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Series GSE262090 Query DataSets for GSE262090
Status Public on Mar 25, 2024
Title Unveiling microbial dynamics in lung adenocarcinoma and adjacent nontumor tissues: Insights from nicotine exposure and diverse clinical stages via Nanopore Sequencing Technology
Organism metagenomes
Experiment type Other
Summary Background: Lung is the largest mucosal area of the human body and directly connected to the external environment, facing microbial exposure and environmental stimuli. Therefore, studying the internal microorganisms of the lung is crucial for a deeper understanding of the relationship between microorganisms and the occurrence and progression of lung cancer.
Methods: Tumor and adjacent nontumor tissues were collected from 38 lung adenocarcinoma patients and used nanopore sequencing technology to sequence the 16s full-length sequence of bacteria, and combining bioinformatics methods to identify and quantitatively analyze microorganisms in tissues, as well as to enrich the metabolic pathways of microorganisms.
Results: the microbial composition in lung adenocarcinoma tissues is highly similar to that in adjacent tissues, but the alpha diversity is significantly lower than that in adjacent tissues. The difference analysis results show that the bacterial communities of Streptococcaceae, Lactobacillaceae, and Neisseriales were significantly enriched in cancer tissues. The results of metabolic pathway analysis indicate that pathways related to cellular communication, transcription, and protein synthesis were significantly enriched in cancer tissue. In addition, clinical staging analysis of nicotine exposure and lung cancer found that Haemophilus, paralinfluenzae, Streptococcus gordonii were significantly enriched in the nicotine exposure group, while the microbiota of Cardiobactereae and Cardiobacterales were significantly enriched in stage II tumors. The microbiota significantly enriched in IA-II stages were Neisseriaeae, Enterobacteriales, and Cardiobacterales, respectively.
Conclusion Nanopore sequencing technology was performed on the full length 16s sequence, which preliminarily depicted the microbial changes and enrichment of microbial metabolic pathways in tumor and adjacent nontumor tissues. The relationship between nicotine exposure, tumor progression, and microorganisms was explored, providing a theoretical basis for the treatment of lung cancer through microbial targets.
Overall design We collected tumor and adjacent nontumor samples from 37 lung cancer patients, sequenced microbial DNA within the tissues using Nanopore sequencing technology, and studied the microbial profile using bioinformatics analysis technology
Contributor(s) Yang K, Wang S, Ding Z, Zhang K, Zhu W, Wang H, Pan M, Li X, Wang H, Yu Z
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Submission date Mar 20, 2024
Last update date Mar 25, 2024
Contact name shuaifeng wang
Organization name The First Affiliated Hospital of Zhengzhou University
Street address No.1 Jianshe East Road, Erqi District, Zhengzhou City, Henan Province
City Zhengzhou
State/province Henan
ZIP/Postal code 450001
Country China
Platforms (1)
GPL34320 MinION (metagenomes)
Samples (74)
GSM8157303 Tumor tissue, rep1 [LNH_ZL]
GSM8157304 Adjacent non-tumor tissue, rep1 [LNH_BY]
GSM8157305 Tumor tissue, rep2 [A4811437ZL]
BioProject PRJNA1090223

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Supplementary file Size Download File type/resource
GSE262090_OTU.txt.gz 30.9 Kb (ftp)(http) TXT
GSE262090_metadata.txt.gz 328 b (ftp)(http) TXT
GSE262090_tax.txt.gz 19.0 Kb (ftp)(http) TXT
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