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Impact of Helicobacter Pylori Eradication Therapy on Gastric Microbiome

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Impact of Helicobacter Pylori Eradication Therapy on Gastric Microbiome Liqi Mao The First Aliated Hospital of Zhejiang Chinese Medical University https://orcid.org/0000-0002-5972- 4746 Yanlin Zhou The First Aliated Hospital of Zhejiang Chinese Medical University Shuangshuang Wang The First Aliated Hospital of Zhejiang Chinese Medical University Lin Chen The First Aliated Hospital of Zhejiang Chinese Medical University Yue Hu The First Aliated Hospital of Zhejiang Chinese Medical University Leimin Yu The First Aliated Hospital of Zhejiang Chinese Medical University Jingming Xu The First Aliated Hospital of Zhejiang Chinese Medical University Bin Lyu ( [email protected] ) First Aliated Hospital of Zhejiang Chinese Medical University https://orcid.org/0000-0002-6247-571X Research Keywords: 16S rRNA gene sequencing, Helicobacter pylori, Eradication therapy, Gastric microora, Atrophic gastritis Posted Date: April 29th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-455395/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License 1 Impact of Helicobacter pylori eradication therapy on gastric microbiome 2 Liqi Mao 1,#, Yanlin Zhou 1,#, Shuangshuang Wang1,2, Lin Chen1, Yue Hu 1, Leimin Yu1,3, 3 Jingming Xu1, Bin Lyu1,* 4 1Department of Gastroenterology, The First Affiliated Hospital of Zhejiang Chinese Medical 5 University, Hangzhou, China 6 2Department of Gastroenterology, Taizhou Hospital of Zhejiang Province affiliated to 7 Wenzhou Medical University, Taizhou, China 8 3Department of Gastroenterology, Guangxing Hospital Affiliated to Zhejiang Chinese 9 Medical University, Hangzhou, China 10 #Liqi Mao and Yanlin Zhou contributed equally. 11 *Bin Lyu is the corresponding author, Email: [email protected]. 12 13 Abstract 14 Background: Helicobacter pylori (Hp) eradication therapy has been used in clinical 15 practice for many years. Yet, the effect of this therapy on existing gastric microflora has not 16 been well understood. In this study, we explored the effect of eradication therapy on the 17 microbial community in the stomach and the specific recovery after the successful 18 eradication therapy. 19 Methods: Among the 89 included patients, 23, 17, 40, and 9 were enrolled into the Hp- 20 negative, Hp-positive, Successful eradication, and Failed eradication groups, respectively. 21 Four subgroups were further divided according to disease status (Hp-negative chronic 22 gastritis [N-CG], Hp-negative atrophic gastritis [N-AG], successful-eradication chronic 23 gastritis [SE-CG], and atrophic gastritis with successful eradication [SE-AG]). During the 1 24 endoscopic examination, one piece of gastric mucosa tissue was obtained from the lesser 25 curvature side of the gastric antrum and gastric corpus, respectively. 16S rRNA gene 26 sequencing was used to analyze the gastric mucosal microbiome. 27 Results: In Hp negative group, the gastric microbiota was dominated by five phyla: 28 Firmicutes, Proteobacteria, Actinobacteria, Bacteroidetes, and Fusobacteria. Two Hp- 29 related genera were selected as potential biomarkers: Curvibacter and Acinetobacter. After 30 successfully eradicating Hp, the bacterial flora in the stomach recovered to a considerable 31 extent, and the failure of eradication was almost unchanged compared with Hp positive 32 subjects. SE-CG was characterized by an increase in Firmicutes taxa and a decrease in 33 Proteobacteria taxa compared with N-CG. SE-AG was characterized by a decrease in 34 Firmicutes relative to N-AG. Finally, no differences were found in pairwise comparisons of 35 nitrate and nitrite reductase functions among the four subgroups. 36 Conclusions: After Hp infection, the diversity and relative abundance of gastric microflora 37 were significantly decreased. Yet, gastric microbiota could be partially restored to the Hp- 38 negative status after eradication; however, this effect was incomplete and might contribute 39 to the long-term risks. 40 41 Key Words: 16S rRNA gene sequencing; Helicobacter pylori; Eradication therapy; Gastric 42 microflora; Atrophic gastritis 43 44 45 46 47 2 48 1. Introduction 49 The gastrointestinal microecological balance has an important role in digestion, absorption, 50 metabolism, immunity, and inhibition of pathogen colonization. The disorder of its structure 51 or function can lead to many diseases. Helicobacter pylori (Hp) is the most important and 52 most studied microorganism in the stomach. It has been associated with various 53 gastrointestinal diseases, such as chronic gastritis, peptic ulcer, gastric mucosa-associated 54 lymphoid tissue lymphoma, and gastric cancer. Numerous clinical studies have shown that 55 Hp eradication reduces the incidence of gastric cancer, and this benefit becomes more 56 pronounced with increasing age [1-3]. Currently, eradication therapy has been used in many 57 regions to prevent the development of stomach cancer [4, 5]. 58 The core of Hp eradication treatment is the acid-suppressive effect of PPIs and the 59 bactericidal effect of antibiotics. Antibiotics have a direct and strong effect on the bacteria 60 in the stomach [6]. The strong acid inhibitory effect of PPIs can sharply increase the 61 stomach's pH value, thereby reducing gastric acid's effect on the removal of guest bacteria, 62 which is not conducive to digestion and leads to various changes in substrate levels [7, 8]. 63 Combined with existing research, the drug itself and Hp's elimination have a potential effect 64 on the gastric flora [9, 10]. 65 Through molecular methods, the main phyla detected in the stomach are Proteobacteria, 66 Firmicutes, Bacteroidetes, Actinobacteria, and Fusobacteria. The most abundant phyla after 67 Hp infection in the stomach are Proteobacteria, Firmicutes, and Actinobacteria [11]. The 68 gastric cancer model study of INS-GAS mice showed that the non-Hp flora could promote 69 the occurrence of tumors [12, 13]. Other evidence in clinical research revealed that microbial 70 diversity changes with the health of the gastric mucosal epithelium [14, 15]. Researches on 71 the gastric cancer flora found that Niche-specific microbial networks may reflect the 72 disease-specific microenvironment, and disease-associated bacteria can form a cooperative 73 network, which additionally contributes to the disease [16, 17]. In addition, previous 74 research has mainly focused on the gastric microbiome of patients with gastric cancers rather 75 than precancerous lesions such as gastritis atrophy (AG). In this study, we analyzed the 3 76 influence of eradication treatment on gastric flora and evaluated patients' recovery with 77 successful eradication under different mucosal states. 78 79 2. Methods 80 2.1 Patients and Samples 81 A total of 151 gastric biopsy tissues of different anatomical sites were obtained from 89 82 patients from The First Affiliated Hospital of Zhejiang Chinese Medical University, 83 Hangzhou, China. Patients undergoing upper gastrointestinal endoscopy for physical 84 examination or dyspepsia were included in this study. During the endoscopic examination, 85 one piece of gastric mucosa tissue was obtained from the antrum's lesser curvature side and 86 another piece from the lesser curvature side of the corpus. Each specimen was placed in a 87 separate sterile cryopreservation tube. Another mucosal tissue of the gastric antrum was used 88 for histological biopsy to assess gastric mucosa and Hp infection status. 89 Exclusion criteria were as follows: (1) patients who have taken proton pump inhibitors, 90 H2 receptor antagonists or other antacids, probiotics, mucosal protective agents or 91 antibiotics within recent four weeks; (2) history of gastric adenoma, gastric cancer, or 92 mucosa-associated lymphoid tissue lymphoma; (3) patients who underwent gastrectomy; (4) 93 patients who underwent Hp eradication therapy and were again Hp positive. 94 Current Hp infection was defined as a positive result from one of the following three 95 tests: (1) C-urea breath test, (2) histologic examination, (3) Hp culture. Furthermore, 96 according to some previous studies, those samples with < 1% of Hp relative abundance were 97 excluded from the analysis to obtain higher representativeness [16, 18]. For patients with a 98 history of eradication, we selected those with a completion time of one year. We combined 99 past and current Hp infection status to confirm eradication situation. Only those whose 100 gastric mucosa status was judged by endoscopy, which was further confirmed by 101 pathological biopsy results, were classified into subgroups. 4 102 After confirming Hp infection status and Hp-eradication status, patients who met one of 103 the following criteria were enrolled and analyzed: (a) group N (Hp-negative), (b) group P 104 (Hp-positive), (c) group SE (Hp-successful eradication), (d) group FE (Hp-failed 105 eradication). Then based on disease status, group N and group SE were divided into four 106 subgroups: Hp-negative chronic gastritis [N-CG], Hp-negative gastritis atrophy [N-AG], 107 successful-eradication chronic gastritis [SE-CG], and successful-eradication gastritis 108 atrophy [SE-AG]). 109 The demographic details corresponding to all samples enrolled in the final analysis are 110 compiled in Table 1. 111 112 Table 1. Summary of the study subjects' characteristics. 113 114 Characteristics Age Sex 115 years mean±SD Female/Male All patients 52.73±14.05 45/44 116 (n=89) Negative (n=23) 53.48±13.44 13/10 N-CG (n=14) 46.57±11.76 8/6 117 N-AG (n=6) 64.67±8.80 2/4 Positive (n=17) 41.24±12.62 9/8 118 Successful (n=40) 58.23±10.94 19/21 SE-CG (n=8) 49.25±9.91 7/1 119 SE-AG (n=29) 62.07±8.54 9/20 Failed (n=9) 48.11±17.77 4/5 120 121 2.2 Analysis and Testing Process 122 2.2.1 Extraction of Bacterial DNA 123 DNA from different samples was extracted using the E.Z.N.A.® Stool DNA Kit (D4015, 124 Omega, Inc., USA) according to manufacturer ’s instructions. Polymerase chain reaction 125 (PCR) was used to amplify the 16S rRNA V3-V4 region, using the 341F 5'- 126 CCTACGGGNGGCWGCAG-3' and 805R 5'-GACTACHVGGGTATCTAATCC-3' primers.
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  • The Porcine Nasal Microbiota with Particular Attention to Livestock-Associated Methicillin-Resistant Staphylococcus Aureus in Germany—A Culturomic Approach

    The Porcine Nasal Microbiota with Particular Attention to Livestock-Associated Methicillin-Resistant Staphylococcus Aureus in Germany—A Culturomic Approach

    microorganisms Article The Porcine Nasal Microbiota with Particular Attention to Livestock-Associated Methicillin-Resistant Staphylococcus aureus in Germany—A Culturomic Approach Andreas Schlattmann 1, Knut von Lützau 1, Ursula Kaspar 1,2 and Karsten Becker 1,3,* 1 Institute of Medical Microbiology, University Hospital Münster, 48149 Münster, Germany; [email protected] (A.S.); [email protected] (K.v.L.); [email protected] (U.K.) 2 Landeszentrum Gesundheit Nordrhein-Westfalen, Fachgruppe Infektiologie und Hygiene, 44801 Bochum, Germany 3 Friedrich Loeffler-Institute of Medical Microbiology, University Medicine Greifswald, 17475 Greifswald, Germany * Correspondence: [email protected]; Tel.: +49-3834-86-5560 Received: 17 March 2020; Accepted: 2 April 2020; Published: 4 April 2020 Abstract: Livestock-associated methicillin-resistant Staphylococcus aureus (LA-MRSA) remains a serious public health threat. Porcine nasal cavities are predominant habitats of LA-MRSA. Hence, components of their microbiota might be of interest as putative antagonistically acting competitors. Here, an extensive culturomics approach has been applied including 27 healthy pigs from seven different farms; five were treated with antibiotics prior to sampling. Overall, 314 different species with standing in nomenclature and 51 isolates representing novel bacterial taxa were detected. Staphylococcus aureus was isolated from pigs on all seven farms sampled, comprising ten different spa types with t899 (n = 15, 29.4%) and t337 (n = 10, 19.6%) being most frequently isolated. Twenty-six MRSA (mostly t899) were detected on five out of the seven farms. Positive correlations between MRSA colonization and age and colonization with Streptococcus hyovaginalis, and a negative correlation between colonization with MRSA and Citrobacter spp.