دورية أكاديمية
Colorectal Cancer Archaeome: A Metagenomic Exploration, Tunisia
| العنوان: | Colorectal Cancer Archaeome: A Metagenomic Exploration, Tunisia |
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| المؤلفون: | Nour El Houda Mathlouthi, Hamadou Oumarou Hama, Imen Belguith, Slim Charfi, Tahya Boudawara, Jean-Christophe Lagier, Leila Ammar Keskes, Ghiles Grine, Radhouane Gdoura |
| المصدر: | Current Issues in Molecular Biology, Vol 45, Iss 9, Pp 7572-7581 (2023) |
| بيانات النشر: | MDPI AG, 2023. |
| سنة النشر: | 2023 |
| المجموعة: | LCC:Biology (General) |
| مصطلحات موضوعية: | archaeome, metagenomic, gut microbiome, formalin-fixed paraffin embedded tissues, colorectal cancer, Halobacteria, Biology (General), QH301-705.5 |
| الوصف: | Colorectal cancer (CRC) is a serious public health problem known to have a multifactorial etiology. The association between gut microbiota and CRC has been widely studied; however, the link between archaea and CRC has not been sufficiently studied. To investigate the involvement of archaea in colorectal carcinogenesis, we performed a metagenomic analysis of 68 formalin-embedded paraffin fixed tissues from tumoral (n = 33) and healthy mucosa (n = 35) collected from 35 CRC Tunisian patients. We used two DNA extraction methods: Generead DNA FFPE kit (Qiagen, Germantown, MD, USA) and Chelex. We then sequenced the samples using Illumina Miseq. Interestingly, DNA extraction exclusively using Chelex generated enough DNA for sequencing of all samples. After data filtering and processing, we reported the presence of archaeal sequences, which represented 0.33% of all the reads generated. In terms of abundance, we highlighted a depletion in methanogens and an enrichment in Halobacteria in the tumor tissues, while the correlation analysis revealed a significant association between the Halobacteria and the tumor mucosa (p < 0.05). We reported a strong correlation between Natrialba magadii, Sulfolobus acidocaldarius, and tumor tissues, and a weak correlation between Methanococcus voltae and healthy adjacent mucosa. Here, we demonstrated the feasibility of archaeome analysis from formol fixed paraffin-embedded (FFPE) tissues using simple protocols ranging from sampling to data analysis, and reported a significant association between Halobacteria and tumor tissues in Tunisian patients with CRC. The importance of our study is that it represents the first metagenomic analysis of Tunisian CRC patients’ gut microbiome, which consists of sequencing DNA extracted from paired tumor-adjacent FFPE tissues collected from CRC patients. The detection of archaeal sequences in our samples confirms the feasibility of carrying out an archaeome analysis from FFPE tissues using a simple DNA extraction protocol. Our analysis revealed the enrichment of Halobacteria, especially Natrialba magadii, in tumor mucosa compared to the normal mucosa in CRC Tunisian patients. Other species were also associated with CRC, including Sulfolobus acidocaldarius and Methanococcus voltae, which is a methanogenic archaea; both species were found to be correlated with adjacent healthy tissues. |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 1467-3045 1467-3037 |
| Relation: | https://www.mdpi.com/1467-3045/45/9/477; https://doaj.org/toc/1467-3037; https://doaj.org/toc/1467-3045 |
| DOI: | 10.3390/cimb45090477 |
| URL الوصول: | https://doaj.org/article/f7dfab1af8044cb8a95f4b5cd870343d |
| رقم الأكسشن: | edsdoj.f7dfab1af8044cb8a95f4b5cd870343d |
| قاعدة البيانات: | Directory of Open Access Journals |
Full Text Finder | تدمد: | 14673045 14673037 |
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| DOI: | 10.3390/cimb45090477 |