scholarly journals Runella defluvii sp. nov., isolated from a domestic wastewater treatment plant

2007 ◽  
Vol 57 (11) ◽  
pp. 2600-2603 ◽  
Author(s):  
Shipeng Lu ◽  
Jung Ro Lee ◽  
Seung Hyun Ryu ◽  
Bok Sil Chung ◽  
Woo-Seok Choe ◽  
...  
Keyword(s):  
Wastewater Treatment ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Wastewater Treatment Plant ◽  
Sequence Similarity ◽  
Treatment Plant ◽  
Domestic Wastewater ◽  
Molecular Data ◽  
Rrna Gene ◽  
Strictly Aerobic

A long, Gram-negative, rod-shaped bacterium, designated strain EMB13T, was isolated from a wastewater treatment plant in Korea. The isolate was strictly aerobic and non-motile. The strain grew optimally at 30–35 °C and pH 7.5–8.0, and the predominant fatty acids were iso-C15 : 0, summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH), C16 : 1 ω5c and iso-C17 : 0 3-OH. The strain contained a large amount of phosphatidylethanolamine and small amounts of phosphatidylcholine and an unknown phospholipid as the polar lipids. The G+C content of the genomic DNA was 40.1 mol% and the major isoprenoid quinone was menaquinone-7. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain EMB13T belonged to the genus Runella and was most closely related to Runella limosa EMB111T, with a 16S rRNA gene sequence similarity of 97.1 %. DNA–DNA relatedness between strain EMB13T and R. limosa EMB111T was approximately 25 %. On the basis of phenotypic, chemotaxonomic and molecular data, it is clear that strain EMB13T represents a novel species within the genus Runella, for which the name Runella defluvii sp. nov. is proposed. The type strain is EMB13T (=KCTC 12614T =DSM 17976T).

scholarly journals Gordonia malaquae sp. nov., isolated from sludge of a wastewater treatment plant

2007 ◽  
Vol 57 (5) ◽  
pp. 1065-1068 ◽  
Author(s):  
A. F. Yassin ◽  
Fo-Ting Shen ◽  
H. Hupfer ◽  
A. B. Arun ◽  
Wei-An Lai ◽  
...  
Keyword(s):  
Wastewater Treatment ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Wastewater Treatment Plant ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Treatment Plant ◽  
Rrna Gene ◽  
The Novel ◽  
Pyrolysis Gas

The taxonomic status of a bacterial isolate from the sludge of a wastewater treatment plant was characterized by using a polyphasic taxonomic approach. Chemotaxonomic investigations revealed the presence of cell-wall chemotype IV, short-chain mycolic acids that co-migrated with those extracted from members of the genus Gordonia, fatty acids C16 : 0 and C18 : 0 (found by pyrolysis gas chromatography) and a dihydrogenated menaquinone with nine isoprene units [MK-9(H2)] as the predominant menaquinone. The genus assignment was confirmed by 16S rRNA gene sequencing. Comparative analysis of the 16S rRNA gene sequence showed that the novel isolate constitutes a hitherto unknown subline within the genus Gordonia, displaying 95.9 to 97.6 % gene sequence similarity to the recognized species of the genus. The novel isolate was distinguished from the type strains of phylogenetically related species by using a set of phenotypic features. The genotypic and phenotypic data show that the new strain merits classification as a novel species of the genus Gordonia, for which the name Gordonia malaquae sp. nov. is proposed. The type strain is IMMIB WWCC-22T (=DSM 45064T=CCUG 53555T).

scholarly journals Meganema perideroedes gen. nov., sp. nov., a filamentous alphaproteobacterium from activated sludge

2006 ◽  
Vol 56 (8) ◽  
pp. 1865-1868 ◽  
Author(s):  
Trine R. Thomsen ◽  
Linda L. Blackall ◽  
Marilena Aquino de Muro ◽  
Jeppe L. Nielsen ◽  
Per H. Nielsen
Keyword(s):  
Fatty Acids ◽  
Wastewater Treatment ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Wastewater Treatment Plant ◽  
Unsaturated Fatty Acids ◽  
Sequence Similarity ◽  
Treatment Plant ◽  
Rrna Gene ◽  
Filamentous Bacteria

An industrial wastewater treatment plant at Grindsted, Denmark, has suffered from bulking problems for several years caused by filamentous bacteria. Five strains were isolated from the sludge by micromanipulation. Phylogenetic analysis of the 16S rRNA gene sequences showed that the strains formed a monophyletic cluster in the Alphaproteobacteria, and they were phenotypically different from their closest relatives and from all hitherto known filamentous bacteria described (closest relative Brevundimonas vesicularis ATCC 11426T, 89.8 % sequence similarity). In pure culture, the cells (1.5–2.0 μm) in filaments are Gram-negative and contain polyphosphate and polyhydroxyalkanoates. The optimum temperature for growth is 30 °C and the strains grow in 2 % NaCl and are oxidase- and catalase-positive. Ubiquinone 10 is the major quinone. The major fatty acid (C18 : 1 ω7c) and smaller amounts of unsaturated fatty acids, 3-hydroxy fatty acids with a chain length of 16 and 18 carbon atoms and small amounts of 10-methyl-branched fatty acids with 18 carbon atoms (C19 : 0 10-methyl) affiliated the strains with the Methylobacterium/Xanthobacter group in the Alphaproteobacteria. The G+C content of the DNA is 42.9 mol% (for strain Gr1T). The two most dissimilar isolates by 16S rRNA gene comparison (Gr1T and Gr10; 97.7 % identical) showed 71.5 % DNA–DNA relatedness. Oligonucleotide probes specific for the pure cultures were designed for fluorescence in situ hybridization and demonstrated that two filamentous morphotypes were present in the Grindsted wastewater treatment plant. It is proposed that the isolates represent a new genus and species, Meganema perideroedes gen. nov., sp. nov. The type strain of Meganema perideroedes is strain Gr1T (=DSM 15528T=ATCC BAA-740T).

scholarly journals Flavobacterium filum sp. nov., isolated from a wastewater treatment plant in Korea

2007 ◽  
Vol 57 (9) ◽  
pp. 2026-2030 ◽  
Author(s):  
Seung Hyun Ryu ◽  
Minjeong Park ◽  
Yeji Jeon ◽  
Jung Ro Lee ◽  
Woojun Park ◽  
...  
Keyword(s):  
Wastewater Treatment ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Wastewater Treatment Plant ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Treatment Plant ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence

A Gram-negative bacterium, designated strain EMB34T, was isolated from a wastewater treatment plant in Korea. Growth was observed between 10 and 40 °C (optimum, 25–35 °C) and between pH 6.0 and 9.5 (optimum, pH 7.5–8.0). The cells were non-motile rods, linked with extracellular fibrils. The predominant fatty acids of strain EMB34T were iso-C15 : 0, C15 : 0, iso-C15 : 1 G, iso-C16 : 0 3-OH and iso-C15 : 0 3-OH and the strain contained phosphatidylethanolamine and phosphatidylinositol as the polar lipids. The G+C content of the genomic DNA was 34.2 mol% and the major quinone was menaquinone-6. Comparative 16S rRNA gene sequence analyses showed that strain EMB34T formed a distinct phyletic line within the genus Flavobacterium. The levels of 16S rRNA gene sequence similarity with other Flavobacterium species were less than 94.5 %. On the basis of phenotypic, chemotaxonomic and molecular data, it is clear that strain EMB34T represents a novel species within the genus Flavobacterium, for which the name Flavobacterium filum sp. nov. is proposed. The type strain is EMB34T (=KCTC 12610T=DSM 17961T).

scholarly journals Molecular Evidence for Novel Planctomycete Diversity in a Municipal Wastewater Treatment Plant

2003 ◽  
Vol 69 (12) ◽  
pp. 7354-7363 ◽  
Author(s):  
Rakia Chouari ◽  
Denis Le Paslier ◽  
Patrick Daegelen ◽  
Philippe Ginestet ◽  
Jean Weissenbach ◽  
...  
Keyword(s):  
Wastewater Treatment ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Wastewater Treatment Plant ◽  
Municipal Wastewater ◽  
Treatment Plant ◽  
Rrna Gene ◽  
Municipal Wastewater Treatment ◽  
Monophyletic Cluster ◽  
Municipal Wastewater Treatment Plant

ABSTRACT We examined anoxic and aerobic basins and an anaerobic digestor of a municipal wastewater treatment plant for the presence of novel planctomycete-like diversity. Three 16S rRNA gene libraries were constructed by using a 16S rRNA-targeted universal reverse primer and a forward PCR primer specific for Planctomycetes. Phylogenetic analysis of 234 16S rRNA gene sequences defined 110 operational taxonomic units. The majority of these sequences clustered with the four known genera, Pirellula (32%), Planctomyces (18.4%), Gemmata (3.8%), and Isosphaera (0.4%). More interestingly, 42.3% of the sequences appeared to define two distantly separated monophyletic groups. The first group, represented by 35.5% of the sequences, was related to the Planctomyces group and branched as a monophyletic cluster. It exhibited between 11.9 and 20.3% 16S rRNA gene sequence dissimilarity in comparisons with cultivated planctomycetes. The second group, represented by 6.8% of the sequences, was deeply rooted within the Planctomycetales tree. It was distantly related to the anammox sequences (level of dissimilarity, 20.3 to 24.4%) and was a monophyletic cluster. The retrieved sequences extended the intralineage phylogenetic depth of the Plantomycetales from 23 to 30.6%. The lineages described here may have a broad diversity of undiscovered biochemical and metabolic novelty. We developed a new 16S rRNA-targeted oligonucleotide probe and localized members of one of the phylogenetic groups using the fluorescent in situ hybridization technique. Our results indicate that activated sludge contains very diverse representatives of this group, which grow under aerobic and anoxic conditions and even under anaerobic conditions. The majority of species in this group remain poorly characterized.

scholarly journals Persicivirga ulvanivorans sp. nov., a marine member of the family Flavobacteriaceae that degrades ulvan from green algae

2011 ◽  
Vol 61 (8) ◽  
pp. 1899-1905 ◽  
Author(s):  
Tristan Barbeyron ◽  
Yannick Lerat ◽  
Jean-François Sassi ◽  
Sophie Le Panse ◽  
William Helbert ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Green Algae ◽  
Electron Acceptor ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
The Family ◽  
Gliding Bacterium

A rod shaped, Gram-stain-negative, chemo-organotrophic, heterotrophic, strictly aerobic, non-gliding bacterium, designated strain PLRT, was isolated from faeces of the mollusc Aplysia punctata (Mollusca, Gastropoda) that had been fed with green algae belonging to the genus Ulva. The novel strain was able to degrade ulvan, a polysaccharide extracted from green algae (Chlorophyta, Ulvophyceae). The taxonomic position of strain PLRT was investigated by using a polyphasic approach. Strain PLRT was dark orange, oxidase-positive, catalase-positive and grew optimally at 25 °C, at pH 7.5 and in the presence of 2.5 % (w/v) NaCl with an oxidative metabolism using oxygen as the electron acceptor. Nitrate could not be used as the electron acceptor. Strain PLRT had a Chargaff’s coefficient (DNA G+C content) of 35.3 mol%. Phylogenetic analysis based on the sequence of the 16S rRNA gene placed the novel strain in the family Flavobacteriaceae (phylum ‘Bacteroidetes’), within a clade comprising Stenothermobacter spongiae, Nonlabens tegetincola, Sandarakinotalea sediminis, Persicivirga xylanidelens and Persicivirga dokdonensis. The closest neighbours of strain PLRT were P. xylanidelens and P. dokdonensis, sharing 95.2 and 95.5 % 16S rRNA gene sequence similarity, respectively. Phylogenetic inference and differential phenotypic characteristics demonstrated that strain PLRT represents a novel species of the genus Persicivirga, for which the name Persicivirga ulvanivorans sp. nov. is proposed. The type strain is PLRT ( = CIP 110082T = DSM 22727T).

scholarly journals Sphingobacterium shayense sp. nov., isolated from forest soil

2010 ◽  
Vol 60 (10) ◽  
pp. 2377-2381 ◽  
Author(s):  
Xiang He ◽  
Ting Xiao ◽  
Haiju Kuang ◽  
Xiaojun Lan ◽  
Maripat Tudahong ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Populus Euphratica ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties

A Gram-staining-negative, yellow-coloured, strictly aerobic, non-spore-forming, rod-shaped bacterium, designated HS39T, isolated from a soil sample collected from a natural Populus euphratica forest in Xinjiang, China, was characterized using a polyphasic approach. The isolate grew optimally at 30–37 °C, at pH 6.5–8.0 and with 0–3 % NaCl. Analysis of the 16S rRNA gene sequence of strain HS39T revealed that it is a member of the genus Sphingobacterium. Sphingobacterium mizutaii ATCC 33299T was the nearest relative (94.0 % 16S rRNA gene sequence similarity). The G+C content of the genomic DNA was 40.2 mol%. The major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (comprising C16 : 1 ω6c and/or C16 : 1 ω7c). The predominant isoprenoid quinone was MK-7. On the basis of phenotypic properties and phylogenetic inference, strain HS39T represents a novel species of the genus Sphingobacterium, for which the name Sphingobacterium shayense sp. nov. is proposed. The type strain is HS39T (=CCTCC AB 209006T =NRRL B-59203T).

Luteimonas abyssi sp. nov., isolated from deep-sea sediment

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 668-674 ◽  
Author(s):  
Xiaoyang Fan ◽  
Tong Yu ◽  
Zhao Li ◽  
Xiao-Hua Zhang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Deep Sea ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Deep Sea Sediment ◽  
Link Type

Three Gram-stain-negative, strictly aerobic, rod-shaped with single polar flagellum, yellow-pigmented bacteria, designated strains XH031T, XH038-3 and XH80-1, were isolated from deep-sea sediment of the South Pacific Gyre (41° 51′ S 153° 6′ W) during the Integrated Ocean Drilling Program (IODP) Expedition 329. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolates belonged to the genus Luteimonas and showed the highest 16S rRNA gene sequence similarity with Luteimonas aestuarii B9T (96.95 %), Luteimonas huabeiensis HB2T (96.93 %) and Xanthomonas cucurbitae LMG 690T (96.92 %). The DNA G+C contents of the three isolates were 70.2–73.9 mol%. The major fatty acids were iso-C15 : 0, iso-C16 : 0, iso-C11 : 0 and C16 : 010-methyl and/or iso-C17 : 1ω9c. The major respiratory quinone was ubiquinone-8 (Q-8). The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and one unknown phospholipid. On the basis of data from polyphasic analysis, the three isolates represent a novel species of the genus Luteimonas , for which the name Luteimonas abyssi sp. nov. is proposed. The type strain is XH031T ( = DSM 25880T = CGMCC 1.12611T).

Ruegeria conchae sp. nov., isolated from the ark clam Scapharca broughtonii

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2851-2857 ◽  
Author(s):  
Jina Lee ◽  
Tae Woong Whon ◽  
Na-Ri Shin ◽  
Seong Woon Roh ◽  
Jandi Kim ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
Ubiquinone 10

A slightly halophilic, Gram-negative, strictly aerobic, non-motile rod, designated TW15T, was isolated from an ark clam in South Korea. Growth occurred at 10–37 °C, with 1–5 % (w/v) NaCl and at pH 7.0–10.0. Optimal growth occurred at 25–30 °C, with 2 % (w/v) NaCl and at pH 8.0. Strain TW15T exhibited both oxidase and catalase activities. The major fatty acids of strain TW15T were summed feature 8 (consisting of C18 : 1ω7c and/or C18 : 1ω6c) and 11-methyl C18 : 1ω7c. The predominant isoprenoid quinone was ubiquinone-10 (Q-10). The polar lipids of strain TW15T comprised phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, an unidentified phospholipid, an unidentified aminolipid and five unidentified lipids. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain TW15T was most closely related to Ruegeria lacuscaerulensis DSM 11314T (98.0 % 16S rRNA gene sequence similarity). DNA–DNA relatedness with closely related strains was <52±3 %. The DNA G+C content was 55.7 mol%. On the basis of phenotypic, genotypic and phylogenetic data, strain TW15T represents a novel species of the genus Ruegeria , for which the name Ruegeria conchae sp. nov. is proposed. The type strain is TW15T ( = KACC 15115T  = JCM 17315T).

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