Transcriptome analysis of bacteriophage communities in periodontal health and disease

BMC Genomics

David T. Pride³  Melissa Ly¹  Tobias K. Boehm²  Shira R. Abeles³  Mayuri Naidu¹  Tasha M. Santiago-Rodriguez¹ 

[1] Department of Pathology, University of California, San Diego, 9500 Gilman Drive, MC 0612, La Jolla 92093-0612, CA, USA;College of Dental Medicine, Western University of Health Sciences, Pomona, CA, USA;Department of Medicine, University of California, San Diego, 9500 Gilman Drive, MC 0612, La Jolla 92093-0612, CA, USA

关键词: Periodontitis;    Periodontal Disease;    Transcriptome;    Metagenome;    Virome;    Microbiome;    Bacteriophage;    Saliva;   

Others  :  1221879
DOI  :  10.1186/s12864-015-1781-0

 received in 2014-07-01, accepted in 2015-07-15,  发布年份 2015

【 摘 要 】

Background

The role of viruses as members of the human microbiome has gained broader attention with the discovery that human body surfaces are inhabited by sizeable viral communities. The majority of the viruses identified in these communities have been bacteriophages that predate upon cellular microbiota rather than the human host. Phages have the capacity to lyse their hosts or provide them with selective advantages through lysogenic conversion, which could help determine the structure of co-existing bacterial communities. Because conditions such as periodontitis are associated with altered bacterial biota, phage mediated perturbations of bacterial communities have been hypothesized to play a role in promoting periodontal disease. Oral phage communities also differ significantly between periodontal health and disease, but the gene expression of oral phage communities has not been previously examined.

Results

Here, we provide the first report of gene expression profiles from the oral bacteriophage community using RNA sequencing, and find that oral phages are more highly expressed in subjects with relative periodontal health. While lysins were highly expressed, the high proportion of integrases expressed suggests that prophages may account for a considerable proportion of oral phage gene expression. Many of the transcriptome reads matched phages found in the oral cavities of the subjects studied, indicating that phages may account for a substantial proportion of oral gene expression. Reads homologous to siphoviruses that infect Firmicutes were amongst the most prevalent transcriptome reads identified in both periodontal health and disease. Some genes from the phage lytic module were significantly more highly expressed in subjects with periodontal disease, suggesting that periodontitis may favor the expression of some lytic phages.

Conclusions

As we explore the contributions of viruses to the human microbiome, the data presented here suggest varying expression of bacteriophage communities in oral health and disease.

【 授权许可】

   
2015 Santiago-Rodriguez et al.

【 图 表 】

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