scholarly journals Aminiphilus circumscriptus gen. nov., sp. nov., an anaerobic amino-acid-degrading bacterium from an upflow anaerobic sludge reactor

2007 ◽  
Vol 57 (8) ◽  
pp. 1914-1918 ◽  
Author(s):  
C. Díaz ◽  
S. Baena ◽  
M.-L. Fardeau ◽  
B. K. C. Patel
Keyword(s):  
Anaerobic Sludge ◽  
Rrna Gene ◽  
Brewery Wastewater ◽  
Polyphasic Analysis ◽  
Degrading Bacterium ◽  
Branched Chain Fatty Acids ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Casamino Acids ◽  
Branched Chain

Strain ILE-2T was isolated from an upflow anaerobic sludge bed reactor treating brewery wastewater. The motile, non-sporulating, slightly curved cells (2–4×0.1 μm) stained Gram-negative and grew optimally at 42 °C and pH 7.1 with 0.5 % NaCl. The strain required yeast extract for growth and fermented Casamino acids, peptone, isoleucine, arginine, lysine, alanine, valine, glutamate, histidine, glutamine, methionine, malate, fumarate, glycerol and pyruvate to acetate, propionate and minor amounts of branched-chain fatty acids. Carbohydrates, formate, acetate, propionate, butyrate, isovalerate, methanol, ethanol, 1-propanol, butanol, lactate, succinate, starch, casein, gelatin, xylan and a number of other amino acids were not utilized. The DNA G+C content of strain ILE-2T was 52.7 mol%. 16S rRNA gene sequence analysis revealed that ILE-2T was distantly related to members of the genera Aminobacterium (83 % similarity) and Aminomonas (85 % similarity) in the family Syntrophomonadaceae, order Clostridiales, phylum Firmicutes. On the basis of the results of our polyphasic analysis, strain ILE-2T represents a novel species and genus within the family Syntrophomonadaceae, for which the name Aminiphilus circumscriptus gen. nov., sp. nov. is proposed. The type strain of Aminiphilus circumscriptus is ILE-2T (=DSM 16581T =JCM 14039T).

Dyadobacter soli sp. nov., a starch-degrading bacterium isolated from farm soil

2010 ◽  
Vol 60 (11) ◽  
pp. 2577-2582 ◽  
Author(s):  
Myungjin Lee ◽  
Sung-Geun Woo ◽  
Joonhong Park ◽  
Soon-Ae Yoo
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Degrading Bacterium ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Low Levels

A Gram-negative, non-motile, aerobic bacterial strain, designated MJ20T, was isolated from farm soil near Daejeon (South Korea) and was characterized taxonomically by using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that strain MJ20T belongs to the family Cytophagaceae, class Sphingobacteria, and was related most closely to Dyadobacter fermentans DSM 18053T (98.9 % sequence similarity), Dyadobacter beijingensis JCM 14200T (98.0 %) and Dyadobacter ginsengisoli KCTC 12589T (96.4 %). The G+C content of the genomic DNA of strain MJ20T was 48.5 mol%. The detection of MK-7 as the predominant menaquinone and a fatty acid profile with summed feature 4 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH), iso-C15 : 0, C16 : 0 and C16 : 1 ω5c as major components supported the affiliation of strain MJ20T to the genus Dyadobacter. The new isolate exhibited relatively low levels of DNA–DNA relatedness with respect to D. fermentans DSM 18053T (mean±sd of three determinations, 47±7 %) and D. beijingensis JCM 14200T (38±8 %). On the basis of its phenotypic and genotypic properties together with phylogenetic distinctiveness, strain MJ20T (=KCTC 22481T =JCM 16232T) should be classified in the genus Dyadobacter as the type strain of a novel species, for which the name Dyadobacter soli sp. nov. is proposed.

scholarly journals Desulfopila inferna sp. nov., a sulfate-reducing bacterium isolated from the subsurface of a tidal sand-flat

2010 ◽  
Vol 60 (7) ◽  
pp. 1626-1630 ◽  
Author(s):  
Antje Gittel ◽  
Michael Seidel ◽  
Jan Kuever ◽  
Alexander S. Galushko ◽  
Heribert Cypionka ◽  
...  
Keyword(s):  
Cellular Fatty Acid ◽  
Fatty Acid Analysis ◽  
Rrna Gene ◽  
Sand Flat ◽  
Sulfate Reducing ◽  
Branched Chain Fatty Acids ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Tidal Sand ◽  
Branched Chain

A Gram-negative, rod-shaped, sulfate-reducing bacterium (strain JS_SRB250LacT) was isolated from a tidal sand-flat in the German Wadden Sea. 16S rRNA gene sequence analysis showed that strain JS_SRB250LacT belonged to the Desulfobulbaceae (Deltaproteobacteria), with Desulfopila aestuarii MSL86T being the closest recognized relative (94.2 % similarity). Higher similarity (96.6 %) was shared with ‘Desulfobacterium corrodens’ IS4, but this name has not been validly published. The affiliation of strain JS_SRB250LacT to the genus Desulfopila was further supported by analysis of aprBA gene sequences and shared physiological characteristics, in particular the broad range of organic electron donors used for sulfate reduction. Compared with Desulfopila aestuarii MSL86T, strain JS_SRB250LacT additionally utilized butyrate and succinate and grew chemolithoautotrophically with hydrogen as an electron donor. CO dehydrogenase activity was demonstrated, indicating that the reductive acetyl-CoA pathway (Wood–Ljungdahl pathway) was used for CO2 fixation. Results of cellular fatty acid analysis allowed chemotaxonomic differentiation of strain JS_SRB250LacT from Desulfopila aestuarii MSL86T by the presence of C17 : 0 cyclo and the absence of hydroxy and unsaturated branched-chain fatty acids. Based on phylogenetic, physiological and chemotaxonomic characteristics, strain JS_SRB250LacT represents a novel species of the genus Desulfopila, for which the name Desulfopila inferna sp. nov. is proposed. The type strain is JS_SRB250LacT (=DSM 19738T =NBRC 103921T).

scholarly journals Syntrophomonas curvata sp. nov., an anaerobe that degrades fatty acids in co-culture with methanogens

2004 ◽  
Vol 54 (3) ◽  
pp. 969-973 ◽  
Author(s):  
Chunyang Zhang ◽  
Xiaoli Liu ◽  
Xiuzhu Dong
Keyword(s):  
Fatty Acids ◽  
Sequence Similarity ◽  
Anaerobic Sludge ◽  
Rrna Gene ◽  
Branched Chain Fatty Acids ◽  
Curved Rods ◽  
Branched Chain ◽  
Anaerobic Sludge Blanket ◽  
The Relationship ◽  
Chain Fatty Acids

A strict anaerobe (strain GB8-1T) that degraded straight-chain fatty acids with C4–C18 in syntrophic association with methanogens was isolated from an up-flow anaerobic sludge blanket reactor treating beer wastewater. Strain GB8-1T degraded 1 mol butyrate into about 2 mol acetate and 1 mol (presumably) H2 in co-culture with a methanogen. Neither branched-chain fatty acids nor benzoate could be degraded. Strain GB8-1T could grow on crotonate in pure culture and converted 1 mol crotonate to 0·5 mol butyrate and 1 mol acetate. Generation time was about 11 h when grown on crotonate at 37 °C. Fumarate, sulfate, thiosulfate, sulfur and nitrate could not serve as electron acceptors for strain GB8-1T to degrade butyrate. Cells of strain GB8-1T were curved rods with Gram-negative cell walls; no spores were observed. The DNA G+C content was 46·6 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain GB8-1T was related most closely to the fatty acid-oxidizing, syntrophic bacterium Syntrophomonas sapovorans DSM 3441T; however, the relationship was not very close (95·4 % sequence similarity). Some phenotypic features also differentiated strain GB8-1T from Syntrophomonas sapovorans DSM 3441T. Therefore, a novel species, Syntrophomonas curvata sp. nov., is proposed. The type strain is GB8-1T (=CGMCC 1.5010T=DSM 15682T).

scholarly journals Auritidibacter ignavus gen. nov., sp. nov., of the family Micrococcaceae isolated from an ear swab of a man with otitis externa, transfer of the members of the family Yaniellaceae Li et al. 2008 to the family Micrococcaceae and emended description of the suborder Micrococcineae

2011 ◽  
Vol 61 (2) ◽  
pp. 223-230 ◽  
Author(s):  
A. F. Yassin ◽  
H. Hupfer ◽  
C. Siering ◽  
H.-P. Klenk ◽  
P. Schumann
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Straight Chain ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Emended Description ◽  
A Cell ◽  
Branched Chain

A Gram-reaction-positive, aerobic, catalase-positive, non-spore-forming, rod-shaped bacterium designated IMMIB L-1656T was isolated from an ear swab of a man and characterized using a polyphasic approach. 16S rRNA gene sequence analysis indicated that strain IMMIB L-1656T is related to members of the family Micrococcaceae (<95.1 % sequence similarity). Anaylsis using different phylogenetic algorithms consistently grouped strain IMMIB L-1656T with members of the genus Yaniella. The organism posessed a cell-wall murein based on l-lysine (variation A4α, type l-Lys–Gly–l-Glu), MK-10 as the predominant menaquinone and long-chain cellular fatty acids of straight-chain and branched-chain saturated types (with iso-C15 : 0 and anteiso-C17 : 0 predominating). The polar lipids included diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol in addition to unknown glycolipids. The DNA G+C content was 59.7 mol%. Based on its distinctive genotypic and phenotypic characteristics, strain IMMIB L-1656T represents a novel species in a novel genus, for which the name Auritidibacter ignavus gen. nov., sp. nov. is proposed. We also propose that members of the family Yaniellaceae be transferred to the family Micrococcaceae with amendments to the description of the suborder Micrococcineae. The type strain of Auritidibacter ignavus is IMMIB L-1656T (=DSM 45359T =CCUG 57943T).

scholarly journals Fluviicola taffensis gen. nov., sp. nov., a novel freshwater bacterium of the family Cryomorphaceae in the phylum ‘Bacteroidetes’

2005 ◽  
Vol 55 (5) ◽  
pp. 2189-2194 ◽  
Author(s):  
Louise A. O'Sullivan ◽  
Joachim Rinna ◽  
Gavin Humphreys ◽  
Andrew J. Weightman ◽  
John C. Fry
Keyword(s):  
Fatty Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Negative Bacterium ◽  
Polyphasic Analysis ◽  
The Family ◽  
Novel Genus And Species ◽  
Yellow Orange ◽  
Branched Chain ◽  
The 16S Rrna Gene

A novel, strictly aerobic, Gram-negative, yellow–orange-pigmented, motile, catalase-positive, oxidase-negative bacterium, RW262T, was isolated from water of the River Taff, Cardiff, UK, during January 2000. Phylogenetic analysis of the 16S rRNA gene indicated that strain RW262T was a member of the family Cryomorphaceae within the phylum ‘Bacteroidetes’. The DNA G+C content of strain RW262T was 37·2 mol%. The predominant fatty acid was the branched-chain saturated fatty acid i15 : 0 (44·2 %). On the basis of polyphasic analysis of phenotypic, chemotaxonomic, genotypic and phylogenetic characteristics, it is proposed that this freshwater bacterium represents a novel genus and species within the family Cryomorphaceae, Fluviicola taffensis gen. nov., sp. nov. The type strain is RW262T (=NCIMB 13979T=DSM 16823T).

scholarly journals Winogradskyella thalassocola gen. nov., sp. nov., Winogradskyella epiphytica sp. nov. and Winogradskyella eximia sp. nov., marine bacteria of the family Flavobacteriaceae

2005 ◽  
Vol 55 (1) ◽  
pp. 49-55 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Suk Kyun Han ◽  
Cindy Snauwaert ◽  
Marc Vancanneyt ◽  
...  
Keyword(s):  
Type Strain ◽  
New Genus ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
Peter The Great ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Major Respiratory Quinone

Three novel heterotrophic, Gram-negative, yellow-pigmented, aerobic, gliding, oxidase- and catalase-positive bacteria were isolated from algae collected in the Gulf of Peter the Great, Sea of Japan. 16S rRNA gene sequence analysis revealed that the strains studied represented members of the family Flavobacteriaceae and showed 93·5–93·8 % similarity with their closest relative, Psychroserpens burtonensis. The DNA G+C content of the strains was 34–37 mol%. The major respiratory quinone was MK-6. The predominant fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C15 : 1, iso-C16 : 0-3OH and iso-C17 : 0-3OH. On the basis of their phenotypic, chemotaxonomic, genotypic and phylogenetic characteristics, the newly described bacteria have been assigned to the new genus Winogradskyella gen. nov., as Winogradskyella thalassocola sp. nov. (type strain, KMM 3907T=KCTC 12221T=LMG 22492T=DSM 15363T), Winogradskyella epiphytica sp. nov. (type strain, KMM 3906T=KCTC 12220T=LMG 22491T=CCUG 47091T) and Winogradskyella eximia sp. nov. (type strain, KMM 3944T (=KCTC 12219T=LMG 22474T).

scholarly journals Promicromonospora iranensis sp. nov., an actinobacterium isolated from rhizospheric soil

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 3314-3319 ◽  
Author(s):  
Fatemeh Mohammadipanah ◽  
Javad Hamedi ◽  
Cathrin Spröer ◽  
María del Carmen Montero-Calasanz ◽  
Peter Schumann ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Fatty Acid Pattern ◽  
Molecular Characteristics ◽  
Rrna Gene ◽  
Fars Province ◽  
Pairwise Sequence Identity ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Branched Chain

A novel strain of the genus Promicromonospora , designated HM 792T, was isolated from soil in Fars Province, Iran. On ISP 2 medium, the yellow-pigmented isolate produced long and branched hyphae that developed into a large number of irregularly shaped spores. It showed growth at 25–30 °C and pH 6.0–9.0 with 0–8 % (w/v) NaCl. Chemotaxonomic and molecular characteristics of the isolate matched those described for members of the genus Promicromonospora . Whole-cell hydrolysates of strain HM 792T contained the amino acids d-glutamic acid, l-alanine and l-lysine along with the sugars glucose and ribose. The main polar lipids were diphosphatidylglycerol, two unknown phospholipids, two unknown glycolipids and two unknown phosphoglycolipids, complemented by minor concentrations of phosphatidylinositol and phosphatidylglycerol. MK-9(H4) was the predominant menaquinone. The fatty-acid pattern was composed mainly of the saturated branched-chain acids anteiso-C15 : 0 and iso-C15 : 0. 16S rRNA gene sequence analysis showed the highest pairwise sequence identity (96.6–99.0 %) with the members of the genus Promicromonospora . Based on phenotypic and genotypic features, strain HM 792T is considered to represent a novel species of the genus Promicromonospora , for which the name Promicromonospora iranensis sp. nov. is proposed. Strain HM 792T ( = DSM 45554T = UTMC00792T = CCUG 63022T) is the type strain.

Rhabdothermus arcticus gen. nov., sp. nov., a member of the family Thermaceae isolated from a hydrothermal vent chimney in the Soria Moria vent field on the Arctic Mid-Ocean Ridge

2011 ◽  
Vol 61 (9) ◽  
pp. 2197-2204 ◽  
Author(s):  
Bjørn O. Steinsbu ◽  
Brian J. Tindall ◽  
Vigdis L. Torsvik ◽  
Ingunn H. Thorseth ◽  
Frida L. Daae ◽  
...  
Keyword(s):  
The Arctic ◽  
Rrna Gene ◽  
Organic Substrates ◽  
Mid Ocean Ridge ◽  
The Family ◽  
Optimum Ph ◽  
Casamino Acids ◽  
Ocean Ridge ◽  
Complex Organic ◽  
Acetate Butyrate

A novel thermophilic member of the family Thermaceae, designated strain 2M70-1T, was isolated from the wall of an active white smoker chimney collected in the Soria Moria vent field at 71 °N in the Norwegian–Greenland Sea. Cells of the strain were Gram-negative, non-motile rods. Growth was observed at 37–75 °C (optimum 65 °C), at pH 6–8 (optimum pH 7.3) and in 1–5 % (w/v) NaCl (optimum 2.5–3.5 %). The isolate was aerobic but could also grow anaerobically using nitrate or elemental sulfur as electron acceptors. The strain was obligately heterotrophic, growing on complex organic substrates like yeast extract, Casamino acids, tryptone and peptone. Pyruvate, acetate, butyrate, sucrose, rhamnose and maltodextrin were used as complementary substrates. The G+C content of the genomic DNA was 68 mol%. Cells possessed characteristic phospholipids and glycolipids. Major fatty acids constituted saturated and unsaturated iso-branched and saturated anteiso-branched forms. Menaquinone 8 was the sole respiratory lipoquinone. Phylogenetic analysis of 16S rRNA gene sequences placed the strain in the family Thermaceae in the phylum ‘Deinococcus–Thermus’, which is consistent with the chemotaxonomic data. On the basis of phenotypic and phylogenetic data, strain 2M70-1T ( = JCM 15963T  = DSM 22268T) represents the type strain of a novel species of a novel genus, for which the name Rhabdothermus arcticus gen. nov., sp. nov. is proposed.

scholarly journals Maribacter gen. nov., a new member of the family Flavobacteriaceae, isolated from marine habitats, containing the species Maribacter sedimenticola sp. nov., Maribacter aquivivus sp. nov., Maribacter orientalis sp. nov. and Maribacter ulvicola sp. nov.

2004 ◽  
Vol 54 (4) ◽  
pp. 1017-1023 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Suk Kyun Han ◽  
Anatoly M. Lysenko ◽  
Manfred Rohde ◽  
...  
Keyword(s):  
Sea Water ◽  
Rrna Gene ◽  
The Novel ◽  
Peter The Great ◽  
Marine Habitats ◽  
Ulva Fenestrata ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Novel Bacteria ◽  
Type Strains

Six novel gliding, heterotrophic, Gram-negative, yellow-pigmented, aerobic, oxidase- and catalase-positive bacteria were isolated from the green alga Ulva fenestrata, sea water and a bottom sediment sample collected in the Gulf of Peter the Great, Sea of Japan. 16S rRNA gene sequence analysis revealed that the strains studied were members of the family Flavobacteriaceae. On the basis of their phenotypic, chemotaxonomic, genotypic and phylogenetic characteristics, the novel bacteria have been assigned to the new genus Maribacter gen. nov., as Maribacter sedimenticola sp. nov., Maribacter orientalis sp. nov., Maribacter aquivivus sp. nov. and Maribacter ulvicola sp. nov., with the type strains KMM 3903T (=KCTC 12966T=CCUG 47098T), KMM 3947T (=KCTC 12967T=CCUG 48008T), KMM 3949T (=KCTC 12968T=CCUG 48009T) and KMM 3951T (=KCTC 12969T=DSM 15366T), respectively.

Imtechella halotolerans gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from estuarine water

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2624-2630 ◽  
Author(s):  
Vikram Surendra ◽  
Pant Bhawana ◽  
Korpole Suresh ◽  
T. N. R. Srinivas ◽  
Pinnaka Anil Kumar
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Estuarine Water ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Pairwise Sequence Similarity

A novel Gram-negative, rod-shaped, non-motile, non-sporulating bacterium, designated strain K1T, was isolated from an estuarine water sample collected from Kochi, Kerala, India. Colonies on marine agar were circular, 2.0–2.5 mm in diameter, shiny, yellow, translucent and convex with entire margins. Strain K1T was negative for ornithine decarboxylase, lysine decarboxylase, nitrate reduction and H2S production. The fatty acids were dominated by iso-branched components with a high abundance of iso-C15 : 0, iso-C15 : 1 G and iso-C17 : 0 3-OH; MK-6 (64 %) and MK-7 (34 %) were found as major respiratory quinones; and phosphatidylethanolamine, two unidentified aminolipids, four unidentified phospholipids and two unidentified lipids were major polar lipids. The DNA G+C content of strain K1T was 46.1 mol%. 16S rRNA gene sequence analysis indicated that strain K1T was related most closely to the type strain of Zhouia amylolytica (pairwise sequence similarity of 93.0 %). Phylogenetic analysis showed that strain K1T formed a distinct branch within the family Flavobacteriaceae and clustered with the clade comprising species of the genera Zhouia , Coenonia and Capnocytophaga , being phylogenetically most closely related to the type strain of Zhouia amylolytica at a distance of 9.2 % (90.8 % similarity). Other species of the genera within the same clade were related to strain K1T at distances of 15.0–23.1 %. Based on phenotypic and chemotaxonomic characteristics and on phylogenetic inference, strain K1T is considered to represent a novel species of a new genus in the family Flavobacteriaceae , for which the name Imtechella halotolerans gen. nov., sp. nov. is proposed. The type strain of Imtechella halotolerans is K1T ( = MTCC 11055T = JCM 17677T).

Sign in / Sign up

Export Citation Format

Share Document