Polynucleobacter meluiroseus sp. nov., a bacterium isolated from a lake located in the mountains of the Mediterranean island of Corsica

Pitt, Alexandra; Schmidt, Johanna; Lang, Elke; Whitman, William B.; Woyke, Tanja; Hahn, Martin W.

doi:10.1099/ijsem.0.002777

Cited by 19 publications

(24 citation statements)

References 43 publications

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“…However, the endosymbiotic strains are characterized by relatively high numbers of pseudogenes [27]. Among the five Polynucleobacter species not affiliated with subcluster PnecC, the P. cosmopolitanus (1.78 Mbp) and P. victoriensis (1.63 Mbp) type strains exhibit genome sizes within the range of the six investigated F15 strains [28]. On the other hand, G+C values of the genomes of the six new strains (45.6-46.1%) fall well within the narrow range previously reported for the other described species of subcluster PnecC (Table 2) and are higher than those of the P. cosmopolitanus (44.1%) and P. victoriensis (43.1%) type strains.…”

Section: Genomic Characterizationmentioning

confidence: 99%

“…S2). A much better phylogenetic resolution was obtained by analyses based on an alignment of 319 shared genes as described previously [28]. Briefly, nucleotide sequences of 319 genes shared by all Polynucleobacter type strains and Cupriavidus metallidurans CH34 T were extracted from genome sequences and aligned by using the software MAFFT [33].…”

Section: Phylogenymentioning

confidence: 99%

“…The phenotypic and chemotaxonomic characterization of three strains representing taxon F15 was performed as described previously [28, 37]. Because of the inferred phylogenetic distances between the six new strains and the previously investigated type strains (Fig.…”

Section: Phenotypic and Chemotaxonomic Characterizationmentioning

confidence: 99%

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Polynucleobacter paneuropaeus sp. nov., characterized by six strains isolated from freshwater lakes located along a 3000 km north–south cross-section across Europe

Hoetzinger

Schmidt

Pitt

et al. 2019

International Journal of Systematic and Evolutionary Microbiology

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Six Polynucleobacter (Burkholderiaceae, Betaproteobacteria) strains isolated from different freshwater lakes located across Europe were taxonomically investigated. Phylogenetic analyses based on 16S rRNA gene sequences assigns all six strains to the cryptic species complex PnecC within the genus Polynucleobacter. Analyses of partial glutamine synthetase (glnA) genes suggests that all six strains belong to the species-like taxon designated F15 in previous papers. Comparative genome analyses reveal that the six strains form a genomically coherent group characterized by whole-genome average nucleotide identity (gANI) values of > 98% but separated by gANI values of < 88% from the type strains and representatives of the 16 previously described Polynucleobacter species. In phylogenetic analyses based on nucleotide sequences of 319 orthologous genes, the six strains represent a monophyletic cluster that is clearly separated from all other described species. Genome sizes of the six strains range from 1.61 to 1.83 Mbp, which is smaller than genome sizes of the majority of type strains representing previously described Polynucleobacter species. By contrast, G+C content of the DNA of the strains is well in the range of 44.8-46.6 mol% previously found for other type strains of species affiliated with the subgroup PnecC. Variation among the six strains representing the new species is evident in a number of traits. These include gene content differences, for instance regarding a gene cluster encoding anoxygenic photosynthesis, as well as phenotypic traits. We propose to name the new species represented by the six strains P. paneuropaeus sp. nov. and designate strain MG-25-Pas1-D2T (=DSM 103454T =CIP 111323T) as the type strain.

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Section: Genomic Characterizationmentioning

confidence: 99%

Section: Phylogenymentioning

confidence: 99%

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Polynucleobacter paneuropaeus sp. nov., characterized by six strains isolated from freshwater lakes located along a 3000 km north–south cross-section across Europe

Hoetzinger

Schmidt

Pitt

et al. 2019

International Journal of Systematic and Evolutionary Microbiology

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“…Nevertheless, they differed in their gene content from all other type strains affiliated with subcluster PnecC, even from the closest related type strain P. wuianus QLW-P1FAT50C-4 T (Fig. 1, Table 2) [3, 18, 21, 22, 25]. Genome sizes of strains MWH-EgelM1-30-B4 T and MWH-Feld-100 T were 2.01 and 1.98 Mbp, respectively, and G+C contents were 45.3 and 45.2 mol%, respectively.…”

Section: Genomic Characterizationmentioning

confidence: 99%

“…Unusual traits of Polynucleobacter bacteria are their ability to penetrate 0.2 µm filters [16] and only weak growth in standard media as compared to their closest relatives [17]. Furthermore, some Polynucleobacter strains possess genes putatively encoding an apparatus for anoxygenic photosynthesis [18–20] or proteorhodopsins [21, 22]. Recent investigations revealed that a part of the genus Polynucleobacter named subcluster PnecC [23] represents a large cryptic species complex not resolvable by analyses of 16S rRNA gene sequences [3, 19].…”

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confidence: 99%

Polynucleobacter hirudinilacicola sp. nov. and Polynucleobacter campilacus sp. nov., both isolated from freshwater systems

Hahn

Koll

Schmidt

et al. 2018

International Journal of Systematic and Evolutionary Microbiology

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Strains MWH-EgelM1-30-B4 and MWH-Feld-100 were isolated from the water columns of two freshwater systems. Both strains represent delicate bacteria not easy to work with in laboratory experiments. Phylogenetic analyses of the 16S rRNA genes suggested that both strains were affiliated with the genus Polynucleobacter. Both strains share 16S rRNA gene sequence similarities of >99 % with eight free-living Polynucleobacter type strains, all affiliated with the cryptic species complex PnecC. The full-length 16S rRNA gene sequences of the two strains differ only in two and three positions, respectively, from the sequence of the closest related Polynucleobacter type strain. Genome sequencing of both strains revealed relatively small genome sizes of 2.0 Mbp and G+C contents of 45 mol%. Phylogenetic analyses based on nucleotide sequences of 319 shared protein-encoding genes consistently placed the two strains in taxon PnecC but did not suggest an affiliation with one of the previously described species. Pairwise analyses of whole genome average nucleotide identities (gANI) with representatives of all previously described Polynucleobacter species resulted in both cases throughout in values <80 %. Pairwise comparison of the genomes of the two new strains resulted in gANI values of 83.3 %. All gANI analyses clearly suggested that strains MWH-EgelM1-30-B4 and MWH-Feld-100 represent two novel Polynucleobacter species. We propose for these novel species the names Polynucleobacter hirudinilacicola sp. nov. and Polynucleobacter campilacus sp. nov. and strains MWH-EgelM1-30-B4 (=DSM 23911=LMG 30144) and MWH-Feld-100 (=DSM 24007=LMG 29705) as the type strains, respectively.

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P olynucleobacter

Hahn

Hoetzinger

2019

Bergey's Manual of Systematics of Archaea and Bacteria

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Po.ly.nu.cle.o.bac'ter. Gr. adj. polys, many, numerous; L. masc. n. nucleus, a little nut, kernel; N.L. masc. n. bacter, a rod; N.L. masc. n. polynucleobacter, the rod (bacterium) with many nucleoids. Proteobacteria / Betaproteobacteria / Burkholderiales / Burkholderiaceae / Polynucleobacter The genus Polynucleobacter harbors bacteria with distinct lifestyles, dwelling either as free‐living organisms contributing to bacterioplankton in the water columns of freshwater systems or as obligate endosymbionts in the cytoplasm of ciliates ( Euplotes ). Obligate endosymbionts represent derived evolutionary stages of the primary free‐living strains. Polynucleobacter bacteria are cosmopolitan and ubiquitous in freshwater systems, which means, they dwell in freshwater systems worldwide and are omnipresent at least in lakes and ponds but frequently also dwell in running waters. Planktonic Polynucleobacter are abundant in many lakes and ponds, especially in acidic waters. Investigations on a broad variety of systems reported relative abundances of Polynucleobacter bacteria in the range of <1% up to 60% of bacterioplankton. The strains are usually characterized by small genomes of 1.5–2.5 Mb with medium G + C contents of 40–50 mol%. Cultivated strains require complex media and grow as aerobic chemoorganoheterotrophs; however, some strains contain genes putatively encoding anoxygenic photosynthesis or proteorhodopsins. Free‐living strains form small circular convex colonies with shiny surface on agar plates, and usually lack pigmentation. The majority of strains are characterized by small cell sizes and appear as curved or straight rods. Currently (August 2018), the genus contains 16 described species including one endosymbiotic taxon. DNA G + C content of P. necessarius 47.7 mol% (melting point profile) and 44.9 mol% (buoyant density). Type species : Polynucleobacter necessarius Heckmann and Schmidt 1987, 457 VP .

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Polynucleobacter meluiroseus sp. nov., a bacterium isolated from a lake located in the mountains of the Mediterranean island of Corsica

Cited by 19 publications

References 43 publications

Polynucleobacter paneuropaeus sp. nov., characterized by six strains isolated from freshwater lakes located along a 3000 km north–south cross-section across Europe

Polynucleobacter paneuropaeus sp. nov., characterized by six strains isolated from freshwater lakes located along a 3000 km north–south cross-section across Europe

Polynucleobacter hirudinilacicola sp. nov. and Polynucleobacter campilacus sp. nov., both isolated from freshwater systems

P olynucleobacter

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