Sequential Sampling of the Gastrointestinal Tract to Characterize the Entire Digestive Microbiome in Japanese Subjects

被引:0
|
作者
Ishizawa, Kota [1 ,2 ]
Tamahara, Toru [2 ,3 ]
Suzuki, Suguo [4 ]
Hatayama, Yutaka [4 ]
Li, Bin [2 ,5 ]
Abe, Michiaki [1 ,2 ]
Aoki, Yuichi [2 ,6 ]
Arita, Ryutaro [1 ,7 ]
Saito, Natsumi [1 ,7 ]
Ohsawa, Minoru [1 ,7 ]
Kaneko, Soichiro [1 ,7 ]
Ono, Rie [1 ,7 ]
Takayama, Shin [1 ,7 ]
Shimada, Muneaki [2 ,5 ]
Kumada, Kazuki [2 ,5 ]
Koike, Tomoyuki [4 ]
Masamune, Atsushi [4 ]
Onodera, Ko [1 ]
Ishii, Tadashi [1 ,7 ]
Shimizu, Ritsuko [2 ,5 ]
Kanno, Takeshi [1 ,4 ,8 ]
机构
[1] Tohoku Univ Hosp, Dept Educ & Support Reg Med, Sendai 9808574, Japan
[2] Tohoku Univ, Tohoku Med Megabank Org, Sendai 9808573, Japan
[3] Tohoku Univ, Grad Sch Dent, Sendai 9808575, Japan
[4] Tohoku Univ, Grad Sch Med, Div Gastroenterol, Sendai 9808575, Japan
[5] Tohoku Univ, Adv Res Ctr Innovat Next Generat Med, Sendai 9808573, Japan
[6] Tohoku Univ, Grad Sch Informat Sci, Sendai 9808579, Japan
[7] Tohoku Univ Hosp, Dept Kampo Med, Sendai 9808574, Japan
[8] Jichi Med Univ, Med Educ Ctr, R&D Div Career Educ Med Profess, Shimotsuke 3290431, Japan
基金
日本学术振兴会;
关键词
NGS; digestive duct; EGD; microbiome; bacteria; microorganisms; GUT MICROBIOME; DIVERSITY; CATALOG; HEALTH;
D O I
10.3390/microorganisms12071324
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
The gastrointestinal (GI) tract harbors trillions of microorganisms known to influence human health and disease, and next-generation sequencing (NGS) now enables the in-depth analysis of their diversity and functions. Although a significant amount of research has been conducted on the GI microbiome, comprehensive metagenomic datasets covering the entire tract are scarce due to cost and technical challenges. Despite the widespread use of fecal samples, integrated datasets encompassing the entire digestive process, beginning at the mouth and ending with feces, are lacking. With this study, we aimed to fill this gap by analyzing the complete metagenome of the GI tract, providing insights into the dynamics of the microbiota and potential therapeutic avenues. In this study, we delved into the complex world of the GI microbiota, which we examined in five healthy Japanese subjects. While samples from the whole GI flora and fecal samples provided sufficient bacteria, samples obtained from the stomach and duodenum posed a challenge. Using a principal coordinate analysis (PCoA), clear clustering patterns were identified; these revealed significant diversity in the duodenum. Although this study was limited by its small sample size, the flora in the overall GI tract showed unwavering consistency, while the duodenum exhibited unprecedented phylogenetic diversity. A visual heat map illustrates the discrepancy in abundance, with Fusobacteria and Bacilli dominating the upper GI tract and Clostridia and Bacteroidia dominating the fecal samples. Negativicutes and Actinobacteria were found throughout the digestive tract. This study demonstrates that it is possible to continuously collect microbiome samples throughout the human digestive tract. These findings not only shed light on the complexity of GI microbiota but also provide a basis for future research.
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页数:14
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