A rare thioquinolobactin siderophore present in a bioactive Pseudomonas sp. DTU12.1

Pavelas Sazinas, Morten Lindqvist Hansen, May Iren Aune, Marie Højmark Fischer, Lars Jelsbak*

*Corresponding author for this work

Research output: Contribution to journalJournal articleResearchpeer-review

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Abstract

Many of the soil-dwelling Pseudomonas species are known to produce secondary metabolite compounds, which can have antagonistic activity against other microorganisms, including important plant pathogens. It is thus of importance to isolate new strains of Pseudomonas and discover novel or rare gene clusters encoding bioactive products. In an effort to accomplish this, we have isolated a bioactive Pseudomonas strain DTU12.1 from leaf-covered soil in Denmark. Following genome sequencing with Illumina and Oxford Nanopore technologies, we generated a complete genome sequence with the length of 5,943,629 base pairs. The DTU12.1 strain contained a complete gene cluster for a rare thioquinolobactin siderophore, which was previously described as possessing bioactivity against oomycetes and several fungal species. We placed the DTU12.1 strain within Pseudomonas gessardii subgroup of fluorescent pseudomonads, where it formed a distinct clade with other Pseudomonas strains, most of which also contained a complete thioquinolobactin gene cluster. Only two other Pseudomonas strains were found to contain the gene cluster, though they were present in a different phylogenetic clade and were missing a transcriptional regulator of the whole cluster. We show that having the complete genome sequence and establishing phylogenetic relationships with other strains can enable us to start evaluating the distribution and evolutionary origins of secondary metabolite clusters.
Original languageEnglish
Article numberevz267
JournalGenome Biology and Evolution
Volume11
Issue number12
Pages (from-to)3529-3533
Number of pages5
ISSN1759-6653
DOIs
Publication statusPublished - 2019

Keywords

  • Pseudomonas
  • Whole genome sequencing
  • Secondary metabolite
  • Siderophore
  • Biosynthetic gene cluster
  • Biocontrol

Cite this

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title = "A rare thioquinolobactin siderophore present in a bioactive Pseudomonas sp. DTU12.1",
abstract = "Many of the soil-dwelling Pseudomonas species are known to produce secondary metabolite compounds, which can have antagonistic activity against other microorganisms, including important plant pathogens. It is thus of importance to isolate new strains of Pseudomonas and discover novel or rare gene clusters encoding bioactive products. In an effort to accomplish this, we have isolated a bioactive Pseudomonas strain DTU12.1 from leaf-covered soil in Denmark. Following genome sequencing with Illumina and Oxford Nanopore technologies, we generated a complete genome sequence with the length of 5,943,629 base pairs. The DTU12.1 strain contained a complete gene cluster for a rare thioquinolobactin siderophore, which was previously described as possessing bioactivity against oomycetes and several fungal species. We placed the DTU12.1 strain within Pseudomonas gessardii subgroup of fluorescent pseudomonads, where it formed a distinct clade with other Pseudomonas strains, most of which also contained a complete thioquinolobactin gene cluster. Only two other Pseudomonas strains were found to contain the gene cluster, though they were present in a different phylogenetic clade and were missing a transcriptional regulator of the whole cluster. We show that having the complete genome sequence and establishing phylogenetic relationships with other strains can enable us to start evaluating the distribution and evolutionary origins of secondary metabolite clusters.",
keywords = "Pseudomonas, Whole genome sequencing, Secondary metabolite, Siderophore, Biosynthetic gene cluster, Biocontrol",
author = "Pavelas Sazinas and Hansen, {Morten Lindqvist} and Aune, {May Iren} and Fischer, {Marie H{\o}jmark} and Lars Jelsbak",
year = "2019",
doi = "10.1093/gbe/evz267",
language = "English",
volume = "11",
pages = "3529--3533",
journal = "Genome Biology and Evolution",
issn = "1759-6653",
publisher = "Oxford University Press",
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A rare thioquinolobactin siderophore present in a bioactive Pseudomonas sp. DTU12.1. / Sazinas, Pavelas; Hansen, Morten Lindqvist; Aune, May Iren; Fischer, Marie Højmark; Jelsbak, Lars.

In: Genome Biology and Evolution, Vol. 11, No. 12, evz267, 2019, p. 3529-3533.

Research output: Contribution to journalJournal articleResearchpeer-review

TY - JOUR

T1 - A rare thioquinolobactin siderophore present in a bioactive Pseudomonas sp. DTU12.1

AU - Sazinas, Pavelas

AU - Hansen, Morten Lindqvist

AU - Aune, May Iren

AU - Fischer, Marie Højmark

AU - Jelsbak, Lars

PY - 2019

Y1 - 2019

N2 - Many of the soil-dwelling Pseudomonas species are known to produce secondary metabolite compounds, which can have antagonistic activity against other microorganisms, including important plant pathogens. It is thus of importance to isolate new strains of Pseudomonas and discover novel or rare gene clusters encoding bioactive products. In an effort to accomplish this, we have isolated a bioactive Pseudomonas strain DTU12.1 from leaf-covered soil in Denmark. Following genome sequencing with Illumina and Oxford Nanopore technologies, we generated a complete genome sequence with the length of 5,943,629 base pairs. The DTU12.1 strain contained a complete gene cluster for a rare thioquinolobactin siderophore, which was previously described as possessing bioactivity against oomycetes and several fungal species. We placed the DTU12.1 strain within Pseudomonas gessardii subgroup of fluorescent pseudomonads, where it formed a distinct clade with other Pseudomonas strains, most of which also contained a complete thioquinolobactin gene cluster. Only two other Pseudomonas strains were found to contain the gene cluster, though they were present in a different phylogenetic clade and were missing a transcriptional regulator of the whole cluster. We show that having the complete genome sequence and establishing phylogenetic relationships with other strains can enable us to start evaluating the distribution and evolutionary origins of secondary metabolite clusters.

AB - Many of the soil-dwelling Pseudomonas species are known to produce secondary metabolite compounds, which can have antagonistic activity against other microorganisms, including important plant pathogens. It is thus of importance to isolate new strains of Pseudomonas and discover novel or rare gene clusters encoding bioactive products. In an effort to accomplish this, we have isolated a bioactive Pseudomonas strain DTU12.1 from leaf-covered soil in Denmark. Following genome sequencing with Illumina and Oxford Nanopore technologies, we generated a complete genome sequence with the length of 5,943,629 base pairs. The DTU12.1 strain contained a complete gene cluster for a rare thioquinolobactin siderophore, which was previously described as possessing bioactivity against oomycetes and several fungal species. We placed the DTU12.1 strain within Pseudomonas gessardii subgroup of fluorescent pseudomonads, where it formed a distinct clade with other Pseudomonas strains, most of which also contained a complete thioquinolobactin gene cluster. Only two other Pseudomonas strains were found to contain the gene cluster, though they were present in a different phylogenetic clade and were missing a transcriptional regulator of the whole cluster. We show that having the complete genome sequence and establishing phylogenetic relationships with other strains can enable us to start evaluating the distribution and evolutionary origins of secondary metabolite clusters.

KW - Pseudomonas

KW - Whole genome sequencing

KW - Secondary metabolite

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KW - Biosynthetic gene cluster

KW - Biocontrol

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