The Complete Genome Sequence of the Plant Growth-Promoting Bacterium Pseudomonas sp. UW4

Abstract

The plant growth-promoting bacterium (PGPB) Pseudomonas sp. UW4, previously isolated from the rhizosphere of common reeds growing on the campus of the University of Waterloo, promotes plant growth in the presence of different environmental stresses, such as flooding, high concentrations of salt, cold, heavy metals, drought and phytopathogens. In this work, the genome sequence of UW4 was obtained by pyrosequencing and the gaps between the contigs were closed by directed PCR. The P. sp. UW4 genome contains a single circular chromosome that is 6,183,388 bp with a 60.05% G+C content. The bacterial genome contains 5,423 predicted protein-coding sequences that occupy 87.2% of the genome. Nineteen genomic islands (GIs) were predicted and thirty one complete putative insertion sequences were identified. Genes potentially involved in plant growth promotion such as indole-3-acetic acid (IAA) biosynthesis, trehalose production, siderophore production, acetoin synthesis, and phosphate solubilization were determined. Moreover, genes that contribute to the environmental fitness of UW4 were also observed including genes responsible for heavy metal resistance such as nickel, copper, cadmium, zinc, molybdate, cobalt, arsenate, and chromate. Whole-genome comparison with other completely sequenced Pseudomonas strains and phylogeny of four concatenated “housekeeping” genes (16S rRNA, gyrB, rpoB and rpoD) of 128 Pseudomonas strains revealed that UW4 belongs to the fluorescens group, jessenii subgroup.

Characterization of a Nitrilase and a Nitrile Hydratase from Pseudomonas sp. Strain UW4 That Converts Indole-3-Acetonitrile to Indole-3-Acetic Acid

“…Pseudomonas sp. UW4 (22) was grown and maintained aerobically at 30°C in tryptic soy broth (Bacto) supplemented with 100 g of ampicillin/ml. All E. coli strains were maintained aerobically at 37°C in Luria-Bertani broth (Fischer Bioreagents).…”

“…N771, N774 and Pseudomonas chlororaphis B23 (55). The UW4 iron-type nitrile hydratase does not require an activator protein for activity, although there is a putative P47K activator protein encoded directly downstream of the ␤-subunit (22). However, at this time the possibility that P47K is involved in iron trafficking or modulating the activity of the UW4 nitrile hydratase cannot be ruled out.…”

“…UW4, has recently been completely sequenced (22). Several genes that encode enzymes potentially involved in the biosynthesis of IAA were identified (22).…”

Indole-3-acetic acid (IAA) producing Pseudomonas isolates inhibit seed germination and α-amylase activity in durum wheat (Triticum turgidum L.)

“…), UW4 (Pseudomonas putida) (Glick, 1995;Duan et al, 2013) have been described previously and isolates 550 (Pseudomonas fluorescens) and 57 (Pseudomonas sp.) were obtained from the Department of Soil Sciences, University of Tehran, Iran.…”

Nitrile-Degrading Bacteria Isolated from Compost

“…The aliphatic nitrilase (BSF40_48900) showed highest similarity to a nitrilase of Pseudomonas sp. UW4 (Duan et al, 2013), while the other nitrilase (BSF40_42250) most resembles a nitrilase of Pseudomonas sp. GM48 (Brown et al, 2012).…”