TY - JOUR A1 - Kelm, Matthias A1 - Anger, Friedrich T1 - Mucosa and microbiota – the role of intrinsic parameters on intestinal wound healing JF - Frontiers in Surgery N2 - Mucosal healing in the gut is an essential process when it comes to chronic inflammatory disorders such as inflammatory bowel diseases (IBD) but also to the creation of intestinal anastomosis. Despite an improvement of surgical techniques, the rates of anastomotic leakage remain substantial and represent a significant health-care and socio-economic burden. Recent research has focused on intrinsic factors such as mucosal linings and differences in the intestinal microbiota and identified specific endoluminal bacteria and epithelial proteins which influence intestinal wound healing and re-establishment of mucosal homeostasis. Despite the lack of large clinical studies, previous data indicate that the identified bacteria such as aerotolerant lactobacilli or wound-associated Akkermansia muciniphila as well as epithelial-expressed sialyl Lewis glycans or CD47 might be critical for wound and anastomotic healing in the gut, thus, providing a potential novel approach for future treatment strategies in colorectal surgery and IBD therapy. Since microbiota and mucosa are interacting closely, we outline the current discoveries about both subsets in this review together to demonstrate the significant interplay KW - epithelial cells KW - mucosal healing (MH) KW - microbiota KW - inflammatory bowel disease KW - anastomotic leakage Y1 - 2022 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-282096 SN - 2296-875X VL - 9 ER - TY - THES A1 - Eckstein, Marie-Therese T1 - Exploring the biology of the fungus Candida albicans in the gut of gnotobiotic mice T1 - Untersuchung der Biologie des Hefepilzes Candida albicans im Verdauungstrakt gnotobiotischer Mäuse N2 - The human body is colonized by trillions of microbes from all three domains of life – eukaryotes, bacteria and archaea. The lower gastrointestinal tract is the most densely colonized part of the body, harbouring a diverse and dynamic community of microbes. While the importance of bacteria in this so-called microbiota is well acknowledged, the role of commensal fungi remains underexplored. The most prominent fungus of the human gastrointestinal microbiota is Candida albicans. This fungus occasionally causes life-threatening disseminated infections in individuals with debilitated immune defences. It is this “pathogenic” facet that has received the most attention from researchers in the past, leaving many aspects of its “commensal” lifestyle understudied. Using gnotobiotic mice as a model system to explore the biology of C. albicans in the mammalian gut, in this dissertation I establish the global response of the host to C. albicans monocolonization as well as the spatial distribution of the fungus in the intestine in the context of co-colonization with single gut bacterial species. The fungus elicited transcriptome changes in murine intestinal tissue, which included the activation of a reactive oxygen species-related defence mechanism and the induction of regulators of the circadian clock circuitry. Both responses have previously been described in the context of a complete bacterial microbiota. Imaging the intestine of animals monocolonized with the fungus or co-colonized with C. albicans and the gut bacteria Bacteroides thetaiotaomicron or Lactobacillus reuteri revealed that the fungus was embedded in a B. thetaiotaomicron-promoted outer mucus layer in the murine colon. The gel-like outer mucus constitutes a unique microhabitat, distinct in microbial composition from the adjacent intestinal lumen. This finding indicates that bacteria can shape the specific microhabitat occupied by the fungus in the intestine. Overall, the results described in this dissertation suggest that gnotobiotic mice constitute a valuable tool to dissect multiple aspects of the interactions among host, commensal fungi and cohabiting bacteria. N2 - Der menschliche Körper beheimatet Billionen von Mikroorganismen aus allen drei Domänen des Lebens – Eukaryoten, Bakterien und Archaeen. Der menschliche Dickdarm ist dabei das am dichtesten besiedelte Organ des Körpers. Er beherbergt eine sehr diverse und dynamische Gemeinschaft von Mikroorganismen. Während die Relevanz der so genannten Mikrobiota weitreichend anerkannt ist, wurde die Bedeutung der kommensalen Pilze bisher noch vernachlässigt. Der am häufigsten vorkommende Pilz im menschlichen Gastrointestinaltrakt ist Candida albicans. Der Hefepilz kann vor allem in Patienten mit geschwächtem Immunsystem zum Ursprung lebensbedrohlicher Krankheiten werden. Diese Pathogenität des Pilzes wurde in den letzten Jahren ausführlich beleuchtet, wohingegen die kommensalen Aspekte des Pilzes vernachlässigt wurden. In dieser Dissertation habe ich, mit Hilfe von gnotobiotischen Mausmodellen, (i) das Leben von C. albicans im Säugetierdarm untersucht, (ii) die Reaktion des Wirts auf diese Kolonisierung ermittelt, (iii) sowie das Kolonisierungsverhalten und die Interaktionen von verschiedenen Darmbakterienspezies und C. albicans erforscht. Durch die alleinige Kolonisierung des Darms mit Candida albicans konnte ich Veränderungen im Transkriptom der Darmepithelzellen nachweisen, wie etwa die Aktivierung einer reaktiven Sauerstoffspezies-vermittelten Wirtsantwort und die Induktion von mehreren Regulatoren des zirkadianen Rhythmus. Beide dieser Wirtsreaktionen wurden zuvor nur in der Anwesenheit einer bakteriellen Mikrobiota nachgewiesen. Durch die Visualisierung der Pilzzellen im Darm während der Monokolonisierung, sowie während der Kolonisierung des Darms mit dem Pilz und den Darmbakterien, Bacteroides thetaiotaomicron oder Lactobacillus reuteri, konnten wir zeigen, dass der Pilz den von B. thetaiotaomicron neu geschaffenen Lebensraum, die äußere Mukusschicht, besiedeln kann. Diese äußere gelartige Mukusschicht ist ein einzigartiger Lebensraum, welcher sich stark von der inneren, sterilen Mukusschicht unterscheidet. Diese Erkenntnisse deuten darauf hin, dass einzelne Bakterienspezies den Lebensraum des Pilzes verändern können. Zusammenfassend konnte ich feststellen, dass die gnotobiotischen Mausmodelle sich sehr gut eignen, um die unterschiedlichen Aspekte der kommensalen Kolonisierung des Darms durch C. albicans, sowie dessen Interaktionen mit dem Wirt und den anwesenden Bakterien zu untersuchen. KW - Candida albicans KW - microbiota KW - Bacteroides thetaiotaomicron KW - spatial organization KW - Lactobacillus reuteri KW - intestinal mucus KW - gastronintestinal microbiota Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-218705 ER - TY - THES A1 - Aichholzer, Mareike T1 - Veränderungen im intestinalen Mikrobiom bei Patienten mit akuter Leukämie im longitudinalen Verlauf T1 - Comprehensive monitoring of gut microbiota during therapy for acute leukemia N2 - In der vorliegenden Studie wurden Veränderungen des Darmmikrobioms anhand von Stuhlproben von Patienten mit akuter Leukämie longitudinal untersucht. Die Patienten wurden mit intensiver Chemotherapie behandelt. Die Therapie als auch die Erkrankung selbst führte zu einer erheblichen Immunsuppression der Patienten. Prophylaktisch und therapeutisch wurden intensive Antibiotikatherapien bei allen Patienten durchgeführt. Das Mikrobiom wurde quantitativ und qualitativ analysiert. Die Bakterienmenge der Stuhlproben wurde mittels quantitativer Polymerase-Kettenreaktion und die Diversität des Mikrobioms mittels 16s rDNA Sequenzierung aufgezeigt. Zusätzlich dazu fand eine mikrobiologische Kultivierung von Bakterien in Rektalabstrichen statt, um multiresistente Keime nachzuweisen. Ebenso wurde der klinische Verlauf der Patienten dokumentiert. Insgesamt wurde das Mikrobiom von drei verschiedenen Studiengruppen untersucht: Patienten mit akuter Leukämie, Patienten, die mit multiresistenten Keimen besiedelt waren und sich in der Nachsorge der Würzburger interdisziplinären onkologischen Tagesklinik befanden sowie gesunde Probanden. Im Mikrobiom der Patienten mit akuter Leukämie war eine deutlich geringere Diversität sowie eine deutlich geringere Bakterienmenge im Vergleich zu beiden anderen Studiengruppen festzustellen. Das Mikrobiom änderte sich während des Therapieverlaufs erheblich und am Beispiel von einigen Patienten konnte gezeigt werden, dass einzelne Bakterien das Mikrobiom dominierten. Des Weiteren waren im Mikrobiom der Patienten mit akuter Leukämie mehr potenziell pathogene sowie weniger potenziell protektive Bakterien im Vergleich zur Kontrollgruppe vorhanden. Zusammenfassend lässt sich sagen, dass sich das Mikrobiom der Patienten mit akuter Leukämie deutlich von dem der anderen Studiengruppen unterscheidet. Um die Daten zu validieren und einen eventuellen Einfluss des Mikrobioms auf das Überleben der Patienten zu identifizieren, sollten die Untersuchungen an einer deutlich größeren Studienpopulation wiederholt werden. N2 - In the present study changes in the intestinal microbiome were examined longitudinally using stool samples from patients with acute leukemia. The patients were treated with intensive chemotherapy. The therapy as well as the disease itself led to a considerable immunosuppression of the patients. Prophylactic and therapeutic intensive antibiotic therapies were performed in all patients. The microbiome was analyzed quantitatively and qualitatively. The amount of bacteria in the stool samples was determined by a quantitative polymerase chain reaction and the diversity of the microbiome by 16s rDNA sequencing. In addition, a microbiological cultivation of bacteria in analswabs was performed to detect multiresistant bacteria. The clinical course of the patients was also documented. In total the microbiome was examined by three different study groups: patients with acute leukaemia, patients colonised with multi-resistant germs and undergoing follow-up treatment at the Würzburg interdisciplinary oncological day clinic, and healthy volunteers. In the microbiome of the patients with acute leukaemia, a significantly lower diversity as well as a significantly lower amount of bacteria was found in comparison to the two other study groups. The microbiome changed considerably during the course of therapy and it could be shown in the cases of some patients that individual bacteria dominated the microbiome. In addition, the microbiome of patients with acute leukaemia contained more potentially pathogenic and less potentially protective bacteria compared to the control group. In summary, the microbiome of patients with acute leukaemia differed significantly from that of the other study groups. In order to validate the data and identify a possible influence of the microbiome on the survival rates of the patients, the investigations should be repeated in a significantly larger study population. KW - Akute Leukämie KW - Mikrobiom KW - acute leukemia KW - microbiota Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-199213 ER - TY - JOUR A1 - Hickl, Oskar A1 - Heintz-Buschart, Anna A1 - Trautwein-Schult, Anke A1 - Hercog, Rajna A1 - Bork, Peer A1 - Wilmes, Paul A1 - Becher, Dörte T1 - Sample preservation and storage significantly impact taxonomic and functional profiles in metaproteomics studies of the human gut microbiome JF - Microorganisms N2 - With the technological advances of the last decade, it is now feasible to analyze microbiome samples, such as human stool specimens, using multi-omic techniques. Given the inherent sample complexity, there exists a need for sample methods which preserve as much information as possible about the biological system at the time of sampling. Here, we analyzed human stool samples preserved and stored using different methods, applying metagenomics as well as metaproteomics. Our results demonstrate that sample preservation and storage have a significant effect on the taxonomic composition of identified proteins. The overall identification rates, as well as the proportion of proteins from Actinobacteria were much higher when samples were flash frozen. Preservation in RNAlater overall led to fewer protein identifications and a considerable increase in the share of Bacteroidetes, as well as Proteobacteria. Additionally, a decrease in the share of metabolism-related proteins and an increase of the relative amount of proteins involved in the processing of genetic information was observed for RNAlater-stored samples. This suggests that great care should be taken in choosing methods for the preservation and storage of microbiome samples, as well as in comparing the results of analyses using different sampling and storage methods. Flash freezing and subsequent storage at −80 °C should be chosen wherever possible. KW - proteomics KW - metaproteomics KW - metagenomics KW - microbiome KW - microbiota KW - flash freezing KW - RNAlater KW - sample storage Y1 - 2019 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-195976 SN - 2076-2607 VL - 7 IS - 9 ER - TY - INPR A1 - Bartfeld, Sina T1 - Modeling infectious diseases and host-microbe interactions in gastrointestinal organoids T2 - Developmental Biology N2 - Advances in stem cell research have allowed the development of 3-dimensional (3D) primary cell cultures termed organoid cultures, as they closely mimic the in vivo organization of different cell lineages. Bridging the gap between 2-dimensional (2D) monotypic cancer cell lines and whole organisms, organoids are now widely applied to model development and disease. Organoids hold immense promise for addressing novel questions in host-microbe interactions, infectious diseases and the resulting inflammatory conditions. Researchers have started to use organoids for modeling infection with pathogens, such as Helicobacter pylori or Salmonella enteritica, gut- microbiota interactions and inflammatory bowel disease. Future studies will broaden the spectrum of microbes used and continue to establish organoids as a standard model for human host-microbial interactions. Moreover, they will increasingly exploit the unique advantages of organoids, for example to address patient-specific responses to microbes. KW - gastrointestinal disease KW - salmonella KW - microbiota KW - inflammatory bowel disease KW - organoid culture KW - helicobacter KW - rotavirus KW - norovirus Y1 - 2016 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-138788 UR - http://www.sciencedirect.com/science/article/pii/S0012160616304602 SN - 0012-1606 N1 - This is the accepted version of the following article: Bartfeld, Sina, Modeling infectious diseases and host-microbe interactions in gastrointestinal organoids, Developmental Biology, 2016, 420, 2, 262-270. http://dx.doi.org/10.1016/j.ydbio.2016.09.014 ER - TY - JOUR A1 - Schlagenhauf, Ulrich A1 - Jakob, Lena A1 - Eigenthaler, Martin A1 - Segerer, Sabine A1 - Jockel-Schneider, Yvonne A1 - Rehn, Monika T1 - Regular consumption of Lactobacillus reuteri-containing lozenges reduces pregnancy gingivitis: an RCT JF - Journal of Clinical Periodontology N2 - Aim: This randomized controlled trial assessed the impact of Lactobacillus reuteri on pregnancy gingivitis in healthy women. Materials and Methods: Forty-five healthy women (24 test/21 placebo) with pregnancy gingivitis in the third trimester of pregnancy were enrolled. At baseline Gingival Index (GI) and Plaque Index (PlI) were assessed at the Ramfjord teeth and venous blood taken for TNF-alpha analysis. Subsequently participants were randomly provided with lozenges to be consumed 2 9 daily until birth (approx. 7 weeks) containing >= 10(8) CFU L. reuteri ATCC PTA 5289 and >= 10(8) CFU L. reuteri DSM 17938 (test) or being devoid of L. reuteri (placebo). Within 2 days after birth recording of GI, PlI and blood sampling were repeated. Results: At baseline, mean GI and mean PlI did not differ significantly between both groups. In the test group mean TNF-alpha serum level was significantly (p < 0.02) lower than in the placebo group. At reevaluation, mean GI and mean PlI of the test group were both significantly (p < 0.0001) lower than in the placebo group. Mean TNF-alpha serum level did no longer differ significantly between the groups. Conclusions: The consumption of L. reuteri lozenges may be a useful adjunct in the control of pregnancy gingivitis. KW - chronic periodontitis KW - probiotic lozenges KW - subgingival KW - bacteria KW - postpartum KW - microbiota KW - disease KW - L. reuteri KW - plaque KW - pregnancy KW - pregnancy gingivitis Y1 - 2016 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-186783 VL - 43 IS - 11 ER -