Community assembly modeling of microbial evolution within Barrett’s esophagus and esophageal adenocarcinoma Article Swipe
Caitlin Guccione
,
I. Sfiligoi
,
Antonio González
,
Justin P. Shaffer
,
Mariya Kazachkova
,
Yuhan Weng
,
Daniel McDonald
,
Shailja C. Shah
,
Samuel S. Minot
,
Thomas G. Paulson
,
William M. Grady
,
Ludmil B. Alexandrov
,
Rob Knight
,
Kit Curtius
·
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1101/2025.01.14.633020
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1101/2025.01.14.633020
Mathematical modeling of somatic evolution, a process impacting both host cells and microbial communities in the human body, can capture important dynamics driving carcinogenesis. Here we considered models for esophageal adenocarcinoma (EAC), a cancer that has dramatically increased in incidence over the past few decades in Western populations, with high case fatality rates due to late-stage diagnoses. Despite advancements in genomic analyses of the precursor Barrett’s esophagus (BE), prevention of late-stage EAC remains a significant clinical challenge. Previous microbiome studies in BE and EAC have focused on quantifying static microbial abundance differences rather than evolutionary dynamics. Using whole genome sequencing data from esophageal tissues, we first applied a robust bioinformatics pipeline to extract non-host DNA reads, mapped these putative reads to microbial taxa, and retained those taxa with high genomic coverage. When applying mathematical models of microbial evolution to sequential stages of progression to EAC, we observed evidence of neutral dynamics in community assembly within normal esophageal tissue and BE, but not EAC. In a case-control study of BE patients who progressed to EAC cancer outcomes (CO) versus those who had non-cancer outcomes (NCO) during follow-up (mean=10.5 years), we found that Helicobacter pylori deviated significantly from the neutral expectation in BE NCO, suggesting that factors related to H. pylori or H. pylori infection itself may influence EAC risk. Additionally, simulations incorporating selection recapitulated non-neutral behaviors observed in the datasets. Formally modeling dynamics during progression holds promise in clinical applications by offering a deeper understanding of microbial involvement in cancer development.
Related Topics
Concepts
Esophageal adenocarcinoma
Barrett's esophagus
Esophagus
Adenocarcinoma
Gastroenterology
Internal medicine
Medicine
Cancer
Metadata
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.1101/2025.01.14.633020
- OA Status
- green
- References
- 65
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4406487268
All OpenAlex metadata
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https://doi.org/10.1101/2025.01.14.633020Digital Object Identifier
- Title
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Community assembly modeling of microbial evolution within Barrett’s esophagus and esophageal adenocarcinomaWork title
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preprintOpenAlex work type
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enPrimary language
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2025Year of publication
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2025-01-16Full publication date if available
- Authors
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Caitlin Guccione, I. Sfiligoi, Antonio González, Justin P. Shaffer, Mariya Kazachkova, Yuhan Weng, Daniel McDonald, Shailja C. Shah, Samuel S. Minot, Thomas G. Paulson, William M. Grady, Ludmil B. Alexandrov, Rob Knight, Kit CurtiusList of authors in order
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https://doi.org/10.1101/2025.01.14.633020Publisher landing page
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YesWhether a free full text is available
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greenOpen access status per OpenAlex
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https://doi.org/10.1101/2025.01.14.633020Direct OA link when available
- Concepts
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Esophageal adenocarcinoma, Barrett's esophagus, Esophagus, Adenocarcinoma, Gastroenterology, Internal medicine, Medicine, CancerTop concepts (fields/topics) attached by OpenAlex
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0Total citation count in OpenAlex
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10Other works algorithmically related by OpenAlex
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