Genome-Wide Transcriptional Start Site Mapping and sRNA Identification in the Pathogen Leptospira interrogans

Frontiers in Cellular and Infection Microbiology

Eshghi, Azad¹  Malabat, Christophe¹  Zhukova, Anna¹  Zhang, Jun-Jie²  Hugon, Perrine²  Fernandes, Luis Guilherme²  Sismeiro, Odile²  e, Jean-Yves³  Becavin, Christophe³  Coppé⁴  Yang, Frank X.⁵  Pappas, Christopher J.⁶ 

[1] Bioinformatics and Biostatistics Hub, Institut Pasteur, C3BI, Paris, France;Biology of Spirochetes Unit, Institut Pasteur, Paris, France;CITECH, Institut Pasteur, Plate-forme Transcriptome et Epigenome, Pole Biomics – CITECH, Paris, France;Department of Biology, Manhattanville College, Purchase, NY, USA;Department of Microbiology and Immunology, Indiana University School of Medicine, Indianapolis, IN, USA;Mutualized Microbiology Platform, Institut Pasteur, Pasteur International Bioresources Network, Paris, France

关键词: Leptospirosis;    spirochetes;    Promoter;    Transcription Factors;    RNA;   

DOI  :  10.3389/fcimb.2017.00010

学科分类：生物科学（综合）

来源: Frontiers

【 摘 要 】

Leptospira are emerging zoonotic pathogens transmitted from animals to humans typically through contaminated environmental sources of water and soil. Regulatory pathways of pathogenic Leptospira spp. underlying the adaptive response to different hosts and environmental conditions remains elusive. In this study, we provide the first global Transcriptional Start Site (TSS) map of a Leptospira species. RNA was obtained from the pathogen Leptospira interrogans grown at 30°C (optimal in vitro temperature) and 37°C (host temperature) and selectively enriched for 5' ends of native transcripts. A total of 2,865 and 2,866 primary TSS (pTSS) were predicted in the genome of L. interrogans at 30°C and 37°C, respectively. The majority of the pTSSs were located between 0 to 10 nucleotides from the translational start site, suggesting that leaderless transcripts are a common feature of the leptospiral translational landscape. Comparative differential RNA-sequencing (dRNA-seq) analysis revealed conservation of most pTSS at 30°C and 37°C. Promoter prediction algorithms allow the identification of the binding sites of the alternative sigma factor sigma 54. However, other motifs were not identified indicating that Leptospira consensus promoter sequences are inherently different from the E. coli model. RNA sequencing also identified 277 and 226 putative small regulatory RNAs (sRNAs) at 30°C and 37°C, respectively, including 8 validated sRNAs by Northern blots. These results provide the first global view of transcriptional start sites and the repertoire of sRNAs in L. interrogans. These data will establish a foundation for future experimental work on gene regulation under various environmental conditions including those in the host.

【 授权许可】

CC BY