scholarly journals Geobacter bemidjiensis sp. nov. and Geobacter psychrophilus sp. nov., two novel Fe(III)-reducing subsurface isolates

2005 ◽  
Vol 55 (4) ◽  
pp. 1667-1674 ◽  
Author(s):  
Kelly P. Nevin ◽  
Dawn E. Holmes ◽  
Trevor L. Woodard ◽  
Erich S. Hinlein ◽  
David W. Ostendorf ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Electron Acceptors ◽  
Electron Donors ◽  
Amorphous Iron ◽  
Gram Negative ◽  
Subsurface Sediments ◽  
Curved Rods ◽  
A Site

Fe(III)-reducing isolates were recovered from two aquifers in which Fe(III) reduction is known to be important. Strain BemT was enriched from subsurface sediments collected in Bemidji, MN, USA, near a site where Fe(III) reduction is important in aromatic hydrocarbon degradation. Strains P11, P35T and P39 were isolated from the groundwater of an aquifer in Plymouth, MA, USA, in which Fe(III) reduction is important because of long-term inputs of acetate as a highway de-icing agent to the subsurface. All four isolates were Gram-negative, slightly curved rods that grew best in freshwater media. Strains P11, P35T and P39 exhibited motility via means of monotrichous flagella. Analysis of the 16S rRNA and nifD genes indicated that all four strains are δ-proteobacteria and members of the Geobacter cluster of the Geobacteraceae. Differences in phenotypic and phylogenetic characteristics indicated that the four isolates represent two novel species within the genus Geobacter. All of the isolates coupled the oxidation of acetate to the reduction of Fe(III) [iron(III) citrate, amorphous iron(III) oxide, iron(III) pyrophosphate and iron(III) nitrilotriacetate]. All four strains utilized ethanol, lactate, malate, pyruvate and succinate as electron donors and malate and fumarate as electron acceptors. Strain BemT grew fastest at 30 °C, whereas strains P11, P35T and P39 grew equally well at 17, 22 and 30 °C. In addition, strains P11, P35T and P39 were capable of growth at 4 °C. The names Geobacter bemidjiensis sp. nov. (type strain BemT=ATCC BAA-1014T=DSM 16622T=JCM 12645T) and Geobacter psychrophilus sp. nov. (strains P11, P35T and P39; type strain P35T=ATCC BAA-1013T=DSM 16674T=JCM 12644T) are proposed.

scholarly journals Desulfopila aestuarii gen. nov., sp. nov., a Gram-negative, rod-like, sulfate-reducing bacterium isolated from an estuarine sediment in Japan

2007 ◽  
Vol 57 (3) ◽  
pp. 520-526 ◽  
Author(s):  
Daisuke Suzuki ◽  
Atsuko Ueki ◽  
Aya Amaishi ◽  
Katsuji Ueki
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Electron Acceptors ◽  
Estuarine Sediment ◽  
Electron Donors ◽  
The Sea Of Japan ◽  
Rrna Gene ◽  
Strictly Anaerobic ◽  
Gram Negative ◽  
Sulfate Reducing

A strictly anaerobic, mesophilic, sulfate-reducing bacterial strain (MSL86T) isolated from an estuarine sediment in the Sea of Japan (around the Japanese islands) was characterized phenotypically and phylogenetically. The cells were found to be Gram-negative, motile, non-spore-forming rods. Catalase was not detected. The optimum NaCl concentration for growth was 1.0 % (w/v) and the optimum temperature was 35 °C. Strain MSL86T was slightly alkaliphilic, with optimum growth at pH 7.5–7.6. Organic electron donors were incompletely oxidized to (mainly) acetate. Strain MSL86T utilized formate, pyruvate, lactate, fumarate, ethanol, propanol, butanol and glycerol as electron donors for sulfate reduction and did not use acetate, propionate, butyrate, succinate, malate, methanol, glycine, alanine, serine, aspartate, glutamate or H2. Sulfite, thiosulfate and fumarate were used as electron acceptors with lactate as an electron donor. Without electron acceptors, the strain fermented pyruvate and fumarate. The genomic DNA G+C content was 54.4 mol%. Menaquinone MK-8(H4) was the major respiratory quinone. The major cellular fatty acids were C16 : 0, C16 : 1 ω7, C16 : 1 ω5 and C17 : 1 ω6. A phylogenetic analysis based on the 16S rRNA gene sequence placed the strain in the class Deltaproteobacteria. The recognized bacterium most closely related to strain MSL86T was [Desulfobacterium] catecholicum DSM 3882T (sequence similarity 94.4 %), and the next most closely related recognized species were Desulfotalea psychrophila (94.2 % sequence similarity with the type strain) and Desulfotalea arctica (93.7 %). As the physiological and chemotaxonomic characteristics of MSL86T were distinctly different from those of any related species, a novel genus and species Desulfopila aestuarii gen. nov., sp. nov. are proposed to accommodate the strain. The type strain of Desulfopila aestuarii is MSL86T (=JCM 14042T=DSM 18488T).

scholarly journals Description of Azospira restricta sp. nov., a nitrogen-fixing bacterium isolated from groundwater

2007 ◽  
Vol 57 (7) ◽  
pp. 1521-1526 ◽  
Author(s):  
Hee-Sung Bae ◽  
Brian A. Rash ◽  
Fred A. Rainey ◽  
M. Fernanda Nobre ◽  
Igor Tiago ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Bacterial Strain ◽  
Type Strain ◽  
Novel Species ◽  
Polyphasic Approach ◽  
Polar Flagellum ◽  
Nitrogen Fixing ◽  
Gram Negative ◽  
Storage Granules ◽  
Curved Rods

A novel, Gram-negative bacterial strain, SUA2T, isolated from groundwater, was characterized using a polyphasic approach. Cells are Gram-negative, non-spore-forming, straight to curved rods with a single polar flagellum. Strain SUA2T is oxidase- and catalase-positive and is able to fix nitrogen. Poly-β-hydroxybutyrate storage granules are produced. Dominant fatty acids when grown in R2A and VM ethanol media for 72 h at 37 °C are C16 : 0, C16 : 1 ω7c, C17 : 0 cyclo, C10 : 0 3-OH, C18 : 1 ω7c, C12 : 0 and C15 : 0. DNA G+C content is 67.9 mol%. Phenotypic and phylogenetic data indicate that strain SUA2T is related to, but clearly differentiated from Azospira oryzae. Strain SUA2T is thus proposed as a novel species of the genus Azospira with the name Azospira restricta sp. nov. The description of the genus Azospira is emended to include the characteristics of this novel species. The type strain of Azospira restricta is SUA2T (=NRRL B-41660T=DSM 18626T=LMG 23819T).

scholarly journals Desulfovibrio alkalitolerans sp. nov., a novel alkalitolerant, sulphate-reducing bacterium isolated from district heating water

2006 ◽  
Vol 56 (5) ◽  
pp. 1019-1024 ◽  
Author(s):  
Lone Abildgaard ◽  
Marie Bank Nielsen ◽  
Kasper Urup Kjeldsen ◽  
Kjeld Ingvorsen
Keyword(s):  
Electron Acceptor ◽  
Genomic Dna ◽  
Type Strain ◽  
Novel Species ◽  
District Heating ◽  
Electron Acceptors ◽  
Electron Donors ◽  
Heating Water ◽  
Bacterium Strain

A novel alkalitolerant, sulphate-reducing bacterium (strain RT2T) was isolated from alkaline district heating water. Strain RT2T was a motile vibrio (0.5–0.8 μm wide and 1.4–1.9 μm long) and grew at pH 6.9–9.9 (optimum at pH 9.0–9.4) and at 16–47 °C (optimum at 43 °C). The genomic DNA G+C content was 64.7 mol%. A limited number of compounds were used as electron donors with sulphate as electron acceptor, including lactate, pyruvate, formate and hydrogen/acetate. Sulphite and thiosulphate also served as electron acceptors. Based on physiological and genotypic properties, the isolate was considered to represent a novel species of the genus Desulfovibrio, for which the name Desulfovibrio alkalitolerans sp. nov. is proposed. The type strain is RT2T (=DSM 16529T=JCM 12612T). The strain is the first alkali-tolerant member of the genus Desulfovibrio to be described.

scholarly journals Roseospira visakhapatnamensis sp. nov. and Roseospira goensis sp. nov.

2007 ◽  
Vol 57 (11) ◽  
pp. 2453-2457 ◽  
Author(s):  
S. Kalyan Chakravarthy ◽  
T. N. R. Srinivas ◽  
P. Anil Kumar ◽  
Ch. Sasikala ◽  
Ch. V. Ramana
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Aminobenzoic Acid ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
Photosynthetic Membranes ◽  
Marine Habitats ◽  
Gene Sequence Analysis

Two Gram-negative, vibrioid, phototrophic, purple non-sulfur strains, JA131T and JA135T, were isolated from marine habitats. Strain JA131T is non-motile but strain JA135T is motile by means of a pair of monopolar flagella. Both strains have an obligate requirement for NaCl for growth. The intracellular photosynthetic membranes of the two novel strains are of the vesicular type. Bacteriochlorophyll a and probably rhodovibrine are present as photosynthetic pigments. Niacin, thiamine and p-aminobenzoic acid are required as growth factors for both novel strains. Based on 16S rRNA gene sequence analysis, morphological and physiological characteristics, strains JA131T and JA135T are significantly different from each other and from other species of the genus Roseospira and thus represent two novel species for which the names Roseospira visakhapatnamensis sp. nov. and Roseospira goensis sp. nov. are proposed, respectively. The type strain of Roseospira visakhapatnamensis sp. nov. is JA131T (=ATCC BAA-1365T=JCM 14190T) and the type strain of Roseospira goensis sp. nov. is JA135T (=ATCC BAA-1364T=JCM 14191T).

scholarly journals Isolation of sulfate-reducing bacteria from Tunisian marine sediments and description of Desulfovibrio bizertensis sp. nov.

2006 ◽  
Vol 56 (12) ◽  
pp. 2909-2913 ◽  
Author(s):  
Olfa Haouari ◽  
Marie-Laure Fardeau ◽  
Laurence Casalot ◽  
Jean-Luc Tholozan ◽  
Moktar Hamdi ◽  
...  
Keyword(s):  
Marine Sediments ◽  
Type Strain ◽  
Elemental Sulfur ◽  
Novel Species ◽  
Sulfate Reducing Bacteria ◽  
Electron Donors ◽  
Sulfate Reducing ◽  
Growth Optimum ◽  
Optimum Ph ◽  
Reducing Bacteria

Several strains of sulfate-reducing bacteria were isolated from marine sediments recovered near Tunis, Korbous and Bizerte, Tunisia. They all showed characteristics consistent with members of the genus Desulfovibrio. One of these strains, designated MB3T, was characterized further. Cells of strain MB3T were slender, curved, vibrio-shaped, motile, Gram-negative, non-spore-forming rods. They were positive for desulfoviridin as bisulfite reductase. Strain MB3T grew at temperatures of 15–45 °C (optimum 40 °C) and at pH 6.0–8.1 (optimum pH 7.0). NaCl was required for growth (optimum 20 g NaCl l−1). Strain MB3T utilized H2 in the presence of acetate with sulfate as electron acceptor. It also utilized lactate, ethanol, pyruvate, malate, fumarate, succinate, butanol and propanol as electron donors. Lactate was oxidized incompletely to acetate. Strain MB3T fermented pyruvate and fumarate (poorly). Electron acceptors utilized included sulfate, sulfite, thiosulfate, elemental sulfur and fumarate, but not nitrate or nitrite. The G+C content of the genomic DNA was 51 mol%. On the basis of genotypic, phenotypic and phylogenetic characteristics, strain MB3T (=DSM 18034T=NCIMB 14199T) is proposed as the type strain of a novel species, Desulfovibrio bizertensis sp. nov.

scholarly journals Chryseobacterium flavum sp. nov., isolated from polluted soil

2007 ◽  
Vol 57 (8) ◽  
pp. 1765-1769 ◽  
Author(s):  
Yu Zhou ◽  
Jing Dong ◽  
Xu Wang ◽  
Xing Huang ◽  
Ke-Yun Zhang ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Novel Species ◽  
Polluted Soil ◽  
Rrna Gene ◽  
Taxonomic Study ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Gram Negative ◽  
Genotypic Characteristics

A Gram-negative, non-motile, rod-shaped bacterial strain, designated CW-E 2T, was isolated from a polluted soil sample collected from Jiangsu Province, China. A taxonomic study of the isolate, including phylogenetic analysis based on 16S rRNA gene sequences and phenotypic characteristics, was carried out. The predominant menaquinone was MK-6 and the major fatty acids were i-C15 : 0, i-C17 : 0 3-OH, i-C17 : 1 ω9c and summed feature 4. The G+C content of the DNA was 37.2 mol%. Based on phenotypic and genotypic characteristics, strain CW-E 2T represents a novel species of the genus Chryseobacterium for which the name Chryseobacterium flavum sp. nov. is proposed. The type strain is CW-E 2T (=KCTC 12877T=CCTCC AB 206147T).

scholarly journals Halorubrum ejinorense sp. nov., isolated from Lake Ejinor, Inner Mongolia, China

2007 ◽  
Vol 57 (11) ◽  
pp. 2538-2542 ◽  
Author(s):  
A. M. Castillo ◽  
M. C. Gutiérrez ◽  
M. Kamekura ◽  
Y. Xue ◽  
Y. Ma ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Inner Mongolia ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
Sequence Similarities

A novel halophilic archaeon, strain EJ-32T, was isolated from water from Lake Ejinor in Inner Mongolia, China. The taxonomy of strain EJ-32T was studied by using a polyphasic approach. On the basis of 16S rRNA gene sequence similarities, strain EJ-32T was shown to be phylogenetically related to Halorubrum coriense (97.9 %), Halorubrum trapanicum (97.9 %), Halorubrum sodomense (97.8 %), Halorubrum tebenquichense (97.8 %), Halorubrum xinjiangense (97.6 %), Halorubrum terrestre (97.4 %), Halorubrum distributum (97.1 %) and Halorubrum saccharovorum (96.4 %). Strain EJ-32T was found to be neutrophilic, non-motile and Gram-negative. It grew in medium containing saturation concentrations of NaCl and did not require magnesium for optimal growth. The G+C content of the DNA is 64.0 mol%. Values for DNA–DNA hybridization with respect to phylogenetically related Halorubrum species were ≤49 %, indicating that EJ-32T constitutes a different genospecies. The data show that strain EJ-32T represents a novel species of the genus Halorubrum, for which the name Halorubrum ejinorense sp. nov. is proposed. The type strain is EJ-32T (=CECT 7194T=CGMCC 1.6782T=JCM 14265T).

scholarly journals Veillonella denticariosi sp. nov., isolated from human carious dentine

2007 ◽  
Vol 57 (12) ◽  
pp. 2844-2848 ◽  
Author(s):  
Roy Byun ◽  
Jean-Philippe Carlier ◽  
Nicholas A. Jacques ◽  
Helene Marchandin ◽  
Neil Hunter
Keyword(s):  
Fatty Acids ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Gram Negative ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Carious Dentine ◽  
Distinct Lineage

Selective culture of human carious dentine for Veillonella strains resulted in the isolation of two strains of a Gram-negative, coccus-shaped bacterium that has not been described previously. Comparative 16S rRNA and dnaK gene sequence analysis indicated that the two strains were homogeneous and comprised a distinct lineage within the genus Veillonella, phylogenetically most closely related to Veillonella rodentium. This was supported by DNA–DNA hybridization, which showed clearly that the two strains were similar and distinct from other Veillonella species, and the production of major cellular fatty acids (C13 : 0 and C17 : 1 ω8), which is consistent with other members of the genus Veillonella. Based on these observations, strains RBV81 and RBV106T represent a novel species, for which the name Veillonella denticariosi sp. nov. is proposed, with the type strain RBV106T (=CIP 109448T =CCUG 54362T =DSM 19009T).

scholarly journals Vogesella mureinivorans sp. nov., a peptidoglycan-degrading bacterium from lake water

2010 ◽  
Vol 60 (10) ◽  
pp. 2467-2472 ◽  
Author(s):  
Niels O. G. Jørgensen ◽  
Kristian K. Brandt ◽  
Ole Nybroe ◽  
Michael Hansen
Keyword(s):  
Lake Water ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
Degrading Bacterium ◽  
Genotypic Characteristics ◽  
The 16S Rrna Gene

A novel, non-pigmented, rod-shaped, Gram-negative strain was isolated from mesotrophic lake water in Zealand, Denmark. Phylogenetic analysis of the 16S rRNA gene sequence of the bacterium, designated strain 389T, indicated that the strain belonged to the genus Vogesella and formed a monophyletic group with Vogesella perlucida DS-28T (99.1 % nucleotide similarity); it was less related to Vogesella indigofera ATCC 19706T (96.9 % similarity) and Vogesella lacus LMG 24504T (96.8 % similarity). Hybridization of DNA from strain 389T and V. perlucida demonstrated a reassociation of 50.6±9.6 %. The DNA G+C content of strain 389T was 61.2 mol%. The fatty acid profile of the strain differed from those of the other strains representing the genus Vogesella by a high content of C16 : 1 ω7c and/or iso-C15 : 0 2-OH (71.6 %) and a lower content of C16 : 0. Strain 389T was capable of degrading peptidoglycan and had chitinase and lysozyme activities, possibly associated with the degradation of peptidoglycan, and had capacity for degradation of several other polymer compounds. Based on phenotypic and genotypic characteristics, strain 389T represents a novel species, for which we propose the name Vogesella mureinivorans sp. nov. The type strain is 389T (=DSM 21247T =LMG 25302T).

scholarly journals Rheinheimera texasensis sp. nov., a halointolerant freshwater oligotroph

2007 ◽  
Vol 57 (10) ◽  
pp. 2376-2380 ◽  
Author(s):  
Mubina M. Merchant ◽  
Allana K. Welsh ◽  
Robert J. C. McLean
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Gram Negative ◽  
Physiological And Biochemical

A Gram-negative, rod-shaped, motile, non-spore-forming bacterium, designated strain A62-14BT, was isolated from a constant-temperature, spring-fed, freshwater lake. On the basis of the complete 16S rRNA gene sequence, strain A62-14BT was shown to belong to the class Gammaproteobacteria, being most closely related to Rheinheimera sp. HTB082 (96.2 % sequence similarity), Rheinheimera baltica (95.01 %), Rheinheimera pacifica (96.35 %), Rheinheimera perlucida and Alishewanella fetalis (95.9 %). The major fatty acids (C16 : 1 ω7c, 38.56 %; C16 : 0, 19.04 %; C12 : 0 3-OH, 12.83 %; C18 : 1 ω7c, 7.70 %) and the motility of strain A62-14BT support its affiliation to the genus Rheinheimera. The salt intolerance of strain A62-14BT, together with the results of other physiological and biochemical tests, allowed the differentiation of this strain from the three species of the genus Rheinheimera with validly published names. Therefore strain A62-14BT represents a novel species of the genus Rheinheimera, for which the name Rheinheimera texasensis sp. nov. is proposed. The type strain is A62-14BT (=ATCC BAA-1235T=DSM 17496T). The description of the genus Rheinheimera is emended to reflect the halointolerance and freshwater origin of strain A62-14BT.

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