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Open AccessArticle

Transcriptomic Analysis of Aggregatibacter actinomycetemcomitans Core and Accessory Genes in Different Growth Conditions

1
Division of Periodontology, Diagnostic Sciences, and Dental Hygiene, Herman Ostrow School of Dentistry, University of Southern California, 925 West 34th Street, Los Angeles, CA 90089, USA
2
Systems Biology and Bioinformatics Research Group, Pilot Plant Development and Training Institute, King Mongkut’s University of Technology Thonburi, Bangkok 10150, Thailand
3
Department of Biochemistry, University of Turku, FI-20014 Turku, Finland
4
Department of Microbiology, University of Washington, Seattle, WA 98109, USA
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Pathogens 2019, 8(4), 282; https://doi.org/10.3390/pathogens8040282
Received: 10 October 2019 / Revised: 27 November 2019 / Accepted: 29 November 2019 / Published: 3 December 2019
Aggregatibacter actinomycetemcomitans genome can be divided into an accessory gene pool (found in some but not all strains) and a core gene pool (found in all strains). The functions of the accessory genes (genomic islands and non-island accessory genes) are largely unknown. We hypothesize that accessory genes confer critical functions for A. actinomycetemcomitans in vivo. This study examined the expression patterns of accessory and core genes of A. actinomycetemcomitans in distinct growth conditions. We found similar expression patterns of island and non-island accessory genes, which were generally lower than the core genes in all growth conditions. The median expression levels of genomic islands were 29%–37% of the core genes in enriched medium but elevated to as high as 63% of the core genes in nutrient-limited media. Several putative virulence genes, including the cytolethal distending toxin operon, were found to be activated in nutrient-limited conditions. In conclusion, genomic islands and non-island accessory genes exhibited distinct patterns of expression from the core genes and may play a role in the survival of A. actinomycetemcomitans in nutrient-limited environments. View Full-Text
Keywords: A. actinomycetemcomitans; RNA-Seq; genomic islands; core genes; accessory genes; stress; nutrient limitation; differentially expressed genes. A. actinomycetemcomitans; RNA-Seq; genomic islands; core genes; accessory genes; stress; nutrient limitation; differentially expressed genes.
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Tjokro, N.O.; Kittichotirat, W.; Torittu, A.; Ihalin, R.; Bumgarner, R.E.; Chen, C. Transcriptomic Analysis of Aggregatibacter actinomycetemcomitans Core and Accessory Genes in Different Growth Conditions. Pathogens 2019, 8, 282.

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