Genome annotation of Poly(lactic acid) degradingPseudomonas aeruginosaandSphingobacterium sp.

Abstract

25Pseudomonas aeruginosa and Sphinogobacterium sp. are well known for their ability to 26 decontaminate many environmental pollutants like PAHs, dyes, pesticides and plastics. The 27 present study reports the annotation of genomes from P. aeruginosa and Sphinogobacterium sp. 28 that were isolated from compost, based on their ability to degrade poly(lactic acid), PLA, at 29 mesophillic temperatures (~30ºC). Draft genomes of both the strains were assembled from 30 Illumina reads, annotated and viewed with an aim of gaining insight into the genetic elements 31 involved in degradation of PLA. The draft-assembled genome of strain Sphinogobacterium strain 32 S2 was 5,604,691 bp in length with 435 contigs (maximum length of 434,971 bp) and an average 33 G+C content of 43.5%. The assembled genome of P. aeruginosa strain S3 was 6,631,638 bp long 34 with 303 contigs (maximum contig length of 659,181 bp) and an average G+C content 66.17 %. 35A total of 5,385 (60% with annotation) and 6,437 (80% with annotation) protein-coding genes 36 were predicted for strains S2 and S3 respectively. Catabolic genes for biodegradation of xenobiotic 37 and aromatic compounds were identified on both draft genomes. Both strains were found to have 38 the genes attributable to the establishment and regulation of biofilm, with more extensive 39 annotation for this in S3. The genome of P. aeruginosa S3 had the complete cascade of genes 40 involved in the transport and utilization of lactate while Sphinogobacterium strain S2 lacked 41 lactate permease, consistent with its inability to grow on lactate. As a whole, our results reveal and 42 predict the genetic elements providing both strains with the ability to degrade PLA at mesophilic 43 temperature. 44 45 46 47 1. Introduction 48 Poly(lactic acid) (PLA), is a bio-based aliphatic polyester polymer, obtained from sources such as 49 corn sugar, cassava, wheat, rice, potato, and sugar cane, considered renewable [1, 2]. PLA is 50 completely biodegradable under industrial composting conditions [3] as well as under 51 unsupervised environmental conditions where its biodegradation is considered safe [4]. In the last 52 two decades biodegradation of PLA has been extensively studied and many microbial species 53 (actinomycete, bacteria, fungus) have been identified with the ability to degrade PLA [4]. Most of 54 the reported bacterial species are from the family Pseudonocardiaceae, Thermomonosporaceae, 55 Micromonosporaceae, Streptosporangiaceae, Bacillaceae and Thermoactinomycetaceae while 56 the fungal species are mainly from the phylum Basidiomycota (Tremellaceae) and Ascomycota 57 (Trichocomaceae, Hypocreaceae) [5-11]. 58In our previous study we also described four bacterial strains designated as S1, S2, S3 and S4, able 59 to degrade PLA at ambient temperature [12]. Two of the isolated strains, Sphingobacterium sp. 60(S2) and P. aeruginosa (S3), were also evaluated for their PLA degradation in soil microcosms 61 [13]. The genus Sphingobacterium is from Phylum Bacteriodetes, Family Sphingobacteria...

A Diverse Repertoire of Exopolysaccharide Biosynthesis Gene Clusters in Lactobacillus Revealed by Comparative Analysis in 106 Sequenced Genomes

“…Within a genus, proteins with similar functions are pooled into a single local genus-level family (PLFam) and similar pooling across genera gives rise to the global families (PGFams). Thus, PLFams represent subtypes of PGFams and both have been used to get insights into diversity in the putative proteins encoded by bacterial genomes [46,47,48,49]. The classification of the putative proteins encoded by the identified EPS clusters into these families already available at PATRIC database was used to decipher the closeness of the homologous genes.…”

The Role of Biodegrading-bacteria to Remove Bisphenol-A from Polluted Soils

“…The pivotal role of Pseudomonas aeruginosa in the biodegradation of various polymers, encompassing degradation of the xenobiotic compounds; moreover, its involvement in the breakdown of plastics, dyes, and oils had been extensively documented; similarly, Sphingobacterium had been reported to exhibit notable biodegradation of diverse pollutants potentially; including the ability to contribute to the degradation of mixed plastic wastes; this emphasized the versatility of these bacterial strains in environmental remediation efforts targeting a range of pollutants and substances of polymer-based [31]. In the pursuit of degradation of BPA, beyond chemical and physical treatment methods, microbial degradation had emerged as a focal point of scientific attention; in recent, microbial treatment had gained prominence as an environmentally friendly alternative, offering sustainable approaches to the degradation of plastics, including BPA; this shift towards microbial degradation underscores the potential of harnessing microorganisms to address pollution of plastics and highlights the importance of eco-friendly solutions in strategies of environmental remediation [32].…”

Sequencing batch airlift reactors (SBAR): a suitable technology for treatment and valorization of mineral oil wastewaters towards lipids production

“…The most represented genera, with relative abundances higher than 5% were Ochrobactrum, Sphingobacterium and Novosphingobium. These bacterial genera have preferentially degraded aromatic hydrocarbons, particularly polycyclic aromatic hydrocarbons (PAHs) that are commonly used for the manufacture of lubricating oils (Abou-shanab, 2015;Kertesz and Kawasaki, 2010;Satti et al, 2019). The lubricant wastewater used as carbon source in this study can explain the development of a bacterial community specialized in the biodegradation of these hydrocarbons.…”