scholarly journals Halomicroarcula salina sp. nov., isolated from a marine solar saltern

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1628-1633 ◽  
Author(s):  
Wen-Jiao Zhang ◽  
Heng-Lin Cui

Halophilic archaeal strain YGHS18T was isolated from the Yinggehai marine solar saltern near Shanya city of Hainan Province, China. Cells from the strain were observed to be pleomorphic rods, stained Gram-negative, and formed red-pigmented colonies on solid media. Strain YGHS18T was found to be able to grow at 20–50 °C (optimum 37 °C), with 0.9–4.8 M NaCl (optimum 2.1 M) and at pH 5.5–9.0 (optimum pH 7.0). The cells lysed in distilled water and the minimum NaCl concentration to prevent cell lysis was found to be 0.9 M. The major polar lipids of the strain were identified as phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate, glucosyl mannosyl glucosyl diether and a diglycosyl diether (DGD-2). Strain YGHS18T possessed two heterogeneous 16S rRNA genes (rrnA and rrnB) and both were related to those of members of the genera Haloarcula (93.1–96.9 % sequence similarity) and Halomicroarcula (92.7–96.1 % similarity). The rrnA gene (orthologous gene) of strain YGHS18T clustered phylogenetically with members of the genus Halomicroarcula while the rrnB gene formed a paraphyly with members of the genera Halomicroarcula and Haloarcula . The rpoB′ gene of strain YGHS18T was related phylogenetically to species of the genera Halomicroarcula (91.6–92.7 % sequence similarity) and Haloarcula (91.5–92.4 % similarity). EF-2 gene analysis revealed that strain YGHS18T was related phylogenetically to species of the genus Halomicroarcula (92.2–92.9 % sequence similarity) rather than to those of the genus Haloarcula (90.9–91.7 % similarity). The DNA G+C content of strain YGHS18T was determined to be 64.5 mol%. The phenotypic, chemotaxonomic and phylogenetic properties suggested that strain YGHS18T ( = CGMCC 1.12128T = JCM 18369T) represents a novel species of the genus Halomicroarcula , for which the name Halomicroarcula salina sp. nov. is proposed.

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1747-1751 ◽  
Author(s):  
Wen-Jiao Zhang ◽  
Heng-Lin Cui

Halophilic archaeal strain YGHS32T was isolated from the Yinggehai marine solar saltern near Shanya city of Hainan Province, China. Cells of the strain were pleomorphic and lysed in distilled water, stained Gram-negative and formed red-pigmented colonies. Strain YGHS32T was able to grow at 20–50 °C (optimum 37 °C), in the presence of 0.9–4.8 M NaCl (optimum 2.1 M NaCl), with 0.005–1.0 M MgCl2 (optimum 0.3 M MgCl2) and at pH 6.0–8.5 (optimum pH 7.5). The minimal NaCl concentration to prevent cell lysis was 5 % (w/v). The major polar lipids of the strain were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and four major glycolipids chromatographically identical to sulfated mannosyl glucosyl diether, mannosyl glucosyl diether, glucosyl mannosyl glucosyl diether and a diglycosyl diether. Strain YGHS32T had two dissimilar 16S rRNA genes and both of them were phylogenetically related to those of Halomicroarcula pellucida JCM 17820T (92.9–96.3 % sequence similarity). The rpoB′ gene sequence similarity between strain YGHS32T and Halomicroarcula pellucida JCM 17820T was 91.3 %. The DNA G+C content of strain YGHS32T was 64.0 mol%. The DNA–DNA hybridization value between strain YGHS32T and Halomicroarcula pellucida JCM 17820T was 45 %. It was concluded that strain YGHS32T ( = CGMCC 1.12129T = JCM 18640T) represents a novel species of the genus Halomicroarcula , for which the name Halomicroarcula limicola sp. nov. is proposed. An emended description of the genus Halomicroarcula is also presented.


2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1235-1240 ◽  
Author(s):  
Xin Yang ◽  
Heng-Lin Cui

A halophilic archaeon, strain TBN51T, was isolated from a marine solar saltern in Jiangsu, China. The colonies were red-pigmented and the cells were pleomorphic, motile and Gram-staining-negative. The strain was able to grow at 20–55 °C (optimum 42 °C), in the presence of 1.4–5.1 M NaCl (optimum 2.6 M), with 0–1.0 M MgCl2 (optimum 0.05 M) and at pH 5.5–9.5 (optimum pH 7.0). Cells lysed in distilled water; the minimal NaCl concentration to prevent such lysis was 8 % (w/v). The major polar lipids of strain TBN51T were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and an unidentified glycolipid. The latter lipid and a minor glycolipid also detected in the novel strain were chromatographically identical to sulfated and non-sulfated mannosyl glucosyl diether, respectively. Analysis revealed that strain TBN51T had three dissimilar 16S rRNA genes. Phylogenetic analysis based on the sequences of these genes indicated that the novel strain was most closely related to Halomicrobium mukohataei JCM 9738T (89.2–94.8 % sequence similarity) and Halomicrobium katesii DSM 19301T (88.8–94.8 %). In similar comparisons of rpoB′ gene sequences, strain TBN51T also appeared most closely related to Hmc. mukohataei JCM 9738T (88.5 % sequence similarity) and Hmc. katesii DSM 19301T (88.1 %). The genomic DNA G+C content of strain TBN51T was 69.1 mol%. The results of DNA–DNA hybridizations indicated that strain TBN51T represented a novel species since it showed relatedness values of only 23 % with Hmc. mukohataei JCM 9738T and 21 % with Hmc. katesii DSM 19301T. It was concluded that strain TBN51T represents a novel species of the genus Halomicrobium , for which the name Halomicrobium zhouii sp. nov. is proposed. The type strain is TBN51T ( = CGMCC 1.10457T = JCM 17095T).


2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 952-956 ◽  
Author(s):  
Xing-Xing Qiu ◽  
Mei-Lin Zhao ◽  
Heng-Lin Cui

A halophilic archaeal strain, GX48T, was isolated from the Gangxi marine solar saltern near Weihai city in Shandong Province, China. Cells of the strain were rod-shaped, stained Gram-negative and formed red-pigmented colonies. Strain GX48T was able to grow at 25–50 °C (optimum 37 °C), in the presence of 1.4–4.8 M NaCl (optimum 2.6 M NaCl), with 0–1.0 M MgCl2 (optimum 0.05 M MgCl2) and at pH 5.5–9.5 (optimum pH 7.0). Cells lysed in distilled water and the minimal NaCl concentration to prevent cell lysis was 8 % (w/v). The major polar lipids of the strain were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester and two major glycolipids chromatographically identical to those of Natronoarchaeum mannanilyticum YSM-123T and Natronoarchaeum philippinense 294-194-5T. 16S rRNA gene analysis revealed that strain GX48T had two dissimilar 16S rRNA genes and both of them were phylogenetically related to those of the two current members of the genus Natronoarchaeum (96.2–98.3 % similarities). The rpoB′ gene sequence similarities between strain GX48T and Natronoarchaeum mannanilyticum YSM-123T and Natronoarchaeum philippinense 294-194-5T were 96.0 % and 94.7 %, respectively. The DNA G+C content of strain GX48T was 66.2 mol%. Strain GX48T showed low DNA–DNA relatedness with the two members of the genus Natronoarchaeum . It was concluded that strain GX48T ( = CGMCC 1.10388T = JCM 17119T) represents a novel species of the genus Natronoarchaeum , for which the name Natronoarchaeum rubrum sp. nov. is proposed. An emended description of the genus Natronoarchaeum is also presented.


2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1471-1478 ◽  
Author(s):  
Morio Ishikawa ◽  
Kazuhide Yamasato ◽  
Kayo Kodama ◽  
Hinako Yasuda ◽  
Mioko Matsuyama ◽  
...  

Nine novel strains of halophilic and alkaliphilic lactic acid bacteria isolated from European soft and semi-hard cheeses by using a saline, alkaline medium (7 % NaCl, pH 9.5) were taxonomically characterized. The isolates were Gram-stain-positive, non-sporulating and non-motile. They lacked catalase and quinones. Under anaerobic cultivation conditions, lactate was produced from d-glucose with the production of formate, acetate and ethanol with a molar ratio of approximately 2 : 1 : 1. Under aerobic cultivation conditions, acetate and lactate were produced from d-glucose. The isolates were slightly halophilic, highly halotolerant and alkaliphilic. The optimum NaCl concentration for growth ranged between 2.0 % and 5.0 % (w/v), with a growth range of 0–1 % to 15–17.5 %. The optimum pH for growth ranged between 8.5 and 9.5, with a growth range of 7.0–7.5 to 9.5–10.0. Comparative sequence analysis of the 16S rRNA genes revealed that the isolates occupied a phylogenetic position within the genus Alkalibacterium , showing the highest sequence similarity (98.2 %) to Alkalibacterium kapii T22-1-2T. The isolates constituted a single genomic species with DNA–DNA hybridization values of 79–100 % among the isolates and <29 % between the isolates and other members of the genus Alkalibacterium , from which the isolates were different in motility and flagellation, growth responses to NaCl concentrations and pH, and profiles of sugar fermentation. The DNA G+C contents were between 36.0 and 37.6 mol%. The cell-wall peptidoglycan was type A4β, Orn-d-Asp. The major components of cellular fatty acids were C14 : 0, C16 : 0 and C16 : 1ω9c. Based on the phenotypic characteristics and genetic distinctness, the isolates are classified as a novel species within the genus Alkalibacterium , for which the name Alkalibacterium gilvum sp. nov. is proposed. The type strain is 3AD-1T ( = DSM 25751T = JCM 18271T).


2014 ◽  
Vol 64 (Pt_7) ◽  
pp. 2274-2279 ◽  
Author(s):  
Cheol Su Park ◽  
Kyudong Han ◽  
Tae-Young Ahn

A Gram-staining-negative, strictly aerobic, rod-shaped, pale-pink pigmented bacterial strain, designated TF8T, was isolated from leaf mould in Cheonan, Republic of Korea. Its taxonomic position was determined through a polyphasic approach. Optimal growth occurred on R2A agar without NaCl supplementation, at 25–28 °C and at pH 6.0–7.0. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain TF8T belongs to the genus Mucilaginibacter in the family Sphingobacteriaceae . The sequence similarity between 16S rRNA genes of strain TF8T and the type strains of other species of the genus Mucilaginibacter ranged from 92.1 to 94.7 %. The closest relatives of strain TF8T were Mucilaginibacter lutimaris BR-3T (94.7 %), M. soli R9-65T (94.5 %), M. litoreus BR-18T (94.5 %), M. rigui WPCB133T (94.0 %) and M. daejeonensis Jip 10T (93.8 %). The major isoprenoid quinone was MK-7 and the major cellular fatty acids were iso-C15 : 0 (33.0 %), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c; 24.8 %) and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c; 13.0 %). The major polar lipids of TF8T were phosphatidylethanolamine and three unidentified aminophospholipids. The G+C content of the genomic DNA was 46.2 mol%. On the basis of the data presented here, strain TF8T is considered to represent a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter koreensis sp. nov. is proposed. The type strain is TF8T ( = KACC 17468T = JCM 19323T).


2013 ◽  
Vol 63 (Pt_11) ◽  
pp. 3975-3980 ◽  
Author(s):  
Xing-Xing Qiu ◽  
Yun-Zhuang Mou ◽  
Mei-Lin Zhao ◽  
Wen-Jiao Zhang ◽  
Dong Han ◽  
...  

Two halophilic archaeal strains, YC20T and XD15, were isolated from a marine solar saltern and an inland salt lake in China. Both had pleomorphic cells that lysed in distilled water, stained Gram-negative and formed red-pigmented colonies. They were neutrophilic, requiring at least 100 g NaCl l−1 and 0.5–95 g MgCl2 l−1 for growth at the optimum growth temperature of 37 °C. The major polar lipids of the two strains were phosphatidylglycerol (PG), phosphatidylglycerol phosphate methyl ester (PGP-Me), phosphatidylglycerol sulfate (PGS) and two major glycolipids chromatographically identical to sulfated mannosyl glucosyl diether (S-DGD-1) and mannosyl glucosyl diether (DGD-1), respectively. Trace amounts of two unidentified glycolipids were also detected. The 16S rRNA gene sequences of the two strains were 99.5 % identical and showed 94.0–95.9 % similarity to the most closely related members of the genus Halobellus of the family Halobacteriaceae . The rpoB′ gene sequence similarity between strains YC20T and XD15 was 98.2 % and these sequences showed 89.6–92.8 % similarity to those of the most closely related members of the genus Halobellus . The DNA G+C contents of strains YC20T and XD15 were 65.8 mol% and 65.4 mol%, respectively. The DNA–DNA hybridization value between strain YC20T and strain XD15 was 92 %, and the two strains showed low DNA–DNA relatedness to members of the genus Halobellus . The phenotypic, chemotaxonomic and phylogenetic properties suggest that strains YC20T and XD15 represent a novel species of the genus Halobellus , for which the name Halobellus inordinatus sp. nov. is proposed. The type strain is YC20T ( = CGMCC 1.12120T = JCM 18361T) and the other strain is XD15 ( = CGMCC 1.12236 = JCM 18648).


2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3556-3562 ◽  
Author(s):  
Akinobu Echigo ◽  
Hiroaki Minegishi ◽  
Yasuhiro Shimane ◽  
Masahiro Kamekura ◽  
Takashi Itoh ◽  
...  

A novel halophilic strain, BNERC31T, was isolated from solar salt, ‘Sel marin de Guérande’, imported from France. Colonies on agar medium containing soluble starch, sodium citrate, sodium glutamate and inorganic salts were non-pigmented and transparent, while cells obtained by centrifuging liquid cultures were red-pigmented. Cells of strain BNERC31T were non-motile, pleomorphic, stained Gram-negative and lysed in distilled water. Growth occurred with 20–30 % (w/v) NaCl (optimum, 25 %, w/v), with 0–500 mM MgCl2 (optimum, 10 mM), at pH 6.0–8.5 (optimum, pH 7.0) and at 25–55 °C (optimum, 40 °C). Growth was dependent on soluble starch, and inhibited completely by 0.5 % organic nutrients, such as Casamino acids or yeast extract. The DNA G+C content was 64.1 mol%. Strain BNERC31T possessed at least two heterogeneous 16S rRNA genes, and the sequence of the orthologous gene (preceded by the dihydroorotate oxidase gene, pyrD) showed the highest similarity (96.5 %) to that of Haloarcula marismortui JCM 8966T. The RNA polymerase subunit B′ gene sequence showed the highest similarity (91.7 %) to that of Haloarcula amylolytica JCM 13557T. The polar lipids of strain BNERC31T were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate, diglycosyl diether and sulfated diglycosyl diether, similar to those of species of the genus Halomicrobium . The phenotypic and phylogenetic characteristics showed that strain BNERC31T differed from species of the genera Haloarcula and Halomicrobium and indicated that it represents a novel species in a new genus, for which the name Halomicroarcula pellucida gen. nov., sp. nov. is proposed. The type strain of the type species is BNERC31T ( = JCM 17820T = CECT 7537T).


2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 438-443 ◽  
Author(s):  
R. Nomoto ◽  
F. Maruyama ◽  
S. Ishida ◽  
M. Tohya ◽  
T. Sekizaki ◽  
...  

In order to clarify the taxonomic position of serotypes 20, 22 and 26 of Streptococcus suis , biochemical and molecular genetic studies were performed on isolates (SUT-7, SUT-286T, SUT-319, SUT-328 and SUT-380) reacted with specific antisera of serotypes 20, 22 or 26 from the saliva of healthy pigs as well as reference strains of serotypes 20, 22 and 26. Comparative recN gene sequencing showed high genetic relatedness among our isolates, but marked differences from the type strain S. suis NCTC 10234T, i.e. 74.8–75.7 % sequence similarity. The genomic relatedness between the isolates and other strains of species of the genus Streptococcus , including S. suis, was calculated using the average nucleotide identity values of whole genome sequences, which indicated that serotypes 20, 22 and 26 should be removed taxonomically from S. suis and treated as a novel genomic species. Comparative sequence analysis revealed 99.0–100 % sequence similarities for the 16S rRNA genes between the reference strains of serotypes 20, 22 and 26, and our isolates. Isolate STU-286T had relatively high 16S rRNA gene sequence similarity with S. suis NCTC 10234T (98.8 %). SUT-286T could be distinguished from S. suis and other closely related species of the genus Streptococcus using biochemical tests. Due to its phylogenetic and phenotypic similarities to S. suis we propose naming the novel species Streptococcus parasuis sp. nov., with SUT-286T ( = JCM 30273T = DSM 29126T) as the type strain.


2020 ◽  
Vol 70 (11) ◽  
pp. 5725-5733 ◽  
Author(s):  
Shih-Yao Lin ◽  
Chia-Fang Tsai ◽  
Asif Hameed ◽  
Chiu-Chung Young

A polyphasic taxonomic approach was used to characterize a Gram-stain-positive bacterium, designated strain CC-CFT480T, isolated from soil sampled in a maize field in Taiwan, ROC. Cells of strain CC-CFT480T were rod-shaped, motile with polar flagella, catalase-positive and oxidase-positive. Optimal growth occurred at 30 °С, pH 8 and 3 % NaCl. Phylogenetic analyses based on 16S rRNA genes revealed a distinct taxonomic position attained by strain CC-CFT480T associated with Cerasibacillus quisquiliarum (97.2 % sequence identity), Virgibacillus soli (95.7 %), Virgibacillus carmonensis (95.4 %) and Virgibacillus byunsanensis (95.2 %), and lower sequence similarity values to other species. Average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between strain CC-CFT480T and C. quisquiliarum were 74.2 and 20.1 %, respectively. Strain CC-CFT480T contained iso-C15:0, C16:1 ω7c alcohol and iso-C17:1 ω10c as the predominant fatty acids. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, two unknown aminophospholipids, one uncharacterized aminophospholipid and two unknown phospholipids. The major polyamine was spermidine. The DNA G+C content was 34.8 mol% and the predominant quinone was menaquinone 7 (MK-7). Based on its distinct phylogenetic, phenotypic and chemotaxonomic traits together with results of comparative 16S rRNA gene sequence, ANI and dDDH analyses, strain CC-CFT480T is proposed to represent a novel Cerasibacillus species, for which the name Cerasibacillus terrae sp. nov. (type strain CC-CFT480T=BCRC 81216T=JCM 33498T).


2020 ◽  
Vol 70 (6) ◽  
pp. 3731-3739 ◽  
Author(s):  
Shih-Yao Lin ◽  
Wen-Ming Chen ◽  
Guan-Hua Huang ◽  
Asif Hameed ◽  
Chun-Tse Chang ◽  
...  

A bacterial strain CC-CTC003T was isolated from a synthetic wooden board. Cells of strain CC-CTC003T were Gram-stain-negative, rod-shaped, motile by gliding and formed yellow colonies. Optimal growth occurred at 25 °C, pH 7 and in the presence of 1 % NaCl. The phylogenetic analyses based on 16S rRNA genes revealed that strain CC-CTC003T belonged to the genus Flavobacterium and was most closely related to Flavobacterium cerinum (95.3 % sequence identity), Flavobacterium maris (94.9 % sequence identity), Flavobacterium qiangtangense (94.8 %) and Flavobacterium subsaxonicum (94.7 %) and had less than 94.7 % sequence similarity to other members of the genus. Average nucleotide identity (ANI) values between strain CC-CTC003T and the type strains of other closely related species were 70.1–74.1 %. The digital DNA–DNA hybridization (dDDH) with F. cerinum was 19.4 %. Strain CC-CTC003T contained C15 : 0, iso-C15 : 0, iso-C15 : 0 3-OH, iso-C17 : 0 3-OH, summed feature 3 (C16 : 1  ω6c / C16 : 1  ω7c) and summed feature 9 (C16 : 0 10-methyl / iso-C17 : 1  ω9c) as the predominant fatty acids. The polar lipid profile consisted of phosphatidylethanolamine, four uncharacterized aminophospholipids, two aminolipids and one unidentified glycolipid. The major polyamine was sym-homospermidine and contained MK-6 as major isoprenoid quinone. The DNA G+C content of the genomic DNA was 39.2 mol%. On the basis of the phylogenetic inference and phenotypic data, strain CC-CTC003T should be classified as a novel species, for which the name Flavobacterium supellecticarium sp. nov. is proposed. The type strain is CC-CTC003T (=BCRC 81146T=JCM 32838T).


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