Exemplar Abstract for Aurantimonas coralicida Denner et al. 2003 emend. Hördt et al. 2020.

2003 ◽  
Author(s):  
Charles Thomas Parker ◽  
Nicole Danielle Osier ◽  
George M Garrity
Keyword(s):  
Aurantimonas Coralicida

Exemplar Abstract for Aurantimonas coralicida Denner et al. 2003 emend. Hördt et al. 2020.

2003 ◽  
Author(s):  
Charles Thomas Parker ◽  
Dorothea Taylor ◽  
George M Garrity
Keyword(s):  
Aurantimonas Coralicida

Aurantimonas marina sp. nov., isolated from deep-sea sediment

2021 ◽  
Vol 71 (8) ◽  
Author(s):  
Lei Song ◽  
Hongcan Liu ◽  
Qinglei Sun ◽  
Xiuzhu Dong ◽  
Yuguang Zhou
Keyword(s):  
Deep Sea ◽  
Type Species ◽  
Sequence Similarity ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Deep Sea Sediment ◽  
Link Type ◽  
Aurantimonas Coralicida

A novel bacterial strain, designated SW136T, was isolated from a deep-sea sediment sample collected from the South China Sea. Cells were Gram-stain-negative, aerobic, catalase-positive and oxidase-positive. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SW136T represented a novel member of the genus Aurantimonas , forming a distinct cluster with ‘ Aurantimonas litoralis ’, Aurantimonas coralicida and Aurantimonas manganoxydans (98.2, 98.1 and 97.9% sequence similarity, respectively). The predominant cellular fatty acid of strain SW136T was C18 : 1  ω7c. Strain SW136T contained ubiquinone-10 as the dominant respiratory quinone, and diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine and phosphatidylglycerol as the major polar lipids. The genomic DNA G+C content was 64.3 mol%. The average nucleotide identity and digital DNA–DNA hybridization values of strain SW136T with A. coralicida CGMCC 1.12222T and A. manganoxydans CGMCC 1.12225T were 78.8 and 78.6 % and 21.5 and 25.5 %, respectively. On the basis of phylogenetic inference and phenotypic characteristics, we propose that strain SW136T represents a novel species of the genus Aurantimonas , with the name Aurantimonas marina sp. nov. The type strain is SW136T (=CGMCC 1.17725T=KCTC 82366T).

scholarly journals Genomic Metrics Applied to Rhizobiales (Hyphomicrobiales): Species Reclassification, Identification of Unauthentic Genomes and False Type Strains

2021 ◽  
Vol 12 ◽  
Author(s):  
Camila Gazolla Volpiano ◽  
Fernando Hayashi Sant’Anna ◽  
Adriana Ambrosini ◽  
Jackson Freitas Brilhante de São José ◽  
Anelise Beneduzi ◽  
...  
Keyword(s):  
Bacterial Species ◽  
R Package ◽  
High Identity ◽  
Mesorhizobium Loti ◽  
Aurantimonas Coralicida ◽  
Downstream Analysis ◽  
Chelatobacter Heintzii ◽  
Species Descriptions ◽  
Type Strains ◽  
Term Type

Taxonomic decisions within the order Rhizobiales have relied heavily on the interpretations of highly conserved 16S rRNA sequences and DNA–DNA hybridizations (DDH). Currently, bacterial species are defined as including strains that present 95–96% of average nucleotide identity (ANI) and 70% of digital DDH (dDDH). Thus, ANI values from 520 genome sequences of type strains from species of Rhizobiales order were computed. From the resulting 270,400 comparisons, a ≥95% cut-off was used to extract high identity genome clusters through enumerating maximal cliques. Coupling this graph-based approach with dDDH from clusters of interest, it was found that: (i) there are synonymy between Aminobacter lissarensis and Aminobacter carboxidus, Aurantimonas manganoxydans and Aurantimonas coralicida, “Bartonella mastomydis,” and Bartonella elizabethae, Chelativorans oligotrophicus, and Chelativorans multitrophicus, Rhizobium azibense, and Rhizobium gallicum, Rhizobium fabae, and Rhizobium pisi, and Rhodoplanes piscinae and Rhodoplanes serenus; (ii) Chelatobacter heintzii is not a synonym of Aminobacter aminovorans; (iii) “Bartonella vinsonii” subsp. arupensis and “B. vinsonii” subsp. berkhoffii represent members of different species; (iv) the genome accessions GCF_003024615.1 (“Mesorhizobium loti LMG 6,125T”), GCF_003024595.1 (“Mesorhizobium plurifarium LMG 11,892T”), GCF_003096615.1 (“Methylobacterium organophilum DSM 760T”), and GCF_000373025.1 (“R. gallicum R-602 spT”) are not from the genuine type strains used for the respective species descriptions; and v) “Xanthobacter autotrophicus” Py2 and “Aminobacter aminovorans” KCTC 2,477T represent cases of misuse of the term “type strain”. Aminobacter heintzii comb. nov. and the reclassification of Aminobacter ciceronei as A. heintzii is also proposed. To facilitate the downstream analysis of large ANI matrices, we introduce here ProKlust (“Prokaryotic Clusters”), an R package that uses a graph-based approach to obtain, filter, and visualize clusters on identity/similarity matrices, with settable cut-off points and the possibility of multiple matrices entries.

scholarly journals Aurantimonas ureilytica sp. nov., isolated from an air sample

2007 ◽  
Vol 57 (8) ◽  
pp. 1717-1720 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Seung-Hee Yoo ◽  
Jae-Ho Joa ◽  
Ki Hwan Lee ◽  
...  
Keyword(s):  
Phylogenetic Trees ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Family ◽  
Air Sample ◽  
Aurantimonas Coralicida ◽  
Ubiquinone 10 ◽  
The 16S Rrna Gene ◽  
Sequence Similarities

A novel strain, designated 5715S-12T, was isolated from an air sample collected from Suwon region, Republic of Korea, using R2A medium. The cells were strictly aerobic, Gram-negative, motile, short rods. Comparison of the 16S rRNA gene sequence of strain 5715S-12T showed the highest sequence similarities to Aurantimonas altamirensis S21BT (95.9 %) and Aurantimonas coralicida WP1T (95.4 %). Phylogenetic trees indicated that the strain formed a cluster with members of the family Aurantimonadaceae (A. altamirensis, A. coralicida and Fulvimarina pelagi). The major fatty acid was C18 : 1 ω7c. The predominant isoprenoid quinone was ubiquinone 10 (Q-10). Diphosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, phosphatidyldimethylethanolamine, phosphatidylglycerol, phosphatidylcholine and four unknown lipids were found as the polar lipid components. The DNA G+C content was 67.0 mol%. On the basis of the phenotypic and phylogenetic features studied, we propose that strain 5715S-12T be assigned to a novel species of the genus Aurantimonas, for which the name Aurantimonas ureilytica sp. nov. (type strain 5715S-12T =KACC 11607T =DSM 18598T) is proposed.

scholarly journals Aurantimonas coralicida gen. nov., sp. nov., the causative agent of white plague type II on Caribbean scleractinian corals

2003 ◽  
Vol 53 (4) ◽  
pp. 1115-1122 ◽  
Author(s):  
Ewald B. M. Denner ◽  
Garriet W. Smith ◽  
Hans-Jürgen Busse ◽  
Peter Schumann ◽  
Thomas Narzt ◽  
...  
Keyword(s):  
Causative Agent ◽  
Scleractinian Corals ◽  
Type Ii ◽  
White Plague ◽  
White Plague Type Ii ◽  
Aurantimonas Coralicida

scholarly journals Martelella mediterranea gen. nov., sp. nov., a novel α-proteobacterium isolated from a subterranean saline lake

2005 ◽  
Vol 55 (2) ◽  
pp. 955-959 ◽  
Author(s):  
Raúl Rivas ◽  
Salud Sánchez-Márquez ◽  
Pedro F. Mateos ◽  
Eustoquio Martínez-Molina ◽  
Encarna Velázquez
Keyword(s):  
Gene Sequence ◽  
Saline Lake ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Novel Genus ◽  
Gene Sequence Analysis ◽  
Novel Genus And Species ◽  
Separate Line ◽  
Aurantimonas Coralicida

A bacterial strain was isolated from the water of Lake Martel in Mallorca (Spain). The isolate, designated MACL11T, was halotolerant and strictly aerobic. The cells were non-motile, non-spore-forming, Gram-negative short rods. Comparative 16S rRNA gene sequence analysis revealed that MACL11T represents a separate line of descent within the order ‘Rhizobiales’ of the class ‘Alphaproteobacteria’. Strain MACL11T was most closely related to the genera Rhizobium (93·3 % sequence similarity to Rhizobium rhizogenes), Aurantimonas (90·3 % sequence similarity to Aurantimonas coralicida) and Fulvimarina (90·3 % sequence similarity to Fulvimarina pelagi). Chemotaxonomically, strain MACL11T was characterized by the presence of Q-10 as the major respiratory lipoquinone. The major fatty acids detected were C19 : 0 cycloω8c, C18 : 1 ω7c, C16 : 0 and 11-methyl C18 : 1 ω7c. The G+C content of the DNA was 57·4 mol%. Oxidase and catalase activities were present. Growth with many different carbohydrates as the sole carbon source was observed. The data from this polyphasic study suggest that this bacterium belongs to a novel genus of the order ‘Rhizobiales’ and is not associated with any of the known families of this order. It is proposed that isolate MACL11T should be classified in a novel genus and species, Martelella mediterranea gen. nov., sp. nov., with MACL11T (=LMG 22193T=CECT 5861T) as the type strain.

scholarly journals Aurantimonas altamirensis sp. nov., a member of the order Rhizobiales isolated from Altamira Cave

2006 ◽  
Vol 56 (11) ◽  
pp. 2583-2585 ◽  
Author(s):  
Valme Jurado ◽  
Juan M. Gonzalez ◽  
Leonila Laiz ◽  
Cesareo Saiz-Jimenez
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
Wide Range ◽  
The Family ◽  
Aurantimonas Coralicida

A bacterial strain, S21BT, was isolated from Altamira Cave (Cantabria, Spain). The cells were Gram-negative, short rods growing aerobically. Comparative 16S rRNA gene sequence analysis revealed that strain S21BT represented a separate subline of descent within the family ‘Aurantimonadaceae’ (showing 96 % sequence similarity to Aurantimonas coralicida) in the order Rhizobiales (Alphaproteobacteria). The major fatty acids detected were C16 : 0 and C18 : 1 ω7c. The G+C content of the DNA from strain S21BT was 71.8 mol%. Oxidase and catalase activities were present. Strain S21BT utilized a wide range of substrates for growth. On the basis of the results of this polyphasic study, isolate S21BT represents a novel species of the genus Aurantimonas, for which the name Aurantimonas altamirensis sp. nov. is proposed. The type strain is S21BT (=CECT 7138T=LMG 23375T).

scholarly journals Reclassification of Aurantimonas altamirensis (Jurado et al. 2006), Aurantimonas ureilytica (Weon et al. 2007) and Aurantimonas frigidaquae (Kim et al. 2008) as members of a new genus, Aureimonas gen. nov., as Aureimonas altamirensis gen. nov., comb. nov., Aureimonas ureilytica comb. nov. and Aureimonas frigidaquae comb. nov., and emended descriptions of the genera Aurantimonas and Fulvimarina

2011 ◽  
Vol 61 (11) ◽  
pp. 2722-2728 ◽  
Author(s):  
K. Rathsack ◽  
J. Reitner ◽  
E. Stackebrandt ◽  
B. J. Tindall
Keyword(s):  
16S Rrna ◽  
Type Strain ◽  
New Genus ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Sequence Analyses ◽  
Biochemical Tests ◽  
16S Rrna Sequence ◽  
Additional Information ◽  
Aurantimonas Coralicida

Members of the genera Aurantimonas and Fulvimarina have largely been described on the basis of 16S rRNA gene sequence analyses, biochemical tests and limited chemotaxonomic data. Examination of the polar lipid compositions of members of these two genera indicated that although the patterns were similar with regards the phospholipid and amino lipid compositions, there were clear differences in the presence or absence of the glycolipid sulfoquinovosyldiacylglycerol (SQDG). This glycolipid was absent in members of the species Aurantimonas coralicida and Fulvimarina pelagi but was present in Aurantimonas altamirensis, Aurantimonas ureilytica and Aurantimonas frigidaquae. These results are also consistent with the 16S rRNA sequence-based grouping. We therefore propose that the genus Aurantimonas be divided further to reflect this additional information. Thus, it is recommended that Aurantimonas altamirensis, Aurantimonas ureilytica and Aurantimonas frigidaquae are transferred to a new genus, Aureimonas gen. nov., as Aureimonas altamirensis gen. nov., comb. nov. (type strain S21BT  = CECT 7138T  = CIP 109525T  = KCTC 22106T  = LMG 23375T  = DSM 21988T), Aureimonas ureilytica comb. nov. (type strain 5715S-12T  = KACC 11607T  = DSM 18598T  = CIP 109815T) and Aureimonas frigidaquae comb. nov. (type strain CW5T  = KCTC 12893T  = JCM 14755T  = DSM 21987T). The type species of the new genus is Aureimonas altamirensis. Additionally, emended descriptions of the genera Aurantimonas and Fulvimarina are provided.

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