Scholarlink

Background <p>Species-level resolution is essential to understand gastric microbiome recovery after <i>Helicobacter pylori</i> eradication, yet short-read 16&#xa0;S rRNA approaches often obscure clinically relevant changes.</p> Methods <p>Gastric biopsies from 121 adults in Bayan-Ölgii, Mongolia (71 <i>H. pylori</i>–positive, 50 <i>H. pylori</i>–negative) were analyzed, including nine paired pre- and post-eradication gastric biopsy samples collected six months apart, enabling exploratory longitudinal analysis. Full-length 16&#xa0;S rRNA (V1–V9) sequencing was performed using the Oxford Nanopore platform with EMU taxonomic assignment (SILVA v138.1/NCBI RefSeq). Ecological changes were evaluated using diversity indices, principal coordinates analysis (PCoA) with PERMANOVA, and differential abundance testing (DESeq2, FDR &lt; 0.05). Eradication therapy (esomeprazole–bismuth–doxycycline–levofloxacin) achieved success in 54 of 57 <i>H. pylori</i>–positive patients (94.7%).</p> Results <p><i>H. pylori</i>–positive microbiomes were dominated by <i>H. pylori</i> (91.8% ± 3.9%) and exhibited markedly reduced diversity (Shannon = 0.44 ± 0.11) compared with <i>H. pylori</i>–negative samples (2.08 ± 0.25; <i>p</i> &lt; 0.001). Six months after eradication, diversity increased significantly (2.17 ± 0.20; <i>p =</i> 0.0001), with enrichment of oral commensals including <i>Streptococcus mitis</i> (↑ 11.9×), <i>Neisseria elongata</i> (↑ 13.7×), and <i>Prevotella melaninogenica</i> (↑ 13.0×). However, post-eradication profiles at six months remained distinct from <i>H. pylori</i>–negative communities (PERMANOVA R² = 0.12; <i>p =</i> 0.02). In total, 174 amplicon sequence variants changed significantly, including persistence of <i>Fusobacterium nucleatum</i>.</p> Conclusions <p>Nanopore full-length 16&#xa0;S sequencing reveals fine-scale, clinically relevant shifts that are masked by partial-gene assays. Eradication rapidly restores microbial diversity, but at six months, is associated with a novel ecological equilibrium rather than complete normalization. This species-resolved approach offers a practical framework for post-eradication microbiome monitoring and may inform strategies to reduce residual gastric cancer risk in high-burden populations.</p>

错误：搜索内容不能为空，请输入英文关键词
错误：关键词超出字数限制，请精简
高级检索

Species-level dynamics of gastric microbiome after Helicobacter pylori eradication in high-risk Mongolian population

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2026年2月7日

查看全文
  • Namsrai Renchinsengee,
  • Saruuljavkhlan Batsaikhan,
  • Ayush Khangai,
  • Gantuya Boldbaatar,
  • Bayasgalan Luvsandagva,
  • Aigul Lazatkhan,
  • Davaadorj Duger,
  • Oyuntsetseg Khasag,
  • Takashi Matsumoto,
  • Yoshio Yamaoka

摘要

Background

Species-level resolution is essential to understand gastric microbiome recovery after Helicobacter pylori eradication, yet short-read 16 S rRNA approaches often obscure clinically relevant changes.

Methods

Gastric biopsies from 121 adults in Bayan-Ölgii, Mongolia (71 H. pylori–positive, 50 H. pylori–negative) were analyzed, including nine paired pre- and post-eradication gastric biopsy samples collected six months apart, enabling exploratory longitudinal analysis. Full-length 16 S rRNA (V1–V9) sequencing was performed using the Oxford Nanopore platform with EMU taxonomic assignment (SILVA v138.1/NCBI RefSeq). Ecological changes were evaluated using diversity indices, principal coordinates analysis (PCoA) with PERMANOVA, and differential abundance testing (DESeq2, FDR < 0.05). Eradication therapy (esomeprazole–bismuth–doxycycline–levofloxacin) achieved success in 54 of 57 H. pylori–positive patients (94.7%).

Results

H. pylori–positive microbiomes were dominated by H. pylori (91.8% ± 3.9%) and exhibited markedly reduced diversity (Shannon = 0.44 ± 0.11) compared with H. pylori–negative samples (2.08 ± 0.25; p < 0.001). Six months after eradication, diversity increased significantly (2.17 ± 0.20; p = 0.0001), with enrichment of oral commensals including Streptococcus mitis (↑ 11.9×), Neisseria elongata (↑ 13.7×), and Prevotella melaninogenica (↑ 13.0×). However, post-eradication profiles at six months remained distinct from H. pylori–negative communities (PERMANOVA R² = 0.12; p = 0.02). In total, 174 amplicon sequence variants changed significantly, including persistence of Fusobacterium nucleatum.

Conclusions

Nanopore full-length 16 S sequencing reveals fine-scale, clinically relevant shifts that are masked by partial-gene assays. Eradication rapidly restores microbial diversity, but at six months, is associated with a novel ecological equilibrium rather than complete normalization. This species-resolved approach offers a practical framework for post-eradication microbiome monitoring and may inform strategies to reduce residual gastric cancer risk in high-burden populations.