Exploration of Csp genes from temperate and glacier soils of the Indian Himalayas and in silico analysis of encoding proteins.
The metagenomic Csp library was constructed from the temperate and glacier soils of central Himalaya, India followed by polymerase chain reaction (PCR) amplification. The library was further screened for low-temperature adaptation, and the positive recombinants were sorted out by determining changes in the melting temperature (Tm). A homology search of cloned sequence showed their identity with the Csp genes of Pseudomonas fluorescens, Psychrobacter cryohalolentis K5, and Shewanella spp MR-4. Amino acid sequence analysis annotated the presence of conserved aromatic and basic amino acids as well as RNA binding motifs from the cold shock domain. Furthermore, a PROSITE scan showed a moderate identity of less than 60% with the known cold shock-inducible proteins (ribosomal proteins, rbfA, DEAD-box helicases), cold acclimation protein, and temperature-induced protein (SRP1/TIP1). This study highlighted the prevalence of Csp genes from cold Himalayan environments that can be explored for tailor-made crop constructions in future.
Latha
Prema K
PK
Department of Microbiology, G.B. Pant University of Agriculture and Technology, Pantnagar 263145, India. premalatha1977@gmail.com
Soni
Ravindra
R
Khan
Mahejibin
M
Marla
Soma S
SS
Goel
Reeta
R
D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000737:chemistry / Q000235:genetics*; D003080:Cold Temperature; D017931:DNA Primers; D005798:Genes, Bacterial; D015698:Genomic Library; D046448:Ice Cover / Q000382:microbiology*; D007194:India; D008969:Molecular Sequence Data; D044007:Moraxellaceae / Q000235:genetics* / Q000302:isolation & purification / Q000502:physiology; D017434:Protein Structure, Tertiary; D011551:Pseudomonas fluorescens / Q000235:genetics* / Q000302:isolation & purification / Q000502:physiology; D016601:RNA-Binding Proteins / Q000235:genetics; D016415:Sequence Alignment; D020539:Sequence Analysis, Protein; D020592:Shewanella / Q000235:genetics* / Q000302:isolation & purification / Q000502:physiology; D012988:Soil Microbiology
D001426:Bacterial Proteins; D017931:DNA Primers; D016601:RNA-Binding Proteins