scholarly journals Genome Annotation of Poly(lactic acid) Degrading Pseudomonas aeruginosa, Sphingobacterium sp. and Geobacillus sp.

2021 ◽  
Vol 22 (14) ◽  
pp. 7385
Author(s):  
Sadia Mehmood Satti ◽  
Edgar Castro-Aguirre ◽  
Aamer Ali Shah ◽  
Terence L. Marsh ◽  
Rafael Auras
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Lactic Acid ◽  
Draft Genome ◽  
Environmental Pollutants ◽  
Poly Lactic Acid ◽  
Thermostable Enzymes ◽  
Protein Coding ◽  
Genetic Elements ◽  
Catabolic Genes ◽  
Insight Into

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.

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

2019 ◽  
Author(s):  
Sadia Mehmood Satti ◽  
Aamer Ali Shah ◽  
Rafael Auras ◽  
Terence L. Marsh
Keyword(s):  
Lactic Acid ◽  
Genome Annotation ◽  
Environmental Pollutants ◽  
Poly Lactic Acid ◽  
Protein Coding ◽  
Genetic Elements ◽  
Protein Coding Genes ◽  
Catabolic Genes ◽  
Insight Into ◽  
Gaining Insight

AbstractPseudomonas aeruginosaandSphinogobacterium sp. are well known for their ability to decontaminate many environmental pollutants like PAHs, dyes, pesticides and plastics. The present study reports the annotation of genomes fromP. aeruginosaandSphinogobacterium sp. that were isolated from compost, based on their ability to degrade poly(lactic acid), PLA, at mesophillic temperatures (~30°C). Draft genomes of both the strains were assembled from Illumina reads, annotated and viewed with an aim of gaining insight into the genetic elements involved in degradation of PLA. The draft-assembled genome of strainSphinogobacteriumstrain S2 was 5,604,691 bp in length with 435 contigs (maximum length of 434,971 bp) and an average G+C content of 43.5%. The assembled genome ofP. aeruginosastrain S3 was 6,631,638 bp long with 303 contigs (maximum contig length of 659,181 bp) and an average G+C content 66.17 %. A total of 5,385 (60% with annotation) and 6,437 (80% with annotation) protein-coding genes were predicted for strains S2 and S3 respectively. Catabolic genes for biodegradation of xenobiotic and aromatic compounds were identified on both draft genomes. Both strains were found to have the genes attributable to the establishment and regulation of biofilm, with more extensive annotation for this in S3. The genome ofP. aeruginosaS3 had the complete cascade of genes involved in the transport and utilization of lactate whileSphinogobacterium strainS2 lacked lactate permease, consistent with its inability to grow on lactate. As a whole, our results reveal and predict the genetic elements providing both strains with the ability to degrade PLA at mesophilic temperature.

scholarly journals Draft Genome of Shewanella frigidimarina Ag06-30, a Marine Bacterium Isolated from Potter Peninsula, King George Island, Antarctica

2016 ◽  
Vol 4 (3) ◽  
Author(s):  
Gisela Parmeciano Di Noto ◽  
Susana C. Vázquez ◽  
Walter P. MacCormack ◽  
Andrés Iriarte ◽  
Cecilia Quiroga
Keyword(s):  
Gene Transfer ◽  
Lateral Gene Transfer ◽  
Marine Bacterium ◽  
Draft Genome ◽  
Mobile Genetic Elements ◽  
King George Island ◽  
Genetic Elements ◽  
Shewanella Frigidimarina ◽  
Insight Into ◽  
Potter Peninsula

We present the draft genome of Shewanella frigidimarina Ag06-30, a marine bacterium from King George Island, Antarctica, which encodes the carbapenemase SFP-1. The assembly contains 4,799,218 bp (G+C content 41.24%). This strain harbors several mobile genetic elements that provide insight into lateral gene transfer and bacterial plasticity and evolution.

Biodegradation of polystyrene (PS)-poly(lactic acid) (PLA) nanocomposites using Pseudomonas aeruginosa

2012 ◽  
Vol 20 (2) ◽  
pp. 181-187 ◽  
Author(s):  
Navinchandra Shimpi ◽  
Mahesh Borane ◽  
Satyendra Mishra ◽  
Meghraj Kadam
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Lactic Acid ◽  
Poly Lactic Acid

scholarly journals Disabling a Type I-E CRISPR-Cas Nuclease with a Bacteriophage-Encoded Anti-CRISPR Protein

mBio ◽  
2017 ◽  
Vol 8 (6) ◽  
Author(s):  
April Pawluk ◽  
Megha Shah ◽  
Marios Mejdani ◽  
Charles Calmettes ◽  
Trevor F. Moraes ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Transcriptional Repressor ◽  
Mobile Genetic Elements ◽  
Type I ◽  
Genetic Studies ◽  
Genetic Elements ◽  
Crispr System ◽  
Mechanistic Insight ◽  
Resistance To Invasion ◽  
Insight Into

ABSTRACT CRISPR (clustered regularly interspaced short palindromic repeat)-Cas adaptive immune systems are prevalent defense mechanisms in bacteria and archaea. They provide sequence-specific detection and neutralization of foreign nucleic acids such as bacteriophages and plasmids. One mechanism by which phages and other mobile genetic elements are able to overcome the CRISPR-Cas system is through the expression of anti-CRISPR proteins. Over 20 different families of anti-CRISPR proteins have been described, each of which inhibits a particular type of CRISPR-Cas system. In this work, we determined the structure of type I-E anti-CRISPR protein AcrE1 by X-ray crystallography. We show that AcrE1 binds to the CRISPR-associated helicase/nuclease Cas3 and that the C-terminal region of the anti-CRISPR protein is important for its inhibitory activity. We further show that AcrE1 can convert the endogenous type I-E CRISPR system into a programmable transcriptional repressor. IMPORTANCE The CRISPR-Cas immune system provides bacteria with resistance to invasion by potentially harmful viruses, plasmids, and other foreign mobile genetic elements. This study presents the first structural and mechanistic insight into a phage-encoded protein that inactivates the type I-E CRISPR-Cas system in Pseudomonas aeruginosa. The interaction of this anti-CRISPR protein with the CRISPR-associated helicase/nuclease proteins Cas3 shuts down the CRISPR-Cas system and protects phages carrying this gene from destruction. This interaction also allows the repurposing of the endogenous type I-E CRISPR system into a programmable transcriptional repressor, providing a new biotechnological tool for genetic studies of bacteria encoding this type I-E CRISPR-Cas system. IMPORTANCE The CRISPR-Cas immune system provides bacteria with resistance to invasion by potentially harmful viruses, plasmids, and other foreign mobile genetic elements. This study presents the first structural and mechanistic insight into a phage-encoded protein that inactivates the type I-E CRISPR-Cas system in Pseudomonas aeruginosa. The interaction of this anti-CRISPR protein with the CRISPR-associated helicase/nuclease proteins Cas3 shuts down the CRISPR-Cas system and protects phages carrying this gene from destruction. This interaction also allows the repurposing of the endogenous type I-E CRISPR system into a programmable transcriptional repressor, providing a new biotechnological tool for genetic studies of bacteria encoding this type I-E CRISPR-Cas system.

scholarly journals Draft Genome Sequence of the Extensively Drug-Resistant Pseudomonas aeruginosa Clinical Isolate TUEPA7472

2018 ◽  
Vol 7 (12) ◽  
Author(s):  
Henrike Miess ◽  
Ghazaleh Jahanshah ◽  
Heike Brötz-Oesterhelt ◽  
Matthias Willmann ◽  
Silke Peter ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Genome Sequence ◽  
Draft Genome ◽  
Resistance Mechanisms ◽  
Draft Genome Sequence ◽  
Drug Resistant ◽  
Gram Negative ◽  
Content Type ◽  
Extensively Drug Resistant ◽  
Insight Into

Pseudomonas aeruginosa TUEPA7472 is extensively drug resistant (XDR) and is a representative Gram-negative rod that is multiresistant toward 4 classes of clinically relevant antibiotics (4MRGN). The 6.8-Mb draft genome sequence of this strain provides insight into these resistance mechanisms and the potential of the strain to produce virulence factors.

Insight on esterase from Pseudomonas aeruginosa strain S3 that depolymerize poly(lactic acid) (PLA) at ambient temperature

2020 ◽  
Vol 174 ◽  
pp. 109096 ◽  
Author(s):  
Hazrat Noor ◽  
Sadia Mehmood Satti ◽  
Salah ud Din ◽  
Muhammad Farman ◽  
Fariha Hasan ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Lactic Acid ◽  
Ambient Temperature ◽  
Poly Lactic Acid

scholarly journals Draft Genome Sequence of the Immunobiotic Strain Lactobacillus jensenii TL2937

2017 ◽  
Vol 5 (9) ◽  
Author(s):  
Julio Villena ◽  
Yuki Masumizu ◽  
Hikaru Iida ◽  
Wakako Ikeda-Ohtsubo ◽  
Leonardo Albarracin ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Draft Genome ◽  
Protein Coding ◽  
Coding Sequences ◽  
Content Type ◽  
Lactobacillus Jensenii ◽  
Immunomodulatory Properties ◽  
Genome Information ◽  
Insight Into ◽  
Gaining Insight

ABSTRACT The genome of the immunomodulatory strain Lactobacillus jensenii TL2937 is described here. The draft genome has a total length of 1,678,416 bp, a G+C content of 34.3%, and 1,470 predicted protein-coding sequences. The genome information will be useful for gaining insight into the immunomodulatory properties of the TL2937 strain in the porcine host.

scholarly journals Genome Sequence of Janthinobacterium sp. CG23_2, a Violacein-Producing Isolate from an Antarctic Supraglacial Stream

2016 ◽  
Vol 4 (1) ◽  
Author(s):  
Heidi J. Smith ◽  
Christine M. Foreman ◽  
Tatsuya Akiyama ◽  
Michael J. Franklin ◽  
Nicolas P. Devitt ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Tolerance Mechanisms ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Uv Tolerance ◽  
Candidate Protein ◽  
Insight Into

Here, we present the draft genome sequence for the violacein-producing Janthinobacterium sp. CG23_2 isolated from an Antarctic supraglacial stream. The genome is ~7.85 Mb, with a G+C content of 63.5%. The genome includes 7,247 candidate protein coding genes, which may provide insight into UV tolerance mechanisms.

Sign in / Sign up

Export Citation Format

Share Document