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8. Correction to: A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases

Author

Gawel, Danuta R., Serra-Musach, Jordi, Lilja, Sandra, Aagesen, Jesper, Arenas, Alex, Asking, Bengt, Bengnér, Malin, Björkander, Janne, Biggs, Sophie, Ernerudh, Jan, Hjortswang, Henrik, Karlsson, Jan-Erik, Köpsen, Mattias, Lee, Eun Jung, Lentini, Antonio, Li, Xinxiu, Magnusson, Mattias, Martínez-Enguita, David, Matussek, Andreas, Nestor, Colm E., Schäfer, Samuel, Seifert, Oliver, Sonmez, Ceylan, Stjernman, Henrik, Tjärnberg, Andreas, Wu, Simon, Åkesson, Karin, Shalek, Alex K., Stenmarker, Margaretha, Zhang, Huan, Gustafsson, Mika, and Benson, Mikael

Published
2020
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12. A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases

Author

Gawel, Danuta R., Serra-Musach, Jordi, Lilja, Sandra, Aagesen, Jesper, Arenas, Alex, Asking, Bengt, Bengnér, Malin, Björkander, Janne, Biggs, Sophie, Ernerudh, Jan, Hjortswang, Henrik, Karlsson, Jan-Erik, Köpsen, Mattias, Lee, Eun Jung, Lentini, Antonio, Li, Xinxiu, Magnusson, Mattias, Martínez-Enguita, David, Matussek, Andreas, Nestor, Colm E., Schäfer, Samuel, Seifert, Oliver, Sonmez, Ceylan, Stjernman, Henrik, Tjärnberg, Andreas, Wu, Simon, Åkesson, Karin, Shalek, Alex K., Stenmarker, Margaretha, Zhang, Huan, Gustafsson, Mika, and Benson, Mikael

Published
2019
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23. A point-prevalence study on community and inpatient Clostridioides difficile infections (CDI): results from Combatting Bacterial Resistance in Europe CDI (COMBACTE-CDI), July to November 2018

Author

Viprey, Virginie F., Davis, Georgina L., Benson, Anthony D., Ewin, Duncan, Spittal, William, Vernon, Jon J., Rupnik, Maja, Banz, Alice, Allantaz, Florence, Cleuziat, Philippe, Novakova, Elena, Matussek, Andreas Albert, Fitzpatrick, Fidelma, Simon, Anne, Macovei, Ioana, Barbut, Frederic, Ramirez, Elena Reigadas, Petinaki, Efi, Kuijper, Ed J., Petrosillo, Nicola, Pituch, Hanna, Wilcox, Mark H., and Davies, Kerrie A.

Subjects
Epidemiology, Virology, Public Health, Environmental and Occupational Health
Abstract

Background There is a paucity of data on community-based Clostridioides difficile infection (CDI) and how these compare with inpatient CDI. Aim To compare data on the populations with CDI in hospitals vs the community across 12 European countries. Methods For this point-prevalence study (July–November 2018), testing sites sent residual diagnostic material on sampling days to a coordinating laboratory for CDI testing and PCR ribotyping (n = 3,163). Information on whether CDI testing was requested at the original site was used to identify undiagnosed CDI. We used medical records to identify differences between healthcare settings in patient demographics and risk factors for detection of C. difficile with or without free toxin. Results The CDI positivity rate was 4.4% (country range: 0–16.2) in hospital samples, and 1.3% (country range: 0–2.2%) in community samples. The highest prevalence of toxinotype IIIb (027, 181 and 176) was seen in eastern European countries (56%; 43/77), the region with the lowest testing rate (58%; 164/281). Different predisposing risk factors were observed (use of broad-spectrum penicillins in the community (OR: 8.09 (1.9–35.6), p = 0.01); fluoroquinolones/cephalosporins in hospitals (OR: 2.2 (1.2–4.3), p = 0.01; OR: 2.0 (1.1–3.7), p = 0.02)). Half of community CDI cases were undetected because of absence of clinical suspicion, accounting for three times more undiagnosed adults in the community compared with hospitals (ca 111,000 vs 37,000 cases/year in Europe). Conclusion These findings support recommendations for improving diagnosis in patients presenting with diarrhoea in the community, to guide good practice to limit the spread of CDI.

Published
2022

36. Whole-genome characterization of hemolytic uremic syndrome-causing Shiga toxin-producing Escherichia coli in Sweden

Author

Hua, Ying, Chromek, Milan, Frykman, Anne, Jernberg, Cecilia, Georgieva, Valya, Hansson, Sverker, Zhang, Ji, Marits, Ann Katrine, Wan, Chengsong, Matussek, Andreas, and Bai, Xiangning

Subjects
Sweden, Shiga-Toxigenic Escherichia coli, virulence genes, Shiga toxin-producing Escherichia coli, hemolytic uremic syndrome, clinical outcomes, O157, H7, whole-genome sequencing, Genomics, Infectious and parasitic diseases, RC109-216, shiga toxin-producing escherichia coli, Serogroup, urologic and male genital diseases, female genital diseases and pregnancy complications, Microbiology in the medical area, fluids and secretions, o157:h7, hemic and lymphatic diseases, Hemolytic-Uremic Syndrome, Mikrobiologi inom det medicinska området, Humans, Escherichia coli Infections, Research Article, Research Paper
Abstract

Shiga toxin-producing Escherichia coli, a foodborne bacterial pathogen, has been linked to a broad spectrum of clinical outcomes ranging from asymptomatic carriage to fatal hemolytic uremic syndrome (HUS). Here, we collected clinical data and STEC strains from HUS patients from 1994 through 2018, whole-genome sequencing was performed to molecularly characterize HUS-associated STEC strains, statistical analysis was conducted to identify bacterial genetic factors associated with severe outcomes in HUS patients. O157:H7 was the most predominant serotype (57%) among 54 HUS-associated STEC strains, followed by O121:H19 (19%) and O26:H11 (7%). Notably, some non-predominant serotypes such as O59:H17 (2%) and O109:H21 (2%) also caused HUS. All O157:H7 strains with one exception belonged to clade 8. During follow-up at a median of 4 years, 41% of the patients had renal sequelae. Fifty-nine virulence genes were found to be statistically associated with severe renal sequelae, these genes encoded type II and type III secretion system effectors, chaperones, and other factors. Notably, virulence genes associated with severe clinical outcomes were significantly more prevalent in O157:H7 strains. In contrast, genes related to mild symptoms were evenly distributed across all serotypes. The whole-genome phylogeny indicated high genomic diversity among HUS-STEC strains. No distinct cluster was found between HUS and non-HUS STEC strains. The current study showed that O157:H7 remains the main cause of STEC-associated HUS, despite the rising importance of other non-O157 serotypes. Besides, O157:H7 is associated with severe renal sequelae in the follow-up, which could be a risk factor for long-term prognosis in HUS patients. Funding Agencies|Scandinavian Society for Antimicrobial Chemotherapy Foundation [SLS884041]; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [81701977]; Natural Science Foundations of Guangdong ProvinceNational Natural Science Foundation of Guangdong Province [2019A1515111004, 2021A1515011240]

Published
2021

39. Norovirus gastroenteritis outbreak with a secretor-independent susceptibility pattern, Sweden

Author

Nordgren, Johan, Kindberg, Elin, Lindgren, Per-Eric, Matussek, Andreas, and Svensson, Lennart

Subjects
Gastroenteritis -- Development and progression -- Genetic aspects, Antigens -- Genetic aspects, Disease susceptibility -- Development and progression -- Genetic aspects, Health
Abstract

Norovirus (NoV) is the leading cause of nonbacterial, acute gastroenteritis among adults and is responsible for numerous outbreaks worldwide (1-4). The virus is frequently associated with contaminated food, causing ≥ [...]

Published
2010
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44. Correction: A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases (vol 11, 47, 2019)

Author

Gawel, Danuta, Serra I Musach, Jordi, Lilja, Sandra, Aagesen, Jesper, Arenas, Alex, Asking, Bengt, Bengner, Malin, Bjorkander, Janne, Biggs, Sophie, Ernerudh, Jan, Hjortswang, Henrik, Karlsson, Jan-Erik, Köpsen, Mattias, Jung Lee, Eun Jung, Lentini, Antonio, Li, Xinxiu, Magnusson, Mattias, Martinez, David, Matussek, Andreas, Nestor, Colm, Schäfer, Samuel, Seifert, Oliver, Sonmez, Ceylan, Stjernman, Henrik, Tjärnberg, Andreas, Wu, Simon, Åkesson, Karin, Shalek, Alex K., Stenmarker, Margaretha, Zhang, Huan, Gustafsson, Mika, and Benson, Mikael

Subjects
Biologiska vetenskaper, Biological Sciences
Abstract

An amendment to this paper has been published and can be accessed via the original article. Funding Agencies|Nordforsk; Swedish Cancer Foundation [17 0542, 15 0532]; European CommissionEuropean Commission Joint Research Centre [305033]; Swedish Research CouncilSwedish Research Council [2015-02575, 2015-03495, 2015-03807]; Clinical Cancer Research, Jonkoping, Sweden; Torsten Soderberg Foundation; East Gothia Regional Fund

Published
2020

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