First high-quality draft genome of Ochrobactrum haematophilum P6BS-III, a highly glyphosate-tolerant strain isolated from agricultural soil in Argentina
- 6 Downloads
We report here on a high-quality draft genome sequence of Ochrobactrum haematophilum strain P6BS-III (DSM 106071), a Gram negative, non-sporulating bacterium isolated from a pastureland (Buenos Aires province, Argentina) which had been chronically exposed to the herbicide glyphosate. The genome of 5.25 Mb with a DNA G+C content of 56.63% size was estimated to contain 5,291 protein coding genes and 57 RNA genes. Genome analysis revealed the presence of the phn operon, which is involved in the phosphonate degradation pathway, and a class II 5-enolpyruvylshikimate-3-phosphate synthase (EPSP) that confers tolerance to glyphosate. Genes related to plant growth promotion traits are also present, and include genes for phosphorus metabolism, calcium phosphate and phytate solubilization, siderophore production, organic acid biosynthesis and indole acetic acid (IAA) production.
KeywordsGlyphosate Ochrobactrum haematophilum 5-Enolpyruvylshikimate-3-phosphate synthase Soil contamination Plant growth promotion
Clusters of orthologous genes
FM is supported through the joint PhD BOF program of Hasselt University and together with ST financially supported by the Methusalem project 08M03VGRJ. BM and JVH are supported by the Natural Sciences and Engineering Research Council of Canada.
- Abraham J, Silambarasan S (2016) Biodegradation of chlorpyrifos and its hydrolysis product 3,5,6-trichloro-2-pyridinol using a novel bacterium Ochrobactrum sp. JAS2: a proposal of its metabolic pathway. Pestic Biochem Physiol 126:13–21. https://doi.org/10.1016/j.pestbp.2015.07.001 CrossRefPubMedGoogle Scholar
- An R, Moe LA (2016) Regulation of PQQ-dependent glucose dehydrogenase activity in the model rhizosphere dwelling bacterium Pseudomonas putida KT2440. Appl Environ Microbiol 82:AEM.00813-16. https://doi.org/10.1128/AEM.00813-16
- Cockerill FR, Wilker MA, Alder J et al (2012) Methods for dilution antimicrobial susceptibility tests for bacteria that grow aerobically; Approved Standard—Ninth Edition. Wayne, PAGoogle Scholar
- Ermakova IT, Shushkova TV, Leont’evskii a. a. (2008) Microbial degradation of organophosphonates by soil bacteria. Microbiology 77:615–620. https://doi.org/10.1134/S0026261708050160
- Huerta-Cepas J, Forslund K, Szklarczyk D et al (2016) Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper. bioRxiv. https://doi.org/10.1101/076331
- Jorquera MA, Hernández MT, Rengel Z et al (2008) Isolation of culturable phosphobacteria with both phytate-mineralization and phosphate-solubilization activity from the rhizosphere of plants grown in a volcanic soil. Biol Fertil Soils 44:1025. https://doi.org/10.1007/s00374-008-0288-0 CrossRefGoogle Scholar
- Pearson WR (2013) An introduction to sequence similarity (“homology”) searching. Curr Protoc Bioinforma 1–8. https://doi.org/10.1002/0471250953.bi0301s42
- Williams T, Kelley C (2011) Gnuplot 4.4. 1–225Google Scholar