Genomic analysis of the potential for aromatic compounds biodegradation in Burkholderiales

D Pérez‐Pantoja, R Donoso, L Agulló… - Environmental …, 2012 - Wiley Online Library
The relevance of the β‐proteobacterial Burkholderiales order in the degradation of a vast
array of aromatic compounds, including several priority pollutants, has been largely …

Detecting genomic islands using bioinformatics approaches

MGI Langille, WWL Hsiao, FSL Brinkman - Nature Reviews …, 2010 - nature.com
Bacterial genomes contain clusters of genes that are acquired by horizontal transfer, called
genomic islands (GIs). GIs are frequently associated with microbial adaptations that are of …

IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets

C Bertelli, MR Laird, KP Williams… - Nucleic acids …, 2017 - academic.oup.com
Abstract IslandViewer (http://www. pathogenomics. sfu. ca/islandviewer/) is a widely-used
webserver for the prediction and interactive visualization of genomic islands (GIs, regions of …

Structure, function and diversity of the healthy human microbiome

nature, 2012 - nature.com
Studies of the human microbiome have revealed that even healthy individuals differ
remarkably in the microbes that occupy habitats such as the gut, skin and vagina. Much of …

Ecology of marine Bacteroidetes: a comparative genomics approach

B Fernández-Gómez, M Richter, M Schüler… - The ISME …, 2013 - academic.oup.com
Bacteroidetes are commonly assumed to be specialized in degrading high molecular weight
(HMW) compounds and to have a preference for growth attached to particles, surfaces or …

CRISPRTarget: bioinformatic prediction and analysis of crRNA targets

A Biswas, JN Gagnon, SJJ Brouns, PC Fineran… - RNA biology, 2013 - Taylor & Francis
The bacterial and archaeal CRISPR/Cas adaptive immune system targets specific
protospacer nucleotide sequences in invading organisms. This requires base pairing …

Pseudomonas Genome Database: improved comparative analysis and population genomics capability for Pseudomonas genomes

GL Winsor, DKW Lam, L Fleming, R Lo… - Nucleic acids …, 2010 - academic.oup.com
Pseudomonas is a metabolically-diverse genus of bacteria known for its flexibility and
leading free living to pathogenic lifestyles in a wide range of hosts. The Pseudomonas …

Biodegradation of naphthalene, BTEX, and aliphatic hydrocarbons by Paraburkholderia aromaticivorans BN5 isolated from petroleum-contaminated soil

Y Lee, Y Lee, CO Jeon - Scientific reports, 2019 - nature.com
To isolate bacteria responsible for the biodegradation of naphthalene, BTEX (benzene,
toluene, ethylbenzene, and o-, m-, and p-xylene), and aliphatic hydrocarbons in petroleum …

IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis

BK Dhillon, MR Laird, JA Shay, GL Winsor… - Nucleic acids …, 2015 - academic.oup.com
Abstract IslandViewer (http://pathogenomics. sfu. ca/islandviewer) is a widely used web-
based resource for the prediction and analysis of genomic islands (GIs) in bacterial and …

Diverse alkane hydroxylase genes in microorganisms and environments

Y Nie, CQ Chi, H Fang, JL Liang, SL Lu, GL Lai… - Scientific reports, 2014 - nature.com
AlkB and CYP153 are important alkane hydroxylases responsible for aerobic alkane
degradation in bioremediation of oil-polluted environments and microbial enhanced oil …