International Journal of Systematic and Evolutionary Microbiology (2013), 63, 3704–3709 DOI 10.1099/ijs.0.049734-0 Algibacter undariae sp. nov., isolated from a brown algae reservoir Sooyeon Park,1 Jung-Sook Lee,2 Keun-chul Lee2 and Jung-Hoon Yoon1 Correspondence J.-H. Yoon [email protected] 1 Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, South Korea 2 Korea Research Institute of Bioscience and Biotechnology (KRIBB), PO Box 115, Yuseong, Daejeon, South Korea A Gram-stain-negative, non-flagellated, rod-shaped bacterial strain able to move by gliding, designated WS-MY9T, was isolated from a brown algae reservoir in South Korea. Strain WSMY9T grew optimally at 25 6C, at pH 7.0–8.0 and in the presence of 2 % (w/v) NaCl. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain WS-MY9T clustered with the type strain of Algibacter lectus with a bootstrap resampling value of 100 %. Strain WS-MY9T exhibited 16S rRNA gene sequence similarity values of 98.5 and 96.7 % to the type strains of A. lectus and Algibacter mikhailovii, respectively, and less than 96.1 % sequence similarity to other members of the family Flavobacteriaceae. Strain WS-MY9T contained MK-6 as the predominant menaquinone and anteiso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G and iso-C15 : 0 as the major fatty acids. The major polar lipids of strain WS-MY9T were phosphatidylethanolamine and two unidentified lipids. The DNA G+C content of strain WSMY9T was 35.0 mol% and its DNA–DNA relatedness value with A. lectus KCTC 12103T was 15 %. The phylogenetic and genetic distinctiveness and differential phenotypic properties revealed that strain WS-MY9T is separate from the two recognized species of the genus Algibacter. On the basis of the data presented, strain WS-MY9T represents a novel species of the genus Algibacter, for which the name Algibacter undariae sp. nov. is proposed. The type strain is WS-MY9T (5KCTC 32259T5CCUG 63684T). The genus Algibacter, a member of the family Flavobacteriaceae in the phylum Bacteroidetes (Bernardet, 2011), was first proposed by Nedashkovskaya et al. (2004) with Algibacter lectus, isolated from green algae, as the type species. The second species of the genus Algibacter, Algibacter mikhailovii, was subsequently described following isolation from a sea urchin (Nedashkovskaya et al., 2007). Recently, Algibacter aquimarinus has been described and Algibacter pectinivorans reclassified as a member of the genus Algibacter (Park et al., 2013). In this study, a novel bacterial strain, designated WS-MY9T and isolated from brown algae collected from a reservoir located on Wando, an island of South Korea, is described. Comparative 16S rRNA gene sequence analysis indicated that strain WSMY9T was most closely related to members of the genus Algibacter. The aim of the present work was to determine the exact taxonomic position of strain WS-MY9T by using a polyphasic characterization that included the determination of phenotypic properties, a detailed phylogenetic The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain WS-MY9T is KC261664. A supplementary figure is available with the online version of this paper. 3704 investigation based on 16S rRNA gene sequences and genetic analysis. Strain WS-MY9T was isolated by the dilution plating technique at 25 uC on marine agar 2216 (MA; BD Difco) and cultivated routinely under the same conditions. Algibacter lectus KCTC 12103T and Algibacter mikhailovii LMG 23988T were used as reference strains for DNA–DNA hybridization, fatty acid and polar lipid analyses and a number of other phenotypic characterizations. Cell morphology and flagellation were examined by using light microscopy (BX51; Olympus) and transmission electron microscopy (JEM1010; JEOL), respectively. To assess flagellation, cells from an exponentially growing MA culture were negatively stained with 1 % (w/v) phosphotungstic acid and the grids were examined after being airdried. Gliding motility was investigated as described by Bowman (2000). The Gram reaction was determined by using the bioMérieux Gram-stain kit according to the manufacturer’s instructions. Growth under anaerobic conditions was determined after incubation for 10 days in an anaerobic jar (MGC) with AnaeroPack (MGC) on MA; the jar was kept overnight at 4 uC to create anoxic conditions before incubation at 25 uC. Growth at 4, 10, 20, Downloaded from www.microbiologyresearch.org by 049734 G 2013 IUMS IP: 88.99.165.207 On: Mon, 31 Jul 2017 22:44:33 Printed in Great Britain Algibacter undariae sp. nov. 25, 28, 30, 35, 37 and 40 uC was measured on MA. The pH range for growth was investigated in marine broth 2216 (MB; BD Difco) adjusted to pH 4.5–9.5 (in increments of 0.5 pH unit) by using sodium acetate/acetic acid and sodium carbonate buffers. The pH values were verified after autoclaving. Growth in the absence of NaCl and in the presence of 0.5, 1.0, 2.0 and 3.0 % (w/v) NaCl was investigated in trypticase soy broth prepared according to the formula of the BD Bacto medium except that NaCl was excluded and that 0.45 % (w/v) MgCl2 . 6H2O was added. Growth in the presence of 2.0–8.0 % (as final concentration, w/v, in increments of 1.0 %) NaCl was investigated in MB. Catalase and oxidase activities were determined as described by Lányı́ (1987). Hydrolysis of casein, starch, hypoxanthine, L-tyrosine and xanthine was tested on MA using the substrate concentrations described by Barrow & Feltham (1993). Hydrolysis of gelatin and urea was investigated by using Nutrient Gelatin medium (BD Difco) and Urea Agar Base medium (BD BBL), respectively, with the modification that artificial seawater was used for the preparation of media. Hydrolysis of aesculin and Tweens 20, 40, 60 and 80, and nitrate reduction were investigated as described by Lányı́ (1987) with the modification that artificial seawater was used for preparation of media. The artificial seawater contained (l21 distilled water) 23.6 g NaCl, 0.64 g KCl, 4.53 g MgCl2 . 6H2O, 5.94 g MgSO4 . 7H2O and 1.3 g CaCl2 . 2H2O (Bruns et al., 2001). H2S production was tested as described by Bruns et al. (2001). The presence of flexirubin-type pigments was investigated as described by Reichenbach (1992) and Bernardet et al. (2002). Utilization of substrates as sole carbon and energy sources was tested as described by Baumann & Baumann (1981), using supplementation with 2 % (v/v) Hutner’s mineral base (Cohen-Bazire et al., 1957) and 1 % (v/v) vitamin solution (Staley, 1968). Acid production from carbohydrates was tested as described by Leifson (1963). Susceptibility to antibiotics was tested on MA plates using antibiotic discs (Advantec) containing (mg per disc unless otherwise stated): ampicillin (10), carbenicillin (100), cephalothin (30), chloramphenicol (100), gentamicin (30), kanamycin (30), lincomycin (15), neomycin (30), novobiocin (5), oleandomycin (15), penicillin G (20 U), polymyxin B (100 U), streptomycin (50) and tetracycline (30). Enzyme activities were determined using the API ZYM system (bioMérieux), with the test strips incubated for 8 h at 25 uC. Morphological, cultural, physiological and biochemical properties of strain WSMY9T are given in the species description and in Table 1. Cell biomass of strain WS-MY9T for DNA extraction and for the analyses of isoprenoid quinones and polar lipids was obtained from cultures grown at 25 uC in MB. Cell biomass of A. lectus KCTC 12103T and A. mikhailovii LMG 23988T for DNA extraction and for polar lipid analysis was obtained from cultures grown at 25 uC in MB. Chromosomal DNA was isolated and purified according to the method described by Yoon et al. (1996), with the exception that RNase T1 was used in combination with http://ijs.sgmjournals.org RNase A to minimize contamination by RNA. The 16S rRNA gene was amplified by PCR as described previously (Yoon et al., 1998) using two universal primers, 9F (59GAGTTTGATCCTGGCTCAG-39) and 1512R (59-ACGGTTACCTTGTTACGACTT-39), and the PCR products were purified by using a QIAquick PCR purification kit (Qiagen). Sequencing of the amplified 16S rRNA gene and phylogenetic analysis were performed as described by Yoon et al. (2003). Isoprenoid quinones were extracted according to the method of Komagata & Suzuki (1987) and analysed using reversed-phase HPLC and a YMC ODS-A (25064.6 mm) column. The isoprenoid quinones were eluted by a mixture of methanol/2-propanol (2 : 1, v/v), using a flow rate of 1 ml min21 at room temperature and detected by UV absorbance at 270 nm. For cellular fatty acid analysis, cell mass of strain WS-MY9T, A. lectus KCTC 12103T and A. mikhailovii LMG 23988T was harvested from MA plates after cultivation for 3 days at 25 uC. The physiological age of the cell masses was standardized by observing the growth development of cells on the agar plates followed by harvesting them from the same quadrant on the plates for each strain according to the standard MIDI protocol (Sherlock Microbial Identification System, version 6.1). Fatty acids were saponified, methylated and extracted using the standard MIDI protocol (Sherlock Microbial Identification System, version 6.1). The fatty acids were analysed by GC (6890; Hewlett Packard) and identified by using the TSBA6 database of the Microbial Identification System (Sasser, 1990). Polar lipids were extracted according to the procedures described by Minnikin et al. (1984), and separated by two-dimensional TLC using chloroform/ methanol/water (65 : 25 : 3.8, by vol.) for the first dimension and chloroform/methanol/acetic acid/water (40 : 7.5 : 6 : 1.8, by vol.) for the second dimension as described by Minnikin et al. (1977). Individual polar lipids were identified by spraying the TLC plates with molybdophosphoric acid, molybdenum blue, ninhydrin and anaphthol reagents (Minnikin et al., 1984; Komagata & Suzuki, 1987) and with Dragendorff’s reagent (Sigma). The DNA G+C content was determined by the method of Tamaoka & Komagata (1984) with the modification that DNA was hydrolysed and the resultant nucleotides were analysed by reversed-phase HPLC equipped with a YMC ODS-A (25064.6 mm) column. The nucleotides were eluted by a mixture of 0.55 M NH4H2PO4 (pH 4.0) and acetonitrile (40 : 1, v/v), using a flow rate of 1 ml min21 at room temperature and detected by UV absorbance at 270 nm. DNA–DNA hybridization was performed fluorometrically at 45 uC by the method of Ezaki et al. (1989) using photobiotin-labelled DNA probes and microdilution wells. Hybridization was performed with five replications for each sample. DNA of strain WS-MY9T and A. lectus KCTC 12103T was used as probes for reciprocal hybridizations. The highest and lowest values obtained for each sample were excluded and the means of the remaining three values were quoted as DNA–DNA relatedness values. Downloaded from www.microbiologyresearch.org by IP: 88.99.165.207 On: Mon, 31 Jul 2017 22:44:33 3705 S. Park and others Table 1. Differential phenotypic characteristics of strain WSMY9T and the type strains of two species of the genus Algibacter Strains: 1, WS-MY9T; 2, A. lectus KCTC 12103T; 3, A. mikhailovii LMG 23988T. Data obtained from this study unless otherwise indicated. All strains are positive for the following: gliding motility*; catalase and oxidase activities*; hydrolysis of L-tyrosine; utilization of D-galactose, D-glucose, D-mannose and D-xylose; acid production from D-galactose, D-glucose, lactose, D-mannose and D-xylose; susceptibility to chloramphenicol, lincomycin, novobiocin and oleandomycin; and activity of alkaline phosphatase, [esterase (C4) and esterase lipase (C8) (weak for A. mikhailovii LMG 23988T)], leucine arylamidase and acid phosphatase. All strains are negative for the following: Gram stain; production of flexirubin-type pigments*; H2S production; hydrolysis of casein*, hypoxanthine, urea and xanthine; utilization of L-arabinose, trehalose, acetate, benzoate, citrate, formate, L-malate, pyruvate, succinate, L-glutamate and salicin; acid production from L-arabinose, melezitose, D-ribose, trehalose, myo-inositol and D-sorbitol; susceptibility to ampicillin, gentamicin, kanamycin, neomycin, polymyxin B and streptomycin; and activity of lipase (C14), trypsin, a-chymotrypsin, a-galactosidase, b-glucuronidase, b-glucosidase, a-mannosidase and a-fucosidase. +, Positive; –, negative; w, weakly positive. Characteristic 1 2 3 Growth at 37 uC Anaerobic growth Nitrate reduction Hydrolysis of: Aesculin Gelatin Starch Tweens 20 and 40 Tween 60 Tween 80 Utilization of: Cellobiose D-Fructose Maltose Sucrose Acid production from: Cellobiose D-Fructose Maltose Melibiose Raffinose L-Rhamnose Sucrose D-Mannitol Susceptibility to: Carbenicillin Cephalothin Penicillin G Tetracycline Enzyme activity (API ZYM) Valine arylamidase Cystine arylamidase – – – –* +* –* +* –* +* – – – + + + + +* +* +* + –* + +* –* –* – –* – + – – + + + + + – + – – + – + – – – + + + + + + + + + + – + – – – – – + + + – + + + + – – – + + – – – + w 3706 Table 1. cont. Characteristic Naphthol-AS-BI-phosphohydrolase b-Galactosidase a-Glucosidase N-Acetyl-b-glucosaminidase DNA G+C content (mol%) 1 2 3 + – + + 35.0 + + – + 31.9* – – – – 35.1* *Data for reference strains taken from Nedashkovskaya et al. (2004, 2007). The almost-complete 16S rRNA gene sequence of strain WS-MY9T comprised 1441 nt, representing approximately 95 % of the Escherichia coli 16S rRNA gene sequence. In the phylogenetic tree reconstructed using the neighbour-joining algorithm, strain WS-MY9T clustered with A. lectus KMM 3902T with a bootstrap resampling value of 100 %, and this cluster joined the cluster comprising the type strains of A. mikhailovii, Algibacter aquimarinus, Algibacter pectinivorans and Postechiella marina (Fig. 1). The relationship between strain WS-MY9T and A. lectus KMM 3902T was also maintained in the trees reconstructed using the maximum-likelihood and maximum-parsimony algorithms (Fig. 1). However, the cluster comprising strain WS-MY9T and A. lectus KMM 3902T might not form a monophyletic group with the cluster comprising the type strains of A. mikhailovii, A. aquimarinus and Algibacter pectinivorans, depending on which species are selected for the phylogenetic analysis (data not shown). Strain WSMY9T exhibited 16S rRNA gene sequence similarity values of 98.5, 96.7, 94.8, 96.1 and 94.2 % to A. lectus KMM 3902T, A. mikhailovii KMM 6171T, A. aquimarinus KYW589T, Algibacter pectinivorans JC2675T and Postechiella marina M091T, respectively, and of less than 95.5 % to those of the other species. The predominant isoprenoid quinone detected in strain WS-MY9T was menaquinone-6 (MK-6) in line with the genus Algibacter (Nedashkovskaya et al., 2004) and all other members of the family Flavobacteriaceae (Bernardet, 2011). The complete cellular fatty acid profiles of strain WS-MY9T and the type strains of the two species of the genus Algibacter with validly published names at the time of this study (A. lectus KCTC 12103T and A. mikhailovii LMG 23988T) are compared in Table 2. The major fatty acids (.10 % of the total fatty acids) found in strain WSMY9T were anteiso-C15 : 0 (19.8 %), iso-C17 : 0 3-OH (15.6 %), iso-C15 : 1 G (12.4 %) and iso-C15 : 0 (11.3 %) (Table 2). The fatty acid profiles of the three strains grown and analysed under identical conditions in this study were similar, but there were also differences in the proportions of some fatty acids. A. mikhailovii LMG 23988T was characterized by having a higher amount of summed feature 3 (C16 : 1v7c and/or C16 : 1v6c), which was also shown in the study of Park et al. (2013). Strain WS-MY9T contained phosphatidylethanolamine (PE) and two Downloaded from www.microbiologyresearch.org by International Journal of Systematic and Evolutionary Microbiology 63 IP: 88.99.165.207 On: Mon, 31 Jul 2017 22:44:33 Algibacter undariae sp. nov. Algibacter aquimarinus KYW589T (JQ259859) 50.5 50.6 Algibacter mikhailovii KMM 6171T (AM491809) 0.01 Algibacter pectinivorans JC2675T (HM475134) Postechiella marina M091T (HQ336487) Algibacter undariae WS-MY9T (KC261664) 100 Algibacter lectus KMM 3902T (AY187689) Tamlana agarivorans JW-26T (EU221275) 96.3 79.0 Tamlana crocina HST1-43T (AM286230) Gaetbulibacter saemankumensis SMK-12T (AY883937) Gaetbulibacter marinus IMCC1914T (EF108219) Flaviramulus basaltis H35T (DQ361033) Mariniflexile aquimaris HWR-17T (HQ144198) 100 Mariniflexile gromovii KMM 6038T (DQ312294) Olleya marilimosa CAM030T (EF660466) 99.9 Olleya aquimaris L-4T (FJ886713) Flavivirga amylovorans JC2681T (HM475138) 97.2 Flavivirga jejuensis JC2682T (HM475139) Psychroserpens mesophilus KOPRI 13649T (DQ001321) 65.3 54.2 57.6 Psychroserpens burtonensis ACAM 188T (U62913) 100 Formosa agariphila KMM 3901T (AY187688) Formosa algae KMM 3553T (AY228461) Bizionia echini KMM 6177T (FJ716799) Bizionia paragorgiae KMM 6029T (AY651070) Capnocytophaga ochracea ATCC 27872T (U41350) Fig. 1. Neighbour-joining tree based on 16S rRNA gene sequences showing the phylogenetic positions of strain WS-MY9T, the type strains of species of the genus Algibacter and representatives of some other related taxa. Bootstrap values (expressed as percentages of 1000 replications) .50 % are shown at branching points. Filled circles indicate that the corresponding nodes were also recovered in the trees generated with the maximum-likelihood and maximum-parsimony algorithms. Capnocytophaga ochracea ATCC 27872T (GenBank accession no. U41350) was used as an outgroup. Bar, 0.01 substitutions per nucleotide position. unidentified lipids (L1 and L2) as the major polar lipids; it also contained minor amounts of two additional unidentified lipids (L3 and L4), two unidentified glycolipids and one unidentified aminolipid (Fig. S1 available in IJSEM Online). This polar lipid profile was similar to those of A. lectus KCTC 12103T and A. mikhailovii LMG 23988T in that phosphatidylethanolamine and two unidentified lipids were major polar lipids (Fig. S1). However, one major unidentified lipid (L2) of strain WS-MY9T and A. lectus KCTC 12103T differed from that (L5) detected in A. mikhailovii LMG 23988T. The DNA G+C content of strain WS-MY9T was 35.0 mol%. Taking these phylogenetic and chemotaxonomic data into account, it is reasonable to classify strain WS-MY9T as a member of the genus Algibacter. However, even the taxonomic position of A. mikhailovii as well as the description of Algibacter aquimarinus and reclassification of Algibacter pectinivorans may have to be re-evaluated. Strain WS-MY9T exhibited a mean DNA–DNA relatedness value of 15 % with A. lectus KCTC 12103T. Strain WSMY9T was distinguishable from A. lectus KCTC 12103T and http://ijs.sgmjournals.org A. mikhailovii LMG 23988T by differences in several phenotypic characteristics as shown in Table 1. These differences, in combination with phylogenetic and genetic distinctiveness, were sufficient to prove that the novel strain was separate from other species of the genus Algibacter (Wayne et al., 1987; Stackebrandt & Goebel, 1994). On the basis of these phenotypic, chemotaxonomic, phylogenetic and genetic data, strain WS-MY9T represents a novel species of the genus Algibacter, for which the name Algibacter undariae sp. nov. is proposed. Description of Algibacter undariae sp. nov. Algibacter undariae (un.da.ri9a.e. N.L. gen. n. undariae of Undaria, named after the generic name of the brown algae Undaria pinnatifida, from whose reservoir the type strain was isolated). Cells are Gram-stain-negative, non-flagellated, motile by gliding and rod-shaped, approximately 0.4–0.7 mm in diameter and 0.7–6.0 mm in length. Colonies on MA are circular, slightly convex, smooth, glistening, yellow and Downloaded from www.microbiologyresearch.org by IP: 88.99.165.207 On: Mon, 31 Jul 2017 22:44:33 3707 S. Park and others Table 2. Cellular fatty acid compositions (%) of strain WSMY9T and the type strains of two species of the genus Algibacter Strains: 1, WS-MY9T; 2. A. lectus KCTC 12103T; 3, A. mikhailovii LMG 23988T. All data from this study. Fatty acids that represented ,0.5 % in all strains were omitted. TR, Traces (,0.5 %); –, not detected. Fatty acid Straight-chain C16 : 0 Unsaturated C15 : 1v6c C17 : 1v6c C18 : 1v5c Branched iso-C13 : 0 iso-C14 : 0 iso-C15 : 0 anteiso-C15 : 0 iso-C15 : 1 G* anteiso-C15 : 1 A* iso-C16 : 0 anteiso-C17 : 1 A* iso-C17 : 1v9c Hydroxy iso-C13 : 0 3-OH C15 : 0 2-OH C15 : 0 3-OH iso-C15 : 0 3-OH C16 : 0 3-OH iso-C16 : 0 3-OH C17 : 0 2-OH C17 : 0 3-OH iso-C17 : 0 3-OH 10-Methyl C18 : 0 (TBSA) Summed feature 3D 1 2 3 1.9 1.4 2.9 3.3 1.4 1.3 6.7 3.1 1.1 2.2 1.3 2.2 0.7 – 11.3 19.8 12.4 2.9 – – – 1.6 0.7 9.3 7.7 16.9 2.0 – 0.8 – – 13.5 5.1 19.5 3.4 1.0 0.9 1.3 – 2.5 – 9.3 3.1 5.0 6.4 – 15.6 – 3.4 1.8 1.6 4.3 9.7 4.0 4.0 3.3 1.0 11.9 1.3 5.5 – 2.3 – 5.8 – 1.1 5.0 – 15.6 – 17.1 TR citrate, formate, L-malate, pyruvate, succinate, L-glutamate and salicin are not. Acid is produced from D-fructose, D-galactose, D-glucose, lactose, D-mannose, melibiose, Dxylose and D-mannitol, but not from L-arabinose, cellobiose, maltose, melezitose, raffinose, L-rhamnose, D-ribose, sucrose, trehalose, myo-inositol or D-sorbitol. Susceptible to carbenicillin, cephalothin, chloramphenicol, lincomycin, novobiocin, oleandomycin and penicillin G, but not to ampicillin, gentamicin, kanamycin, neomycin, polymyxin B, streptomycin or tetracycline. In assays with the API ZYM system, alkaline phosphatase, esterase (C4), esterase lipase (C8), leucine arylamidase, valine arylamidase, acid phosphatase, naphthol-AS-BI-phosphohydrolase, a-glucosidase and N-acetyl-b-glucosaminidase activities are present, but lipase (C14), cystine arylamidase, trypsin, a-chymotrypsin, a-galactosidase, b-galactosidase, b-glucuronidase, b-glucosidase, a-mannosidase and a-fucosidase activities are absent. The predominant menaquinone is MK-6. The major fatty acids (.10 % of the total fatty acids) are anteiso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G and iso-C15 : 0. The major polar lipids are phosphatidylethanolamine and two unidentified lipids. The type strain, WS-MY9T (5KCTC 32259T5CCUG 63684T), was isolated from a brown algae reservoir at Wando in the South Sea, South Korea. The DNA G+C content of the type strain is 35.0 mol%. Acknowledgements This work was supported by the Program for Collection of Domestic Biological Resources from the National Institute of Biological Resources (NIBR) and the Program for Collection, Management and Utilization of Biological Resources and BK 21 program from the Ministry of Education, Science and Technology (MEST) of the Republic of Korea. References *Double bond position indicated by a capital letter is unknown. DSummed feature 3 contained C16 : 1v7c and/or C16 : 1v6c. 1.0–1.5 mm in diameter after incubation for 3 days at 25 uC. 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