Formosa agariphila sp. nov., a budding bacterium of the family Flavobacteriaceae isolated from marine environments, and emended description of the genus Formosa

Nedashkovskaya, Olga I.

doi:10.1099/ijs.0.63875-0

Cited by 56 publications

(36 citation statements)

References 36 publications

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“…However, it has been observed that Formosa strains, including F. algariphila KMM 3901 T , do not consistently exhibit nitrate reductase activity in physiological tests (24).…”

Section: Assimilation Of Nitrogen Besides a Dissimilatory Nitrate Rementioning

confidence: 99%

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The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 ^T Reveals a Broad Potential for Degradation of Algal Polysaccharides

Mann

Hahnke

Huang

et al. 2013

Appl Environ Microbiol

191

156

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In recent years, representatives of the Bacteroidetes have been increasingly recognized as specialists for the degradation of macromolecules. Formosa constitutes a Bacteroidetes genus within the class Flavobacteria, and the members of this genus have been found in marine habitats with high levels of organic matter, such as in association with algae, invertebrates, and fecal pellets. Here we report on the generation and analysis of the genome of the type strain of Formosa agariphila (KMM 3901 T ), an isolate from the green alga Acrosiphonia sonderi. F. agariphila is a facultative anaerobe with the capacity for mixed acid fermentation and denitrification. Its genome harbors 129 proteases and 88 glycoside hydrolases, indicating a pronounced specialization for the degradation of proteins, polysaccharides, and glycoproteins. Sixty-five of the glycoside hydrolases are organized in at least 13 distinct polysaccharide utilization loci, where they are clustered with TonB-dependent receptors, SusD-like proteins, sensors/ transcription factors, transporters, and often sulfatases. These loci play a pivotal role in bacteroidetal polysaccharide biodegradation and in the case of F. agariphila revealed the capacity to degrade a wide range of algal polysaccharides from green, red, and brown algae and thus a strong specialization of toward an alga-associated lifestyle. This was corroborated by growth experiments, which confirmed usage particularly of those monosaccharides that constitute the building blocks of abundant algal polysaccharides, as well as distinct algal polysaccharides, such as laminarins, xylans, and -carrageenans.

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“…However, it has been observed that Formosa strains, including F. algariphila KMM 3901 T , do not consistently exhibit nitrate reductase activity in physiological tests (24).…”

Section: Assimilation Of Nitrogen Besides a Dissimilatory Nitrate Rementioning

confidence: 99%

“…T (24), and F. spongicola A2 T (25), with the latter still listed as "unclassified Flavobacteriaceae bacterium A2" in some public databases. F. algae KMM 3553 T was isolated from an enrichment of a degrading thallus of the brown alga Fucus evanescens at the Kuril Islands in the Pacific Ocean.…”

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confidence: 99%

The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 ^T Reveals a Broad Potential for Degradation of Algal Polysaccharides

Mann

Hahnke

Huang

et al. 2013

Appl Environ Microbiol

191

156

View full text Add to dashboard Cite

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“…With API 20E and 20NE strips, positive for b-glucosidase (5aesculinase) and b-galactosidase activity, but negative for urease, arginine dihydrolase, ornithine decarboxylase, tryptophan deaminase and lysine decarboxylase activities. Jung et al, 2005;Yang & Cho, 2008); 3, Gelidibacter (n54; Kwon et al, 2006;Bowman & Nichols, 2005); 4, Subsaxibacter broadyi P7 T (Bowman & Nichols, 2005;Kwon et al, 2006); 5, Subsaximicrobium (n52; Bowman & Nichols, 2005;Kwon et al, 2006); 6, Yeosuana aromativorans GW1-1 T (Kwon et al, 2006); 7, Algibacter (n52; Nedashkovskaya et al, 2004Nedashkovskaya et al, , 2007; 8, Bizionia (n56; Kwon et al, 2006;Bercovich et al, 2008;Bowman & Nichols, 2005); 9, Formosa (n52; Nedashkovskaya et al, 2006). n, Number of type strains in each genus.…”

Section: Description Of Meridianimaribacter Flavus Sp Novmentioning

confidence: 99%

“…With API ZYM strips, positive for alkaline phosphatase, esterase lipase (C8), leucine arylamidase, valine arylamidase, a-chymotrypsin, acid phosphatase and naphthol-AS-BI-phosphohydrolase activities, weakly positive for esterase (C4), cystine arylamidase, trypsin and a-glucosidase activities, but negative for lipase (C14), a-galactosidase, b-glucuronidase, N-acetyl-b-glucosaminidase, a-mannosidase and a-fucosidase activities. The following carbon (Kwon et al, 2006);7, Algibacter (n52;Nedashkovskaya et al, 2004Nedashkovskaya et al, , 20078, Bizionia (n56;Bowman & Nichols, 2005;Bercovich et al, 2008);9, Formosa (n52;Nedashkovskaya et al, 2006). n, Number of type strains in each genus.…”

Section: Description Of Meridianimaribacter Flavus Sp Novmentioning

confidence: 99%

Meridianimaribacter flavus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from marine sediment of the South China Sea

Wang

Sun

et al. 2010

International Journal of Systematic and Evolutionary Microbiology

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A Gram-staining-negative, rod-shaped marine bacterium, designated strain NH57NT, isolated from sandy sediment in the Mischief Reef of the South China Sea, was characterized based on its physiological and biochemical features, fatty acid profile and phylogenetic position. 16S rRNA gene sequence analysis revealed a clear affiliation with the family Flavobacteriaceae. Strain NH57NT showed the closest phylogenetic relationship with members of the genera Gaetbulibacter, Gelidibacter, Subsaxibacter, Subsaximicrobium and Yeosuana; levels of 16S rRNA gene sequence similarity between strain NH57NT and the type strains of related species ranged from 94.9 to 91.2 %. Cells of strain NH57NT were motile by gliding and grew on solid media as yellow colonies at 9–37 °C, pH 6.5–8.5 and in the presence of 0.5–4.0 % NaCl. The DNA G+C content was 32.7 mol% and the predominant fatty acids were iso-C15 : 1 (22.7 % of the total), iso-C15 : 0 (20.7 %), iso-C17 : 0 3-OH (9.5 %), iso-C16 : 0 3-OH (8.3 %), C15 : 0 (7.8 %) and iso-C15 : 0 3-OH (5.8 %). Based on the physiological and phylogenetic data, and on the fatty acid composition, strain NH57NT is considered to represent a novel species of a new genus in the family Flavobacteriaceae, for which the name Meridianimaribacter flavus gen. nov., sp. nov. is proposed. The type strain of Meridianimaribacter flavus is NH57NT (=CCTCC AB 208318T=LMG 24839T=MCCC 1A03544T).

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“…Detection of flexirubin pigments was tested by flooding the plates with 20 % (w/v) potassium hydroxide according to Fautz & Reichenbach (1980). For pigment tests, cells were extracted with acetone/methanol (7 : 2, v/v) and scanned between 300 and 600 nm with a UV spectrophotometer (Optizen 3220UV bio; Mecasys) as described Nedashkovskaya et al (2006). Cells of strain EM106 T were Gram-stainingnegative, flexirubin-negative, oxidase-and catalase-positive and strictly aerobic.…”

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confidence: 99%

Winogradskyella pulchriflava sp. nov., isolated from marine sediment

Kim

Choi

Park

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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A taxonomic study was conducted on strain EM106 T , isolated from a sediment sample of the East Sea, Republic of Korea. Comparative 16S rRNA gene sequence analyses showed that strain EM106 T belongs to the family Flavobacteriaceae and is most closely related to Winogradskyella echinorum KMM 6211 T and Winogradskyella ulvae KMM 6390 T (97.8 and 97.3 % 16S rRNA gene sequence similarities, respectively). The G+C content of the genomic DNA of strain EM106 T was 33.3 mol%, and the major respiratory quinone was menaquinone-6. The polar lipids of EM106 T were phosphatidylethanolamine, two unidentified aminolipids and two unidentified lipids. DNA-DNA relatedness data indicated that strain EM106 T represented a distinct species, separate from W. echinorum KMM 6211 T and W. ulvae KMM 6390 T . Strain EM106 T possessed iso-C 15 : 0 , iso-C 15 : 1 G and iso-C 16 : 0 3-OH as the major cellular fatty acids. The isolate was Gram-staining-negative, strictly aerobic, short rod-shaped and motile by gliding. The strain grew at 10-35 6C (optimum, 25 6C), pH 6.5-9.0 (optimum, 7.5), and with 0.5-5 % (w/v) NaCl (optimum, 0.5-1 % NaCl). The overall physiological features of strain EM106 T were very similar to those of W. echinorum KMM 6211 T but only strain EM106 T had nitrate reductase activity. On the basis of phenotypic and phylogenetic analyses, strain EM106 T is proposed to represent a novel species, Winogradskyella pulchriflava. The type strain is EM106 T (5KCTC 23858 T 5NCAIM B 02481 T ).The genus Winogradskyella, within the family Flavobacteriaceae, was first described by Nedashkovskaya et al. (2005) to accommodate Gram-staining-negative, heterotrophic, strictly aerobic, rod-shaped bacteria (without production of flexirubin-type pigments) isolated from the sea urchin Strongylocentrotus intermedius. At the time of writing, the genus comprises 15 recognized

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Formosa agariphila sp. nov., a budding bacterium of the family Flavobacteriaceae isolated from marine environments, and emended description of the genus Formosa

Cited by 56 publications

References 36 publications

The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 ^T Reveals a Broad Potential for Degradation of Algal Polysaccharides

The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 ^T Reveals a Broad Potential for Degradation of Algal Polysaccharides

Meridianimaribacter flavus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from marine sediment of the South China Sea

Winogradskyella pulchriflava sp. nov., isolated from marine sediment

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Formosa agariphila sp. nov., a budding bacterium of the family Flavobacteriaceae isolated from marine environments, and emended description of the genus Formosa

Cited by 56 publications

References 36 publications

The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 T Reveals a Broad Potential for Degradation of Algal Polysaccharides

The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 T Reveals a Broad Potential for Degradation of Algal Polysaccharides

Meridianimaribacter flavus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from marine sediment of the South China Sea

Winogradskyella pulchriflava sp. nov., isolated from marine sediment

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The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 ^T Reveals a Broad Potential for Degradation of Algal Polysaccharides

The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 ^T Reveals a Broad Potential for Degradation of Algal Polysaccharides