Intraspecies comparative genomics of three strains of Orientia tsutsugamushi with different antibiotic sensitivity

Hsiao-Mei Liao; Chien-Chung Chao; Haiyan Lei; Bingjie Li; Shien Tsai; Guo-Chiuan Hung; Wei-Mei Ching; Shyh-Ching Lo

doi:10.1016/j.gdata.2017.03.012

Intraspecies comparative genomics of three strains of Orientia tsutsugamushi with different antibiotic sensitivity

Genom Data. 2017 Mar 28:12:84-88. doi: 10.1016/j.gdata.2017.03.012. eCollection 2017 Jun.

Authors

Hsiao-Mei Liao¹, Chien-Chung Chao², Haiyan Lei¹, Bingjie Li¹, Shien Tsai¹, Guo-Chiuan Hung¹, Wei-Mei Ching², Shyh-Ching Lo¹

Affiliations

¹ Tissue Microbiology Laboratory, Division of Cellular and Gene Therapies, Office of Tissues and Advanced Therapies, Center for Biologics Evaluation and Research, Food and Drug Administration, Silver Spring, MD, USA.
² Naval Medical Research Center, Silver Spring, MD, USA; Uniformed Services University of the Health Sciences, Bethesda, MD, USA.

Abstract

We recently reported the genome of Orientia tsutsugamushi (OT) strain Karp (GenBank Accession #: NZ_LYMA00000000.2, https://www.ncbi.nlm.nih.gov/nuccore/NZ_LYMA00000000.2) with > 2 Mb in size through clone-based sequencing and high throughput genomic shotgun sequencing (HTS). The genomes of OT strains AFSC4 and AFSC7 were similarly sequenced by HTS Since strains AFSC4 (GenBank Accession #: NZ_LYMT00000000.1, https://www.ncbi.nlm.nih.gov/nuccore/1035784408) and AFSC7 (GenBank Accession #: NZ_LYMB00000000.1, https://www.ncbi.nlm.nih.gov/nuccore/1035854767) were more resistant to antibiotics than strain Karp, we conducted comparative analysis of the three draft genomes annotated by RAST server aimed to identify possible genetic bases of difference in microbial antibiotic sensitivity. Intraspecies comparative genomics analysis of the three OT strains revealed that two ORFs encoding hypothetical proteins in both strains AFSC4 and AFSC7 are absent in strain Karp.

Keywords: Antibiotic sensitivity; Comparative genomic analysis; Gene function comparison; Genome sequence comparison; Orientia tsutsugamushi; RAST genome annotation.