Myroides xuanwuensis sp. nov., a mineral-weathering bacterium isolated from forest soil

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 621-624 ◽  
Author(s):  
Zhen-Dong Zhang ◽  
Lin-Yan He ◽  
Zhi Huang ◽  
Xia-Fang Sheng
Keyword(s):  
Forest Soil ◽  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Mineral Weathering ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Myroides Odoratimimus

A Gram-reaction-negative, aerobic, non-motile, yellow-pigmented, rod-shaped bacterium, designated strain TH-19T, was isolated from a forest soil sample in Jiangsu province, China. On the basis of 16S rRNA gene sequence similarity, strain TH-19T was shown to belong to the genus Myroides , a member of the phylum Bacteroidetes , and was related to Myroides odoratimimus LMG 4029T (98.7 % similarity), Myroides profundi D25T (98.2 %) and Myroides marinus JS-08T (97.5 %). Strain TH-19T contained menaquinone-6 (MK-6) as the predominant menaquinone, and the dominant fatty acids were iso-C15 : 0 and iso-C17 : 0 3-OH. The DNA G+C content of strain TH-19T was 37.2 mol%. The DNA–DNA relatedness values of strain TH-19T with Myroides odoratimimus JCM 7460T, Myroides profundi D25T and Myroides marinus JS-08T were below 70 %. Based on phenotypic, genotypic and phylogenetic evidence, it is suggested that strain TH-19T represents a novel species of the genus Myroides , for which the name Myroides xuanwuensis sp. nov. is proposed. The type strain is TH-19T ( = CCTCC AB 2013145T = JCM 19200T).

scholarly journals Rhizobium rhizoryzae sp. nov., isolated from rice roots

2014 ◽  
Vol 64 (Pt_4) ◽  
pp. 1373-1377 ◽  
Author(s):  
Xiao-Xia Zhang ◽  
Xue Tang ◽  
Rizwan Ali Sheirdil ◽  
Lei Sun ◽  
Xiao-Tong Ma
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Housekeeping Genes ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
The 16S Rrna Gene

Two strains (J3-AN59T and J3-N84) of Gram-stain-negative, aerobic and rod-shaped bacteria were isolated from the roots of fresh rice plants. The 16S rRNA gene sequence similarity results showed that the similarity between strains J3-AN59T and J3-N84 was 100 %. Both strains were phylogenetically related to members of the genus Rhizobium , and they were most closely related to Rhizobium tarimense ACCC 06128T (97.43 %). Similarities in the sequences of housekeeping genes between strains J3-AN59T and J3-N84 and those of recognized species of the genus Rhizobium were less than 90 %. The polar lipid profiles of both strains were predominantly composed of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine and an unknown aminophospholipid. The major cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0. The DNA G+C contents of J3-AN59T and J3-N84 were 55.7 and 57.1 mol%, respectively. The DNA–DNA relatedness value between J3-AN59T and J3-N84 was 89 %, and strain J3-AN59T showed 9 % DNA–DNA relatedness to R. tarimense ACCC 06128T, the most closely related strain. Based on this evidence, we found that J3-AN59T and J3-N84 represent a novel species in the genus Rhizobium and we propose the name Rhizobium rhizoryzae sp. nov. The type strain is J3-AN59T ( = ACCC 05916T = KCTC 23652T).

scholarly journals Rhizobium yantingense sp. nov., a mineral-weathering bacterium

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 412-417 ◽  
Author(s):  
Wei Chen ◽  
Xia-Fang Sheng ◽  
Lin-Yan He ◽  
Zhi Huang
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Sequence Similarity ◽  
Housekeeping Genes ◽  
Mineral Weathering ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Pr China ◽  
Low Levels

A Gram-stain-negative, rod-shaped bacterial strain, H66T, was isolated from the surfaces of weathered rock (purple siltstone) found in Yanting, Sichuan Province, PR China. Cells of strain H66T were motile with peritrichous flagella. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain H66T belongs to the genus Rhizobium . It is closely related to Rhizobium huautlense SO2T (98.1 %), Rhizobium alkalisoli CCBAU 01393T (98.0 %) and Rhizobium cellulosilyticum ALA10B2T (98.0 %). Analysis of the housekeeping genes, recA, glnII and atpD, showed low levels of sequence similarity (<92.0 %) between strain H66T and other recognized species of the genus Rhizobium . The predominant components of the cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0. The G+C content of strain H66T was 60.3 mol%. Strain H66T is suggested to be a novel species of the genus Rhizobium based on the low levels of DNA–DNA relatedness (ranging from 14.3 % to 40.0 %) with type strains of species of the genus Rhizobium and on its unique phenotypic characteristics. The namehttp://dx.doi.org/10.1601/nm.1279 Rhizobium yantingense sp. nov. is proposed for this novel species. The type strain is H66T ( = CCTCC AB 2014007T = LMG 28229T).

scholarly journals Actinoplanes abujensis sp. nov., isolated from Nigerian arid soil

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 960-965 ◽  
Author(s):  
Anil Sazak ◽  
Nevzat Sahin ◽  
Mustafa Camas
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Arid Soil ◽  
Link Type ◽  
Type Strains

A novel actinobacterial strain, A4029T, isolated from arid soil of Abuja, Nigeria, and provisionally assigned to the genus Actinoplanes , was subjected to a polyphasic taxonomic study. 16S rRNA gene sequence similarity studies showed that strain A4029T belonged to the genus Actinoplanes , being most closely related to Actinoplanes brasiliensis DSM 43805T (98.9 %) and Actinoplanes deccanensis DSM 43806T (98.0 %); similarity to other type strains of the genus Actinoplanes ranged from 96.2 to 97.9 %. Chemotaxonomic data [major menaquinone MK-9(H4); major polar lipids phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol; characteristic sugars arabinose and xylose; major fatty acids iso-C15 : 0, anteiso-C15 : 0, iso-C16 : 0, C17 : 1ω9c and iso-C14 : 0] confirmed the affiliation of strain A4029T to the genus Actinoplanes . The results of DNA–DNA hybridizations and phylogenetic analysis, together with phenotypic and biochemical test data, allowed strain A4029T to be differentiated from strains of other Actinoplanes species. Therefore, strain A4029T represents a novel species, for which the name Actinoplanes abujensis sp. nov. is proposed, with A4029T ( = DSM 45518T = NRRL B-24835T = KCTC 19984T) as the type strain.

scholarly journals Actinoplanes lutulentus sp. nov., isolated from mucky soil in China

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1782-1788 ◽  
Author(s):  
Ruixia Gao ◽  
Chongxi Liu ◽  
Junwei Zhao ◽  
Feiyu Jia ◽  
Chuang Li ◽  
...  
Keyword(s):  
Type Species ◽  
North China ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Characteristics ◽  
Content Type ◽  
Link Type

A novel actinomycete, designated strain NEAU-GRX6T, was isolated from mucky soil collected from a stream of Jinlong Mountain in Harbin, Heilongjiang Province, north China, and characterized using a polyphasic approach. The isolate formed irregular sporangia containing motile sporangiospores on the substrate mycelium. The whole-cell sugars were xylose, glucose and galactose. The predominant menaquinones were MK-9(H6), MK-10(H4) and MK-9(H4). The major fatty acids were C16 : 0, C15 : 0, C18 : 1ω9c, C17 : 1ω7c and C18 : 0. The phospholipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and phosphatidylinositol. The DNA G+C content was 67 mol%. 16S rRNA gene sequence similarity studies showed that strain NEAU-GRX6T belonged to the genus Actinoplanes , being most closely related to Actinoplanes palleronii IFO 14916T (97.80 % similarity) and Actinoplanes missouriensis NBRC 102363T (97.76 %). However, the low observed levels of DNA–DNA relatedness allowed the isolate to be differentiated from the above-mentioned species of the genus Actinoplanes . Moreover, strain NEAU-GRX6T could also be distinguished from A. palleronii IFO 14916T and A. missouriensis NBRC 102363T by phenotypic characteristics. Therefore, it is proposed that strain NEAU-GRX6T represents a novel species of the genus Actinoplanes , for which the name Actinoplanes lutulentus sp. nov. is proposed. The type strain is strain NEAU-GRX6T ( = CGMCC 4.7090T = DSM 45883T).

scholarly journals Arthrobacter nanjingensis sp. nov., a mineral-weathering bacterium isolated from forest soil

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 365-369 ◽  
Author(s):  
Zhi Huang ◽  
Yuan Yuan Bao ◽  
Tong Tong Yuan ◽  
Guo Xiang Wang ◽  
Lin Yan He ◽  
...  
Keyword(s):  
Cell Wall ◽  
Forest Soil ◽  
Type Species ◽  
Sequence Similarity ◽  
Mineral Weathering ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type

A Gram-stain-positive, non-motile, rod- or coccoid-shaped actinobacterium, designated strain A33T, was isolated from a forest soil sample from Nanjing, Jiangsu Province, PR China. The strain grew optimally at 30 °C, pH 7.0 and with 3 % NaCl (w/v). Phylogenetic analysis of the strain, based on 16S rRNA gene sequences, showed that it was most closely related to Arthrobacter woluwensis (98.4 % sequence similarity), Arthrobacter humicola (97.5 %), Arthrobacter globiformis (97.4 %), Arthrobacter oryzae (97.3 %) and Arthrobacter cupressi (97.0 %). The major cellular fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C15 : 0; MK-9(H2) was the predominant respiratory quinone. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and three glycolipids. Cell-wall analysis revealed that the peptidoglycan type was A3α, based on l-lysine-l-alanine; the cell-wall sugars were galactose and mannose. The genomic G+C content of strain A33T was 66.8 mol%. The low DNA–DNA relatedness values between strain A33T and recognized species of the genus Arthrobacter and many phenotypic properties supported the classification of strain A33T as a representative of a novel species of the genus Arthrobacter , for which the name Arthrobacter nanjingensis sp. nov. is proposed. The type strain is A33T ( = CCTCC AB 2014069T = DSM 28237T).

Bombella favorum sp. nov. and Bombella mellum sp. nov., two novel species isolated from the honeycombs of Apis mellifera

2021 ◽  
Author(s):  
Maik Hilgarth ◽  
Johannes Redwitz ◽  
Matthias A. Ehrmann ◽  
Rudi F. Vogel ◽  
Frank Jakob
Keyword(s):  
Apis Mellifera ◽  
Type Strain ◽  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type

As part of a study investigating the microbiome of bee hives and honey, two novel strains (TMW 2.1880T and TMW 2.1889T) of acetic acid bacteria were isolated and subsequently taxonomically characterized by a polyphasic approach, which revealed that they cannot be assigned to known species. The isolates are Gram-stain-negative, aerobic, pellicle-forming, catalase-positive and oxidase-negative. Cells of TMW 2.1880T are non-motile, thin/short rods, and cells of TMW 2.1889T are motile and occur as rods and long filaments. Morphological, physiological and phylogenetic analyses revealed a distinct lineage within the genus Bombella . Strain TMW 2.1880T is most closely related to the type strain of Bombella intestini with a 16S rRNA gene sequence similarity of 99.5 %, and ANIb and in silico DDH values of 94.16 and 56.3 %, respectively. The genome of TMW 2.1880T has a size of 1.98 Mb and a G+C content of 55.3 mol%. Strain TMW 2.1889T is most closely related to the type strain of Bombella apis with a 16S rRNA gene sequence similarity of 99.5 %, and ANIb and in silico DDH values of 85.12 and 29.5 %, respectively. The genome of TMW 2.1889T has a size of 2.07 Mb and a G+C content of 60.4 mol%. Ubiquinone analysis revealed that both strains contained Q-10 as the main respiratory quinone. Major fatty acids for both strains were C16 : 0, C19 : 0 cyclo ω8c and summed feature 8, respectively, and additionally C14 : 0 2-OH only for TMW 2.1880T and C14 : 0 only for TMW 2.1889T. Based on polyphasic evidence, the two isolates from honeycombs of Apis mellifera represent two novel species of the genus Bombella , for which the names Bombella favorum sp. nov and Bombella mellum sp. nov. are proposed. The designated respective type strains are TMW 2.1880T (=LMG 31882T=CECT 30114T) and TMW 2.1889T (=LMG 31883T=CECT 30113T).

Hymenobacter ginsengisoli sp. nov., isolated from soil of a ginseng field

2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 661-666 ◽  
Author(s):  
Van-An Hoang ◽  
Yeon-Ju Kim ◽  
Ngoc Lan Nguyen ◽  
Deok-Chun Yang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, non-motile, red bacterium, designated DCY57T, was isolated from soil of a ginseng field in a mountainous region of Chungnam province in South Korea. Strain DCY57T grew with 0–1 % (w/v) NaCl and the optimum temperature for growth was 30 °C. Strain DCY57T contained MK-7 as the predominant menaquinone. The polyamine was sym-homospermidine. The major fatty acids were C16:1ω5c, iso-C15:0, anteiso-C15:0 and summed feature 3 (containing C16:1ω7c and/or C16:1ω6c). The major polar lipids were phosphatidylethanolamine, unknown aminophospholipids, unknown aminolipids and unknown lipids. The DNA G+C content was 58.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain DCY57T was most closely related to members of the genus Hymenobacter . The isolate exhibited 91.7 % 16S rRNA gene sequence similarity with H. soli PB17T, 94.5 % with H. flocculans A2-50AT and 95.8 % with H. metalli A2-91T. On the basis of the evidence presented in this study, strain DCY57T represents a novel species within the genus Hymenobacter , for which the name Hymenobacter ginsengisoli sp. nov. is proposed. The type strain is DCY57T ( = KCTC 23674T = JCM 17841T).

scholarly journals Carboxylicivirga gen. nov. in the family Marinilabiliaceae with two novel species, Carboxylicivirga mesophila sp. nov. and Carboxylicivirga taeanensis sp. nov., and reclassification of Cytophaga fermentans as Saccharicrinis fermentans gen. nov., comb. nov.

2014 ◽  
Vol 64 (Pt_4) ◽  
pp. 1351-1358 ◽  
Author(s):  
Sung-Hyun Yang ◽  
Hyun-Seok Seo ◽  
Jung-Hee Woo ◽  
Hyun-Myung Oh ◽  
Hani Jang ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
The Family

Two facultatively anaerobic mesophilic bacteria, strains MEBiC 07026T and MEBiC 08903T, were isolated from two different tidal flat sediments and both strains showed approximately 92.2 % 16S rRNA gene sequence similarity with [Cytophaga] fermentans DSM 9555T. 16S rRNA gene sequence similarity between the two new isolates was 97.5 % but levels of DNA–DNA relatedness between the two were 31.3–31.8 %. Phylogenetic analysis revealed that the two isolates and [Cytophaga] fermentans DSM 9555T were affiliated with the family Marinilabiliaceae in the class Bacteroidia . The dominant fatty acids of strains MEBiC 07026T, MEBiC 08903T and [Cytophaga] fermentans DSM 9555T were branched-type or hydroxylated C15 : 0, but [Cytophaga] fermentans DSM 9555T contained a higher proportion of anteiso-branched fatty acids. The two new isolates contained a markedly higher proportion of monounsaturated fatty acids than other members of the family Marinilabiliaceae . The major respiratory quinone of the strains was MK-7. Strains MEBiC07026T and MEBiC08903T utilized a wide range of carboxylic acids whereas [Cytophaga] fermentans DSM 9555T utilized carbohydrates rather than carboxylic acids. The DNA G+C content of the novel strains was about 44 mol% but that of [Cytophaga] fermentans DSM 9555T revealed from the genome sequence was 37.6 mol%. Based on evidence from this polyphasic taxonomic study, a novel genus, Carboxylicivirga gen. nov., is proposed in the family Marinilabiliaceae with two novel species, Carboxylicivirga mesophila sp. nov. with type strain MEBiC 07026T ( = KCCM 42978T = JCM 18290T) and Carboxylicivirga taeanensis sp. nov. with type strain MEBiC 08903T ( = KCCM 43024T = JCM 19490T). Additionally, [Cytophaga] fermentans DSM 9555T ( = ATCC 19072T) is reclassified as Saccharicrinis fermentans gen. nov., comb. nov.

Rhodoplanes piscinae sp. nov. isolated from pond water

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2828-2834 ◽  
Author(s):  
S. Kalyana Chakravarthy ◽  
E. V. V. Ramaprasad ◽  
E. Shobha ◽  
Ch. Sasikala ◽  
Ch. V. Ramana
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type

Two strains (JA266T and JA333) of Gram-negative, rod-shaped, phototrophic, purple non-sulfur bacteria were isolated from a freshwater fish pond and an industrial effluent. Both strains were capable of phototrophic and chemotrophic growth. Bacteriochlorophyll a and carotenoids of the spirilloxanthin series were present as photosynthetic pigments. The major fatty acid for both strains was C18 : 1ω7c (>65 %), with minor amounts of 11-methyl C18 : 1ω7c, C16 : 0, C16 : 1ω7c and C18 : 0 also present. Both strains have the lamellar type of intracellular photosynthetic membranes. Ubiquinone-10 (Q10) and rhodoquinone-10 (RQ10) were present as primary quinone components. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phosphatidylcholine were the major polar lipids, while minor amounts of amino lipids (AL1, AL2) and an unidentified lipid (L1) were common to both strains. The DNA G+C contents of strains JA266T and JA333 were 71.3 and 69.9 mol%, respectively. Phylogenetic analysis on the basis of 16S rRNA gene sequences showed that both strains clustered with members of the genus Rhodoplanes in the class Alphaproteobacteria . Strains JA266T and JA333 had gene sequence similarity of 98.7 and 98.9 % with Rhodoplanes serenus TUT3530T, 96.4 and 96.5 % with Rhodoplanes elegans AS130T, respectively, and less than 96 % with other members of the genus Rhodoplanes . 16S rRNA gene sequence similarity between the two strains was 99.3 % and they exhibited high (84.7 %) relatedness based on DNA–DNA hybridization. Furthermore, both strains had less than 65 % DNA–DNA relatedness with the type strain R. serenus TUT3530T. On the basis of phenotypic and genotypic data, it is proposed that strain JA266T be classified as a novel species of the genus Rhodoplanes , with the species name Rhodoplanes piscinae sp. nov. The type strain of the proposed novel species is JA266T ( = JCM 14934T = KCTC 5627T), while strain JA333 ( = NBRC 107574 = KCTC 5962) is an additional strain.

Granulicella arctica sp. nov., Granulicella mallensis sp. nov., Granulicella tundricola sp. nov. and Granulicella sapmiensis sp. nov., novel acidobacteria from tundra soil

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2097-2106 ◽  
Author(s):  
Minna K. Männistö ◽  
Suman Rawat ◽  
Valentin Starovoytov ◽  
Max M. Häggblom
Keyword(s):  
Phylogenetic Analysis ◽  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Tundra Soil ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type

Four aerobic bacteria, designated MP5ACTX2T, MP5ACTX8T, MP5ACTX9T and S6CTX5AT, were isolated from tundra soil of north-western Finland (69° 03′ N 20° 50′ E). Cells of all isolates were Gram-negative, non-motile rods. Phylogenetic analysis indicated that they belonged to the genus Granulicella of subdivision 1 of the phylum Acidobacteria . 16S rRNA gene sequence similarity between the new isolates and the type strains of Granulicella aggregans , Granulicella paludicola , Granulicella pectinivorans and Granulicella rosea ranged from 94 to 99 %. Analysis of the RNA polymerase beta subunit (rpoB) gene sequence indicated that the isolates represented novel species of the genus Granulicella (<92 % rpoB sequence similarity between the isolates and members of the genus Granulicella ). This was also confirmed by low DNA–DNA relatedness (31 %) between strain S6CTX5AT and the type strain of G. pectinivorans , which exhibited 99.1 % 16S rRNA gene sequence similarity and 91.7 % rpoB gene sequence similarity. The isolates grew at pH 3.5–6.5 and at 4–26 °C. Sugars were the preferred growth substrates. The major cellular fatty acids were iso-C15 : 0, C16 : 1ω7c and C16 : 0 and the major isoprenoid quinone was MK-8. The DNA G+C content was 56–60 mol%. On the basis of phylogenetic analysis and chemotaxonomic and physiological data, the isolates represent four novel species of the genus Granulicella , for which the names Granulicella arctica MP5ACTX2T ( = ATCC BAA-1858T = DSM 23128T), Granulicella mallensis MP5ACTX8T ( = ATCC BAA-1857T = DSM 23137T), Granulicella tundricola MP5ACTX9T (ATCC BAA-1859T = DSM 23138T) and Granulicella sapmiensis S6CTX5AT ( = LMG 26174T = DSM 23136T) are proposed. An emended description of the genus Granulicella is also presented.

Sign in / Sign up

Export Citation Format

Share Document