adda, D, Aho, I, Akarca, U, Al Ali, FH, Al Lawati, F, Al Naamani, K, Alashgar, HI, Alavian, SM, Alawadhi, S, Albillos, A, Al-Busafi, SA, Aleman, S, Alfaleh, FZ, Aljumah, AA, Anand, AC, Anh, NT, Arends, JE, Arkkila, P, Athanasakis, K, Bane, A, Ben-Ari, Z, Berg, T, Bizri, AR, Blach, S, Mello, CEB, Brandon, SM, Bright, B, Bruggmann, P, Brunetto, M, Buti, M, Chan, HLY, Chaudhry, A, Chien, RN, Choi, MS, Christensen, PB, Chuang, WL, Chulanov, V, Clausen, MR, Colombo, M, Cornberg, M, Cowie, B, Craxi, A, Croes, EA, Cuellar, DA, Cunningham, C, Desalegn, H, Drazilova, S, Duberg, AS, Egeonu, SS, El-Sayed, MH, Estes, C, Falconer, K, Ferraz, MLG, Ferreira, PR, Flisiak, R, Frankova, S, Gaeta, GB, Garcia-Samaniego, J, Genov, J, Gerstoft, J, Goldis, A, Gountas, I, Gray, R, Pessoa, MG, Hajarizadeh, B, Hatzakis, A, Hezode, C, Himatt, SM, Hoepelman, A, Hrstic, I, Hui, YTT, Husa, P, Jahis, R, Janjua, NZ, Jarcuska, P, Jaroszewicz, J, Kaymakoglu, S, Kershenobich, D, Kondili, LA, Konysbekova, A, Krajden, M, Kristian, P, Laleman, W, Lao, WCC, Layden, J, Lazarus, JV, Lee, MH, Liakina, V, Lim, YSS, Loo, CKK, Luksic, B, Malekzadeh, R, Malu, AO, Mamatkulov, A, Manns, M, Marinho, RT, Maticic, M, Mauss, S, Memon, MS, Correa, MCM, Mendez-Sanchez, N, Merat, S, Metwally, AM, Mohamed, R, Mokhbat, JE, Moreno, C, Mossong, J, Mourad, FH, Mullhaupt, B, Murphy, K, Musabaev, E, Nawaz, A, Nde, HM, Negro, F, Nersesov, A, Nguyen, VTT, Njouom, R, Ntagirabiri, R, Nurmatov, Z, Obekpa, S, Ocama, P, Oguche, S, Omede, O, Omuemu, C, Opare-Sem, O, Opio, CK, Ormeci, N, Papatheodoridis, G, Pasini, K, Pimenov, N, Poustchi, H, Quang, TD, Qureshi, H, Ramji, A, Razavi-Shearer, K, Redae, B, Reesink, HW, Rios, CY, Rjaskova, G, Robbins, S, Roberts, LR, Roberts, SK, Ryder, SD, Safadi, R, Sagalova, O, Salupere, R, Sanai, FM, Sanchez-Avila, JF, Saraswat, V, Sarrazin, C, Schmelzer, JD, Schreter, I, Scott, J, Seguin-Devaux, C, Shah, SR, Sharara, AI, Sharma, M, Shiha, GE, Shin, T, Sievert, W, Sperl, J, Starkel, P, Stedman, C, Sypsa, V, Tacke, F, Tan, SS, Tanaka, J, Tomasiewicz, K, Urbanek, P, van der Meer, AJ, Van Vlierberghe, H, Vella, S, Vince, A, Waheed, Y, Waked, I, Walsh, N, Weis, N, Wong, VW, Woodring, J, Yaghi, C, Yang, HI, Yang, CL, Yesmembetov, K, Yosry, A, Yuen, MF, Yusuf, MAM, Zeuzem, S, Razavi, H

المصدر: The lancet. Gastroenterology & hepatology. 3(6):383-403

مصطلحات موضوعية: Medicin och hälsovetenskap

الوصول الحر: http://kipublications.ki.se/Default.aspx?queryparsed=id:139788832Test

9

دورية أكاديمية

Social contact patterns and implications for infectious disease transmission - a systematic review and meta-analysis of contact surveys.

المؤلفون: Mousa, A, Winskill, P, Watson, OJ, Ratmann, O, Monod, M, Ajelli, M, Diallo, A, Dodd, PJ, Grijalva, CG, Kiti, MC, Krishnan, A, Kumar, R, Kumar, S, Kwok, KO, Lanata, CF, de Waroux, OLP, Leung, K, Mahikul, W, Melegaro, A, Morrow, CD, Mossong, J, Neal, EF, Nokes, DJ, Pan-Ngum, W, Potter, GE, Russell, FM, Saha, S, Sugimoto, JD, Wei, WI, Wood, RR, Wu, J, Zhang, J, Walker, P, Whittaker, C

الوصف: BACKGROUND: Transmission of respiratory pathogens such as SARS-CoV-2 depends on patterns of contact and mixing across populations. Understanding this is crucial to predict pathogen spread and the effectiveness of control efforts. Most analyses of contact patterns to date have focused on high-income settings. METHODS: Here, we conduct a systematic review and individual-participant meta-analysis of surveys carried out in low- and middle-income countries and compare patterns of contact in these settings to surveys previously carried out in high-income countries. Using individual-level data from 28,503 participants and 413,069 contacts across 27 surveys, we explored how contact characteristics (number, location, duration, and whether physical) vary across income settings. RESULTS: Contact rates declined with age in high- and upper-middle-income settings, but not in low-income settings, where adults aged 65+ made similar numbers of contacts as younger individuals and mixed with all age groups. Across all settings, increasing household size was a key determinant of contact frequency and characteristics, with low-income settings characterised by the largest, most intergenerational households. A higher proportion of contacts were made at home in low-income settings, and work/school contacts were more frequent in high-income strata. We also observed contrasting effects of gender across income strata on the frequency, duration, and type of contacts individuals made. CONCLUSIONS: These differences in contact patterns between settings have material consequences for both spread of respiratory pathogens and the effectiveness of different non-pharmaceutical interventions. FUNDING: This work is primarily being funded by joint Centre funding from the UK Medical Research Council and DFID (MR/R015600/1).

العلاقة: pii: 70294; Mousa, A., Winskill, P., Watson, O. J., Ratmann, O., Monod, M., Ajelli, M., Diallo, A., Dodd, P. J., Grijalva, C. G., Kiti, M. C., Krishnan, A., Kumar, R., Kumar, S., Kwok, K. O., Lanata, C. F., de Waroux, O. L. P., Leung, K., Mahikul, W., Melegaro, A. ,. Whittaker, C. (2021). Social contact patterns and implications for infectious disease transmission - a systematic review and meta-analysis of contact surveys. Elife, 10, pp.e70294-. https://doi.org/10.7554/eLife.70294Test.; http://hdl.handle.net/11343/310036Test

الإتاحة: https://doi.org/10.7554/eLife.70294Test
http://hdl.handle.net/11343/310036Test

View record in BASE

النص الكامل

10

دورية أكاديمية

Characteristics of SARS-CoV-2 variants of concern B.1.1.7, B.1.351 or P.1: data from seven EU/EEA countries, weeks 38/2020 to 10/2021.

الوصف: We compared 19,207 cases of SARS-CoV-2 variant B.1.1.7/S gene target failure (SGTF), 436 B.1.351 and 352 P.1 to non-variant cases reported by seven European countries. COVID-19 cases with these variants had significantly higher adjusted odds ratios for hospitalisation (B.1.1.7/SGTF: 1.7, 95% confidence interval (CI): 1.0-2.9; B.1.351: 3.6, 95% CI: 2.1-6.2; P.1: 2.6, 95% CI: 1.4-4.8) and B.1.1.7/SGTF and P.1 cases also for intensive care admission (B.1.1.7/SGTF: 2.3, 95% CI: 1.4-3.5; P.1: 2.2, 95% CI: 1.7-2.8).

العلاقة: Funk, T., Pharris, A., Spiteri, G., Bundle, N., Melidou, A., Carr, M., Gonzalez, G., Garcia-Leon, A., Crispie, F., O'Connor, L., Murphy, N., Mossong, J., Vergison, A., Wienecke-Baldacchino, A. K., Abdelrahman, T., Riccardo, F., Stefanelli, P., Di Martino, A., Bella, A. ,. COVID study groups, (2021). Characteristics of SARS-CoV-2 variants of concern B.1.1.7, B.1.351 or P.1: data from seven EU/EEA countries, weeks 38/2020 to 10/2021. Euro Surveill, 26 (16), https://doi.org/10.2807/1560-7917.ES.2021.26.16.2100348Test.; http://hdl.handle.net/11343/308765Test

الإتاحة: https://doi.org/10.2807/1560-7917.ES.2021.26.16.2100348Test
http://hdl.handle.net/11343/308765Test

View record in BASE

النص الكامل

تنقيح النتائج