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Pigmentiphaga Kullae Gen. Nov., Sp. Nov., a Novel Member of the Family

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Pigmentiphaga Kullae Gen. Nov., Sp. Nov., a Novel Member of the Family International Journal of Systematic and Evolutionary Microbiology (2001), 51, 1867–1871 Printed in Great Britain Pigmentiphaga kullae gen. nov., sp. nov., a NOTE novel member of the family Alcaligenaceae with the ability to decolorize azo dyes aerobically 1 Institut fu$ r Mikrobiologie, Silke Blu$ mel,1 Barbara Mark,2 Hans-Ju$ rgen Busse,2,3 Peter Ka$ mpfer4 and Universita$ t Stuttgart, 1 Allmandring 31, D-70569 Andreas Stolz Stuttgart, Germany 2 Institut fu$ r Bakteriologie, Author for correspondence: Andreas Stolz. Tel: j49 711 6855489. Fax: j49 711 6855725. Mykologie und Hygiene, e-mail: andreas.stolz!po.uni-stuttgart.de Veterina$ rmedizinische Universita$ t Wien, Veterina$ rplatz 1, A-1210 Wien, Austria The taxonomic position of Pseudomonas strain K24, which was isolated previously after an aerobic enrichment with the azo compound 1-(4’- 3 Institut fu$ r Mikrobiologie und Genetik, Universita$ t carboxyphenylazo)-4-naphthol as the sole source of carbon and energy, was Wien, Dr Bohrgasse 9, investigated. The detection of a quinone system with ubiquinone Q-8 as the A-1030 Wien, Austria predominant compound and a polyamine pattern with putrescine and 2- 4 Institut fu$ r Angewandte hydroxyputrescine as the major polyamines present suggested that strain K24T Mikrobiologie, Justus- belongs to the β-subclass of the Proteobacteria. This was supported by Liebig-Universita$ t Giessen, Heinrich-Buff-Ring 26–32 sequencing the 16S rRNA gene, which demonstrated about 95–96% sequence (IFZ), D-35392 Giessen, similarity to different species of the genera Achromobacter, Alcaligenes and Germany Bordetella. This suggested that strain K24T is a member of the family Alcaligenaceae. The GMC content of the DNA was 685 mol%. Different methods for the construction of phylogenetic dendrograms placed strain K24T separate from the genera Alcaligenes, Achromobacter and Bordetella. Analysis of the fatty acids demonstrated the presence of 10:0 3-OH and high concentrations of summed feature 7 (18:1ω7c,18:1ω9t and/or 18:1ω12t) and 19:0 cycloω8c, which is unique among previously described species of the genera Alcaligenes, Achromobacter and Bordetella. On the basis of the low 16S rRNA sequence similarities, the composition of the fatty acid profile and unique phenotypic properties, a new genus and species is proposed for strain K24T with the name Pigmentiphaga kullae gen. nov., sp. nov. Keywords: Pigmentiphaga kullae, degradation, azo compounds, Alcaligenaceae One of the most impressive examples of the ability of of the Comamonadaceae, Xenophilus azovorans micro-organisms to adapt to the utilization of xeno- (Blu$ mel et al., 2001). In the present manuscript, the biotic compounds was a series of studies by Kulla taxonomic position of strain K24T was analysed using and colleagues on the continuous adaptation of a the methods described in the accompanying manu- mixed bacterial culture to the aerobic degradation script (Blu$ mel et al., 2001). Strain K24T was kindly of azo compounds (Kulla, 1981; Kulla et al., 1983, provided by T. Leisinger (ETH Zu$ rich, Switzerland). 1984). In these studies, two different bacterial strains It has been deposited at the German Collection of were isolated from the same inoculum that grew either Microorganisms and Cell Cultures (DSMZ, Braun- T with 1-(4h-carboxyphenylazo)-4-naphthol (‘carboxy- schweig, Germany) as DSM 13608 and at the T Orange I’) (strain K24 )or1-(4h-carboxyphenylazo)- National Collection of Industrial and Marine Bacteria 2-naphthol (‘carboxy-Orange II’) (strain KF46). In (Aberdeen, UK) as NCIMB 13708T. the accompanying publication, a descendant of strain T KF46 (strain KF46FT) is identified as a new member Strain K24 formed visible colonies (diameter of about 1 mm) on agar plates with LB medium within 3 d at 30, ................................................................................................................................................. 37 and 42 mC. No growth was found within 14 d at The GenBank accession number for the 16S rRNA gene sequence of strain 4 mC. The colonies were opaque, circular and convex K24T is AF282916. with an entire margin. The strain was oxidase- and 01832 # 2001 IUMS 1867 S. Blu$ mel and others ................................................................................................................................................................................................................................................................................................................. Fig. 1. Phylogenetic tree showing the relationship between Pigmentiphaga kullae K24T and selected strains from other bacterial taxa. The tree was constructed using the maximum-parsimony method. catalase-positive. Cells were motile, Gram-negative, was distinct from the three other genera within the non-spore-forming rods, about 2 µm in length. Alcaligenaceae (Table 1). T The GjC content of the genomic DNA of strain K24 Strain K24T displayed a quinone system that consisted was determined to be 68n5p0n3mol%. exclusively of ubiquinone Q-8. Analysis of the poly- T The 16S rRNA sequence of strain K24T, containing a amines revealed a pattern for strain K24 that is continuous stretch of 1482 bp (positions 46–1502 characteristic of taxa of the β-Proteobacteria, including according to the Escherichia coli numbering), was used members of the genera Alcaligenes and Achromobacter (Busse & Auling, 1988). Strain K24T displayed the to search the GenBank and Ribosomal Database −" major compounds putrescine (55n4 µmol g dry Project libraries. Sequence searches showed that strain −" K24T was most closely related phylogenetically to weight) and 2-hydroxyputrescine (40n9 µmol g dry representatives of the β-subclass of the Proteobacteria. weight), whereas 1,3-diaminopropane, cadaverine, spermidine and spermine were detected only in minor The results of the sequence similarity calculations −" indicated that the nearest relatives of strain K24T are amounts (0n03, 0n10, 0n22 and 0n02 µmol g dry weight, Achromobacter ruhlandii ATCC 15749T, Achromo- respectively). T T bacter xylosoxidans subsp. denitrificans ATCC 15173 Strain K24 contained the fatty acids 16:0 (39n9%), and Achromobacter xylosoxidans subsp. xylosoxidans T summed feature 3 (16:1 ISO I and 14:0 3-OH) (4n6%), ATCC 27061 (95n9–96n3% sequence similarity). Only summed feature 7 (18:1ω7c,18:1ω9t and\or 18: slightly lower sequence similarity values (95–95n8%) 1ω12t)(9n8%), 10:0 3-OH (2n9%), 14:0 2-OH (4n0%), were found to species from the genera Alcaligenes and T 16:0 2-OH (4n8%), 17:0 cyclo (21n9%) and 19:0 Bordetella. Thus, it was evident that strain K24 cycloω8c (12n2%). A fatty acid profile similar to that belongs to the family Alcaligenaceae as defined by De of strain K24T has not been described previously for Ley et al. (1986). Furthermore, a significant degree of any Bordetella, Achromobacter or Alcaligenes species sequence similarity (94n0%) was also observed to T (Foss et al., 1998; Oyaizu-Masuchi & Komagata, Taylorella equigenitalis NCTC 11184 . Dendrograms 1988; Vandamme et al., 1995, 1996). Among these were generated by using the maximum-parsimony, taxa, the presence of 10:0 3-OH is unique and, together maximum-likelihood and neighbour-joining methods with the detection of high concentrations of summed from the program package (Ludwig & Strunk, T T feature 7 and 19:0 cycloω8c, distinguishes strain K24 1997). The results of these trees grouped strain K24 clearly from any known species within this group. separately from the clades formed by the genera Achromobacter, Alcaligenes and Bordetella (Fig. 1). The polar lipid profile of strain K24T consisted of only This was also confirmed by an analysis of signature three compounds. Phosphatidylethanolamine was de- oligonucleotides, which demonstrated a pattern that tected as the major lipid and phosphatidylglycerol and 1868 International Journal of Systematic and Evolutionary Microbiology 51 Pigmentiphaga kullae gen. nov., sp. nov. Table 1. Pattern of selected 16S rRNA signature Recently, the genus Achromobacter was revived to nucleotides that define genera within the family accommodate Achromobacter xylosoxidans subsp. Alcaligenaceae xylosoxidans, Achromobacter xylosoxidans subsp. ................................................................................................................................................. denitrificans, Achromobacter ruhlandii and Achromo- Positions are given relative to the E. coli numbering. bacter piechaudii, assigned previously to the genus Nucleotides highlighted in bold indicate signature nucleotides Alcaligenes (Yabuuchi et al., 1998). Thus, the family that differentiate the respective genus from the other genera Alcaligenaceae contains the three genera Alcaligenes, within the family. The 16S rRNA genes from the following Achromobacter and Bordetella. Although not pro- organisms were analysed (accession numbers in parentheses): Achromobacter piechaudii ATCC 43552T (AB010841), posed so far, the genera Taylorella (Sugimoto et al., Achromobacter ruhlandii ATCC 15749T (AB010840), 1983) and Pelistega (Vandamme et al., 1998) may also Achromobacter xylosoxidans subsp. denitrificans ATCC be considered as members of the family due to their 15173T (M22509), Achromobacter xylosoxidans subsp. phylogenetic grouping close to Alcaligenes faecalis. xylosoxidans ATCC 27061T (D88005), Alcaligenes defragrans DSM 12141T (AJ005447), Alcaligenes faecalis ATCC 8750T The 16S rRNA sequence, the presence of ubiquinone (M22508), Alcaligenes sp. NKNTAU (U82826), Bordetella Q-8, putrescine
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