Abstract
Pseudomonas aeruginosa and Sphingobacterium sp. are well known for their ability to decontaminate many environmental pollutants while Geobacillus sp. have been exploited for their thermostable enzymes. This study reports the annotation of genomes of P. aeruginosa S3, Sphingobacterium S2 and Geobacillus EC-3 that were isolated from compost, based on their ability to degrade poly(lactic acid), PLA. Draft genomes of the strains were assembled from Illumina reads, annotated and viewed with the aim of gaining insight into the genetic elements involved in degradation of PLA. The draft genome of Sphinogobacterium strain S2 (435 contigs) was estimated at 5,604,691 bp and the draft genome of P. aeruginosa strain S3 (303 contigs) was estimated at 6,631,638 bp. The draft genome of the thermophile Geobacillus strain EC-3 (111 contigs) was estimated at 3,397,712 bp. A total of 5385 (60% with annotation), 6437 (80% with annotation) and 3790 (74% with annotation) protein-coding genes were predicted for strains S2, S3 and EC-3, respectively. Catabolic genes for the biodegradation of xenobiotics, aromatic compounds and lactic acid as well as the genes attributable to the establishment and regulation of biofilm were identified in all three draft genomes. Our results reveal essential genetic elements that facilitate PLA metabolism at mesophilic and thermophilic temperatures in these three isolates.
Highlights
The lactic acid required to produce poly(lactic acid) (PLA) through polycondensation is derived primarily from the microbial fermentation of agro-industrial waste
In our previous studies we have reported the expression of PLA hydrolyzing lipase and esterase from our isolates P. aeruginosa strain S3 and Sphingobacterium sp. strain S2 [12,97,98]
The present study reports the whole genome sequence analysis of three bacterial strains isolated from compost, P. aeruginosa S3, Sphinogobacterium sp
Summary
The lactic acid required to produce poly(lactic acid) (PLA) through polycondensation is derived primarily from the microbial fermentation of agro-industrial waste. The genus Sphingobacterium is from the phylum Bacteriodetes, family Sphingobacteriaceae, named with reference to the sphingolipids in their cell wall [14,15] They are Gram-negative rods, and the GC content of their DNA usually ranges from 35 to 44 mol% [16,17]. Pseudomonas aeruginosa are Gram-negative bacteria from the γ-subdivision of proteobacteria They are ubiquitously distributed in soil and aquatic habitats and are well-known opportunistic pathogens [22,23]. They have the ability to thrive in highly diverse and unusual ecological niches with low levels of nutrients. Geobacillus sp. are well-described Gram-positive spore forming rods whose thermophilic attributes have been exploited for highly stable enzymatic activities [32,33]
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