Complete genome sequence of Pseudomonas frederiksbergensis ERDD5:01 revealed genetic bases for survivability at high altitude ecosystem and bioprospection potential

• Published in: Genomics (San Diego, Calif.) Calif.), 2019-05, Vol.111 (3), p.492-499
• Main Authors: Kumar, Rakshak, Acharya, Vishal, Mukhia, Srijana, Singh, Dharam, Kumar, Sanjay
• Format: Article
• Language: English
• Subjects: Altitude; Base Sequence; Cold and radiation resistance; Complete genome sequence; DNA Repair; Genome, Bacterial; Genomics; Industrial enzymes; Molecular cold adaptation; Oxidative Stress; Pseudomonas - genetics; Pseudomonas - metabolism; Pseudomonas - physiology; Pseudomonas - radiation effects; Pseudomonas frederiksbergensis ERDD5:01; SMRT sequencing; Stress, Physiological; Ultraviolet Rays; Whole Genome Sequencing
• ISSN: 0888-7543; 1089-8646
• DOI: 10.1016/j.ygeno.2018.03.008

Pseudomonas frederiksbergensis ERDD5:01 is a psychrotrophic bacteria isolated from the glacial stream flowing from East Rathong glacier in Sikkim Himalaya. The strain showed survivability at high altitude stress conditions like freezing, frequent freeze-thaw cycles, and UV-C radiations. The complete genome of 5,746,824 bp circular chromosome and a plasmid of 371,027 bp was sequenced to understand the genetic basis of its survival strategy. Multiple copies of cold-associated genes encoding cold active chaperons, general stress response, osmotic stress, oxidative stress, membrane/cell wall alteration, carbon storage/starvation and, DNA repair mechanisms supported its survivability at extreme cold and radiations corroborating with the bacterial physiological findings. The molecular cold adaptation analysis in comparison with the genome of 15 mesophilic Pseudomonas species revealed functional insight into the strategies of cold adaptation. The genomic data also revealed the presence of industrially important enzymes. •Pseudomonas frederiksbergensis ERDD5:01 was isolated from Sikkim Himalaya.•The bacteria resisted freezing temperature, freeze-thaw cycle and radiation.•Complete genome comprised a chromosome of 5,746,824 bp and a plasmid of 371,027 bp.•Genomic data and amino acid analysis unraveled genetic basis of cold adaptation.•High altitude adaptation and industrial enzyme were revealed by genomic insight.