High quality draft genome sequence of Olivibacter sitiensis type strain (AW-6T), a diphenol degrader with genes involved in the catechol pathway

Abstract

Olivibacter sitiensis Ntougias et al. 2007 is a member of the family Sphingobacteriaceae, phylum Bacteroidetes. Members of the genus Olivibacter are phylogenetically diverse and of significant interest. They occur in diverse habitats, such as rhizosphere and contaminated soils, viscous wastes, composts, biofilter clean-up facilities on contaminated sites and cave environments, and they are involved in the degradation of complex and toxic compounds. Here we describe the features of O. sitiensis AW-6T, together with the permanent-draft genome sequence and annotation. The organism was sequenced under the Genomic Encyclopedia for Bacteria and Archaea (GEBA) project at the DOE Joint Genome Institute and is the first genome sequence of a species within the genus Olivibacter. The genome is 5,053,571 bp long and is comprised of 110 scaffolds with an average GC content of 44.61%. Of the 4,565 genes predicted, 4,501 were protein-coding genes and 64 were RNA genes. Most protein-coding genes (68.52%) were assigned to a putative function. The identification of 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase-coding genes indicates involvement of this organism in the catechol catabolic pathway. In addition, genes encoding for β-1,4-xylanases and β-1,4-xylosidases reveal the xylanolytic action of O. sitiensis.

Diet Transition from High-Forage to High-Concentrate Alters Rumen Bacterial Community Composition, Epithelial Transcriptomes and Ruminal Fermentation Parameters in Dairy Cows

“…Whitehead [ 99 ] emphasized that Prevotella species in the rumen could contribute to cell wall degradation through synergistic interactions with various species of cellulolytic bacteria. Moreover, the research of Ntougias et al [ 100 ] revealed that Olivibacter sitiensis is a xylanolytic bacterium which is involved in the cleavage of β -1,4-xylosic bonds in hemicelluloses. This statement supported the abundance of O. sitiensis in the present study, which is also observed during a high-forage diet condition.…”

Bacterial ecotoxicity and shifts in bacterial communities associated with the removal of ibuprofen, diclofenac and triclosan in biopurification systems

“…This enrichment was reflected by the dominant family Sphingobacteriaceae, especially of the abundant OTU AB267714.1.1482 belonging to the genus Olivibacter. Strains belonging to this genus have been found to be involved in the degradation of phenanthrene (Villaverde et al, 2019) or diphenol (Ntougias et al, 2014). On the other hand, treatment with TCS caused a decline in members of the class Cytophagia at and days by 3.4% and 3.9% respectively, but then increased by 6.5% at day 50 (Fig.…”

Bioaugmentation of PAH-Contaminated Soils With Novel Specific Degrader Strains Isolated From a Contaminated Industrial Site. Effect of Hydroxypropyl-β-Cyclodextrin as PAH Bioavailability Enhancer

“…was identified and characterized for first time during the process of production of olive oil (Ntougias et al, 2007). Different species of the genus Olivibacter can be found in contaminated soils, wastes and cave environments, which can be able to degrade complex and toxic chemicals (Ntougias et al, 2015). Szabó et al (2011) isolated a novel strain capable of degrading hydrocarbons, Olivibacter oleidegradans , from a clean-up facility (biofilter) in a hydrocarbon contaminated site.…”