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Antonio Ventosa - One of the best experts on this subject based on the ideXlab platform.
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Genome-based analyses reveal a synonymy among Halorubrum distributum Zvyagintseva and Tarasov 1989; Oren and Ventosa 1996, Halorubrum terrestre Ventosa et al. 2004, Halorubrum arcis Xu et al. 2007 and Halorubrum litoreum Cui et al. 2007. Emended desc
International journal of systematic and evolutionary microbiology, 2020Co-Authors: Carmen Infante-domínguez, Rafael R. De La Haba, Paulina Corral, Cristina Sánchez-porro, David R. Arahal, Antonio VentosaAbstract:A comparative taxonomic study of Halorubrum distributum , Halorubrum terrestre , Halorubrum arcis and Halorubrum litoreum was carried out using different approaches, 16S rRNA gene sequence analysis, multilocus sequence analysis (MLSA), phylogenomic analysis based on the comparison of the core genome, orthologous average nucleotide identity (OrthoANI), Genome-to-Genome Distance Calculator (GGDC), synteny plots and polar lipid profile (PLP). The MLSA study, using the five concatenated housekeeping genes atpB, EF-2, glnA, ppsA and rpoB′, and the phylogenomic analysis based on 1347 core translated gene sequences obtained from their genomes showed that Halorubrum distributum JCM 9100T, Halorubrum terrestre JCM 10247T, Halorubrum arcis JCM 13916T and Halorubrum litoreum JCM 13561T formed a robust cluster, clearly separated from the rest of species of the genus Halorubrum . The OrthoANI and digital DDH values, calculated by the GGDC, showed percentages among Hrr. distributum JCM 9100T, Hrr. terrestre JCM 10247T, Hrr. arcis JCM 13916T and Hrr. litoreum JCM 13561T that ranged from 98.1 to 97.5 %, and 84.0 to 78.0 %, respectively, while these values among those strains and the type strains of their most related species of Halorubrum were equal or lower than 90.8 and 41.2 %, respectively. Moreover, degree of synteny across the four genomes was very high, especially between the genomes of Halorubrum litoreum JCM 13561T and Halorubrum arcis JCM 13916T. In addition, the PLP is quite similar among the four strains studied, showing a common pattern typical of the neutrophilic species of the genus Halorubrum . Overall, these data show that Hrr. distributum, Hrr. terrestre, Hrr. arcis and Hrr. litoreum constitute a single species. Thus, the latter three should be considered as later, heterotypic synonyms of Hrr. distributum based on the rules for priority of names. We propose an emended description of Hrr. distributum, including the features of Hrr. terrestre, Hrr. arcis and Hrr. litoreum.
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Halorubrum chaoviator Mancinelli et al. 2009 is a later, heterotypic synonym of Halorubrum ezzemoulense Kharroub et al. 2006. Emended description of Halorubrum ezzemoulense Kharroub et al. 2006.
International journal of systematic and evolutionary microbiology, 2018Co-Authors: Paulina Corral, Carmen Infante-domínguez, Rafael R. De La Haba, Cristina Sánchez-porro, Mohammad Ali Amoozegar, R. Thane Papke, Antonio VentosaAbstract:A polyphasic comparative taxonomic study of Halorubrum ezzemoulense Kharroub et al. 2006, Halorubrum chaoviator Mancinelli et al. 2009 and eight new Halorubrum strains related to these haloarchaeal species was carried out. Multilocus sequence analysis using the five concatenated housekeeping genes atpB, EF-2, glnA, ppsA and rpoB′, and phylogenetic analysis based on the 757 core protein sequences obtained from their genomes showed that Hrr. ezzemoulense DSM 17463T, Hrr. chaoviator Halo-G*T (=DSM 19316T) and the eight Halorubrum strains formed a robust cluster, clearly separated from the remaining species of the genus Halorubrum . The orthoANI value and digital DNA–DNA hybridization value, calculated by the Genome-to-Genome Distance Calculator (GGDC), showed percentages among Hrr. ezzemoulense DSM 17463T, Hrr. chaoviator DSM 19316T and the eight Halorubrum strains ranging from 99.4 to 97.9 %, and from 95.0 to 74.2 %, respectively, while these values for those strains and the type strains of the most closely related species of Halorubrum were 88.7–77.4 % and 36.1–22.3 %, respectively. Although some differences were observed, the phenotypic and polar lipid profiles were quite similar for all the strains studied. Overall, these data show that Hrr. ezzemoulense, Hrr. chaoviator and the eight new Halorubrum isolates constitute a single species. Thus, Hrr. chaoviator should be considered as a later, heterotypic synonym of Hrr. ezzemoulense . We propose an emended description of Hrr. ezzemoulense , including the features of Hrr. chaoviator and those of the eight new isolates.
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Halorubrum halodurans sp nov an extremely halophilic archaeon isolated from a hypersaline lake
International Journal of Systematic and Evolutionary Microbiology, 2016Co-Authors: Paulina Corral, Rafael R. De La Haba, Mohammad Ali Amoozegar, Cristina Sanchezporro, Thane R Papke, Antonio VentosaAbstract:Two extremely halophilic archaea, strains Cb34T and C170, belonging to the genus Halorubrum, were isolated from the brine of the hypersaline lake Aran-Bidgol in Iran. Cells of the two strains were motile, pleomorphic rods, stained Gram-variable and produced red-pigmented colonies. Strains Cb34T and C170 required 25 % (w/v) salts, pH 7.0 and 37 °C for optimal growth under aerobic conditions; 0.3 M Mg2+ was required. Cells of both isolates were lysed in distilled water and hypotonic treatment with < 10 % NaCl provoked cell lysis. Phylogenetic analysis based on 16S rRNA gene sequence similarities showed that these two strains were closely related to Halorubrum cibi B31T (98.8 %) and other members of the genus Halorubrum. In addition, studies based on the rpoB' gene revealed that strains Cb34T and C170 are placed among the species of Halorubrum and are closely related to Halorubrum cibi B31T, with rpoB' gene sequence similarity less than or equal to 95.7 %. The polar lipid patterns of both strains consisted of phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and sulfated mannosyl glucosyl diether. The DNA G+C content was 62.1-62.4 mol%. DNA-DNA hybridization studies confirmed that strains Cb34T and C170 constitute a distinct species. Data obtained in this study show that the two strains represent a novel species, for which the name Halorubrum halodurans sp. nov. is proposed. The type strain is Cb34T ( = CECT 8745T = IBRC-M 10233T).
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Halorubrum halodurans sp. nov., an extremely halophilic archaeon isolated from a hypersaline lake.
International journal of systematic and evolutionary microbiology, 2015Co-Authors: Paulina Corral, Rafael R. De La Haba, Cristina Sánchez-porro, Mohammad Ali Amoozegar, R. Thane Papke, Antonio VentosaAbstract:Two extremely halophilic archaea, strains Cb34T and C170, belonging to the genus Halorubrum, were isolated from the brine of the hypersaline lake Aran-Bidgol in Iran. Cells of the two strains were motile, pleomorphic rods, stained Gram-variable and produced red-pigmented colonies. Strains Cb34T and C170 required 25 % (w/v) salts, pH 7.0 and 37 °C for optimal growth under aerobic conditions; 0.3 M Mg2+ was required. Cells of both isolates were lysed in distilled water and hypotonic treatment with
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Molecular identification of moderately halophilic bacteria and extremely halophilic archaea isolated from salted sheep skins containing red and yellow discolorations
Journal of The American Leather Chemists Association, 2015Co-Authors: C. Akpolat, Antonio Ventosa, Cristina Sánchez-porro, Meral Birbir, Pinar CaglayanAbstract:Salted hides or skins containing red and yellow discolorations have been examined for many years, but much less information is available about the isolation and molecular techniques for identifying moderately halophilic bacteria and extremely halophilic archaea on the salted sheep skins exhibiting these blotches. The deteriorated salted sheep skins were collected from a warehouse in Spain. Moderately halophilic bacteria and extremely halophilic archaea were isolated from these samples and molecular identification of these microorganisms were performed using 16S rRNA gene sequence analysis. Total cell counts of moderately halophilic bacteria and extremely halophilic archaea were found as 105-108 CFU/g and 105-107 CFU/g, respectively. According to comparative partial 16S rRNA gene sequence analysis, Alkalibacillus halophilus, Pseudomonas halophila, Acinetobacter johnsonii, Alkalibacillus salilacus, Salimicrobium salexigens, Marinococcus luteus and Staphylococcus equorum subsp. equorum belonging to moderately halophilic bacteria; and Halorubrum tebenquichense, Halorubrum saccharovorum, Halococcus dombrowskii, Halococcus qingdaonensis, Natrinema pellirubrum, Halococcus morrhuae, Halorubrum kocurii, Halorubrum terrestre, Halorubrum lipolyticum, Halostagnicola larsenii, Haloterrigena saccharevitans and Natrinema versiforme belonging to extremely halophilic archaea were isolated from these sheep skins. Alkalibacillus halophilus belonging to moderately halophilic bacteria and Halorubrum tebenquichense belonging to extremely halophilic archaea were found as the most common species on the skins. Among the moderately halophilic bacterial isolates, Acinetobacter johnsonii showed lipolytic activities. Among the extremely halophilic archaeal isolates, Halococcus dombrowskii, Halococcus morrhuae, Natrinema pellirubrum, Halorubrum lipolyticum showed proteolytic activity and Halococcus dombrowskii, Halorubrum lipolyticum, Haloterrigena saccharevitans, Natrinema versiforme showed lipolytic activity. Hair slip, red and yellow discolorations, slimy layers and bad odor were detected on the skin samples examined. This study confirmed that salted sheep skins were contaminated by preservation salt containing different proteolytic or lipolytic species of mostly extremely halophilic archaea. Therefore, antimicrobial applications during brine curing of skins should be applied to overcome halophilic microbial damage on the salted skins.
William D. Grant - One of the best experts on this subject based on the ideXlab platform.
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Halorubrum kocurii sp nov., an archaeon isolated from a saline lake
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2008Co-Authors: M. C. Gutiérrez, Masahiro Kamekura, A. M. Castillo, Y. Xue, Don A. Cowan, Brian E. Jones, Eulyn Pagaling, Shaun Heaphy, William D. GrantAbstract:A Gram-negative, non-motile, neutrophilic, rod-shaped, extremely halophilic archaeon, designated strain BG-1(T), was isolated from a salt lake, Lake Bagaejinnor, in Inner Mongolia, China. Strain BG-1(T) was able to grow at 25-55 degrees C, required at least 2.5 M NaCl for growth (with an optimum at 3.4 M NaCl) and grew at pH 6.0-9.0 (with an optimum at pH 7.5). Hypotonic treatment with less than 2.0 M NaCl caused cell lysis. Phylogenetic analysis of the almost-complete 16S rRNA gene sequence positioned the isolate within the genus Halorubrum in the family Halobacteriaceae. Strain BG-1(T) was most closely related to Halorubrum aidingense 31-hong(T) (98.8% sequence similarity), Halorubrum saccharovorum NCIMB 2081(T) (98.6%), Halorubrum lacusprofundi ACAM 34(T) (98.6%) and Halorubrum lipolyticum 9-3(T) (98.4%). However, values for DNA-DNA hybridization between strain BG-1(T) and the most closely related members of the genus Halorubrum were below 40%. Analysis of the polar lipids of strain BG-1(T) revealed the presence of mannosyl-2-sulfate-(1-4)-glycosyl-archaeol, the main glycolipid found in neutrophilic species of the genus Halorubrum. The G+C content of the genomic DNA was 69.4 mol% (T(m)). Comparison of the phenotypic characteristics of the strain with those of Halorubrum species supported the conclusion that BG-1(T) represents a novel species within this genus, for which the name Halorubrum kocurii sp. nov. is proposed. The type strain is BG-1(T) (=CECT 7322(T) =CGMCC 1.7018(T) =JCM 14978(T)).
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Halorubrum luteum sp. nov., isolated from Lake Chagannor, Inner Mongolia, China.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2008Co-Authors: Hai-lian Pan, Antonio Ventosa, Y. Xue, Don A. Cowan, Brian E. Jones, William D. GrantAbstract:A novel halophilic archaeon, strain CGSA15T, was isolated from water of Lake Chagannor in China. The strain grew optimally at 33–37 °C, pH 9.5–10.0 and 4.0–4.3 M NaCl. The major polar lipids were phosphatidylglycerol and phosphatidylglycerol phosphate methyl ester. The genomic DNA G+C content of strain CGSA15T was 60.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CGSA15T was a member of the genus Halorubrum and was related most closely to Halorubrum alkaliphilum AS 1.3528T (96.1 % similarity) and Halorubrum tibetense AS 1.3239T (96.9 %). Levels of DNA–DNA relatedness between strain CGSA15T and Hrr. alkaliphilum AS 1.3528T and Hrr. tibetense AS 1.3239T were 36.7 and 28.9 %, respectively. According to the phenotypic and genotypic data presented, strain CGSA15T is considered to represent a novel species of the genus Halorubrum, for which the name Halorubrum luteum sp. nov. is proposed. The type strain is CGSA15T (=CGMCC 1.6783T =CECT 7303T).
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Halorubrum ejinorense sp. nov., isolated from Lake Ejinor, Inner Mongolia, China.
International Journal of Systematic and Evolutionary Microbiology, 2007Co-Authors: A. M. Castillo, Masahiro Kamekura, William D. Grant, M. C. Gutiérrez, Y. Xue, Don A. Cowan, Brian E. Jones, Antonio VentosaAbstract: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-32 T 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 i49%, indicating that EJ-32 T constitutes a different genospecies. The data show that strain EJ-32 T represents a novel species of the genus Halorubrum, for which the name Halorubrum ejinorense sp. nov. is proposed. The type strain is EJ-32 T (5CECT 7194 T 5CGMCC 1.6782 T 5JCM 14265 T ).
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Halorubrum orientale sp. nov., a halophilic archaeon isolated from Lake Ejinor, Inner Mongolia, China.
International Journal of Systematic and Evolutionary Microbiology, 2006Co-Authors: A. M. Castillo, Masahiro Kamekura, William D. Grant, M. C. Gutiérrez, Y. Xue, Don A. Cowan, Brian E. Jones, Antonio VentosaAbstract:A motile, pleomorphic, red-pigmented archaeon, strain EJ-52T, was isolated from water from Lake Ejinor, a saline lake in Inner Mongolia, China. Analysis of the almost-complete 16S rRNA gene sequence showed that the isolate was phylogenetically related to species of the genus Halorubrum, being most closely related to Halorubrum saccharovorum ATCC 29252T (96.1 % sequence similarity), Halorubrum lacusprofundi JCM 8891T (95.9 %), Halorubrum tibetense AS 1.3239T (95.2 %), Halorubrum alcaliphilum AS 1.3528T (95.2 %) and Halorubrum vacuolatum JCM 9060T (95.1 %). The polar lipids of strain EJ-52T were C20C20 derivatives of phosphatidylglycerol phosphate and phosphatidylglycerol phosphate methyl ester and a sulfated diglycosyl diether. Strain EJ-52T requires at least 2.5 M NaCl for growth and grows optimally at 3.4 M NaCl. The strain grows at 25–50 °C, with optimal growth occurring at 35–45 °C. Mg2+ is not required. The DNA G+C content is 64.2 mol%. On the basis of the data obtained in this study, strain EJ52T represents a novel species, for which the name Halorubrum orientale sp. nov. is proposed. The type strain is EJ-52T (=CECT 7145T=JCM 13889T=CGMCC 1.6295T).
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Halorubrum tibetense sp. nov., a novel haloalkaliphilic archaeon from Lake Zabuye in Tibet, China.
International Journal of Systematic and Evolutionary Microbiology, 2004Co-Authors: Huapeng Fan, Antonio Ventosa, Y. Xue, William D. GrantAbstract:A novel haloalkaliphilic archaeon, strain 8W8T, was isolated from Lake Zabuye, on the Tibetan Plateau, China. On the basis of 16S rRNA gene sequence analysis, strain 8W8T was shown to belong to the genus Halorubrum and was related to Halorubrum vacuolatum (96.7% sequence similarity), Halorubrum saccharovorum (96.0%), Halorubrum lacusprofundi (95.4%) and Halorubrum sodomense (95.3%). The phylogenetic distance from any species within the other genera of Halobacteriales was lower than 90%. The major polar lipids of strain 8W8T were C20C20 and C20C25 derivatives of phosphatidylglycerol phosphate and phosphatidylglycerol phosphate methyl ester. The results of DNA-DNA hybridization and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain 8W8T from the eight Halorubrum species with validly published names. Therefore, strain 8W8T represents a novel species, for which the name Halorubrum tibetense sp. nov. is proposed, with the type strain 8W8T (=AS 1.3239T=JCM 11889T).
Masahiro Kamekura - One of the best experts on this subject based on the ideXlab platform.
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Halorubrum gandharaense sp. nov., an alkaliphilic haloarchaeon from commercial rock salt
International Journal of Systematic and Evolutionary Microbiology, 2015Co-Authors: Yusuke Kondo, Masahiro Kamekura, Hiroaki Minegishi, Akinobu Echigo, Yasuhiro Shimane, Takashi Itoh, Moriya Ohkuma, Naoko Takahashi-ando, Yasumasa Fukushima, Yasuhiko YoshidaAbstract:A Gram-stain-negative, non-motile, pleomorphic rod-shaped, orange–red-pigmented, facultatively aerobic and haloalkaliphilic archaeon, strain MK13-1T, was isolated from commercial rock salt imported from Pakistan. The NaCl, pH and temperature ranges for growth of strain MK13-1T were 3.0–5.2 M NaCl, pH 8.0–11.0 and 15–50 °C, respectively. Optimal growth occurred at 3.2–3.4 M NaCl, pH 9.0–9.5 and 45 °C. Addition of Mg2+ was not required for growth. The major polar lipids of the isolate were C20C20 and C20C25 archaeol derivatives of phosphatidylglycerol and phosphatidylglycerol phosphate methyl ester. Glycolipids were not detected. The DNA G+C content was 64.1 mol%. The 16S rRNA gene sequence of strain MK13-1T was most closely related to those of the species of the genus Halorubrum, Halorubrum luteum CECT 7303T (95.9 % similarity), Halorubrum alkaliphilum JCM 12358T (95.3 %), Halorubrum kocurii JCM 14978T (95.3 %) and Halorubrum lipolyticum JCM 13559T (95.3 %). The rpoB′ gene sequence of strain MK13-1T had < 90 % sequence similarity to those of other members of the genus Halorubrum. Based on the phylogenetic analysis and phenotypic characterization, strain MK13-1T may represent a novel species of the genus Halorubrum, for which the name Halorubrum gandharaense sp. nov. is proposed, with the type strain MK13-1T ( = JCM 17823T = CECT 7963T).
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Halorubrum gandharaense sp. nov., an alkaliphilic haloarchaeon from commercial rock salt.
International journal of systematic and evolutionary microbiology, 2015Co-Authors: Yusuke Kondo, Masahiro Kamekura, Hiroaki Minegishi, Akinobu Echigo, Yasuhiro Shimane, Takashi Itoh, Moriya Ohkuma, Naoko Takahashi-ando, Yasumasa Fukushima, Yasuhiko YoshidaAbstract:A Gram-stain-negative, non-motile, pleomorphic rod-shaped, orange–red-pigmented, facultatively aerobic and haloalkaliphilic archaeon, strain MK13-1T, was isolated from commercial rock salt imported from Pakistan. The NaCl, pH and temperature ranges for growth of strain MK13-1T were 3.0–5.2 M NaCl, pH 8.0–11.0 and 15–50 °C, respectively. Optimal growth occurred at 3.2–3.4 M NaCl, pH 9.0–9.5 and 45 °C. Addition of Mg2+ was not required for growth. The major polar lipids of the isolate were C20C20 and C20C25 archaeol derivatives of phosphatidylglycerol and phosphatidylglycerol phosphate methyl ester. Glycolipids were not detected. The DNA G+C content was 64.1 mol%. The 16S rRNA gene sequence of strain MK13-1T was most closely related to those of the species of the genus Halorubrum, Halorubrum luteum CECT 7303T (95.9 % similarity), Halorubrum alkaliphilum JCM 12358T (95.3 %), Halorubrum kocurii JCM 14978T (95.3 %) and Halorubrum lipolyticum JCM 13559T (95.3 %). The rpoB′ gene sequence of strain MK13-1T had
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Halorubrum aquaticum sp. nov., an archaeon isolated from hypersaline lakes.
International journal of systematic and evolutionary microbiology, 2010Co-Authors: M. C. Gutiérrez, Masahiro Kamekura, A. M. Castillo, P Corral, A. VentosaAbstract:Two halophilic archaea, strains EN-2(T) and SH-4, were isolated from the saline lakes Erliannor and Shangmatala, respectively, in Inner Mongolia, China. Cells were strictly aerobic, motile rods. Colonies were red. Strains EN-2(T) and SH-4 were able to grow at 25-50 °C (optimum 35-40 °C), with 2.5-5.0 M NaCl (optimum 3.4 M NaCl) and at pH 6.0-9.0 (optimum pH 7.5). MgCl(2) was not required for growth. Cells lysed in distilled water and the lowest NaCl concentration that prevented cell lysis was 12 % (w/v). On the basis of 16S rRNA gene sequence analysis, strains EN-2(T) and SH-4 were closely related to Halorubrum cibi B31(T) (97.9 and 98.0 % similarity, respectively), Hrr. tibetense 8W8(T) (97.3 and 97.7 %), Hrr. alkaliphilum DZ-1(T) (96.8 and 97.1 %), Hrr. luteum CGSA15(T) (96.8 and 97.0 %) and Hrr. lipolyticum 9-3(T) (96.8 and 97.0 %). DNA-DNA hybridization showed that strains EN-2(T) and SH-4 did not belong to the same species as any of these strains (≤ 45 % DNA-DNA relatedness) but that they are members of the same species (>70 % DNA-DNA relatedness). Polar lipid analysis revealed that strains EN-2(T) and SH-4 contained phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, sulfated diglycosyl diethers and several unidentified glycolipids. The DNA G+C content of both isolates was 62.1 mol%. It was concluded that strains EN-2(T) and SH-4 represent a novel species of the genus Halorubrum, for which the name Halorubrum aquaticum sp. nov. is proposed. The type strain is EN-2(T) ( = CECT 7174(T) = CGMCC 1.6377(T) = JCM 14031(T)).
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Halorubrum kocurii sp nov., an archaeon isolated from a saline lake
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2008Co-Authors: M. C. Gutiérrez, Masahiro Kamekura, A. M. Castillo, Y. Xue, Don A. Cowan, Brian E. Jones, Eulyn Pagaling, Shaun Heaphy, William D. GrantAbstract:A Gram-negative, non-motile, neutrophilic, rod-shaped, extremely halophilic archaeon, designated strain BG-1(T), was isolated from a salt lake, Lake Bagaejinnor, in Inner Mongolia, China. Strain BG-1(T) was able to grow at 25-55 degrees C, required at least 2.5 M NaCl for growth (with an optimum at 3.4 M NaCl) and grew at pH 6.0-9.0 (with an optimum at pH 7.5). Hypotonic treatment with less than 2.0 M NaCl caused cell lysis. Phylogenetic analysis of the almost-complete 16S rRNA gene sequence positioned the isolate within the genus Halorubrum in the family Halobacteriaceae. Strain BG-1(T) was most closely related to Halorubrum aidingense 31-hong(T) (98.8% sequence similarity), Halorubrum saccharovorum NCIMB 2081(T) (98.6%), Halorubrum lacusprofundi ACAM 34(T) (98.6%) and Halorubrum lipolyticum 9-3(T) (98.4%). However, values for DNA-DNA hybridization between strain BG-1(T) and the most closely related members of the genus Halorubrum were below 40%. Analysis of the polar lipids of strain BG-1(T) revealed the presence of mannosyl-2-sulfate-(1-4)-glycosyl-archaeol, the main glycolipid found in neutrophilic species of the genus Halorubrum. The G+C content of the genomic DNA was 69.4 mol% (T(m)). Comparison of the phenotypic characteristics of the strain with those of Halorubrum species supported the conclusion that BG-1(T) represents a novel species within this genus, for which the name Halorubrum kocurii sp. nov. is proposed. The type strain is BG-1(T) (=CECT 7322(T) =CGMCC 1.7018(T) =JCM 14978(T)).
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Halorubrum ejinorense sp. nov., isolated from Lake Ejinor, Inner Mongolia, China.
International Journal of Systematic and Evolutionary Microbiology, 2007Co-Authors: A. M. Castillo, Masahiro Kamekura, William D. Grant, M. C. Gutiérrez, Y. Xue, Don A. Cowan, Brian E. Jones, Antonio VentosaAbstract: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-32 T 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 i49%, indicating that EJ-32 T constitutes a different genospecies. The data show that strain EJ-32 T represents a novel species of the genus Halorubrum, for which the name Halorubrum ejinorense sp. nov. is proposed. The type strain is EJ-32 T (5CECT 7194 T 5CGMCC 1.6782 T 5JCM 14265 T ).
Shaoxing Chen - One of the best experts on this subject based on the ideXlab platform.
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Halorubrum amylolyticum sp. nov., a novel halophilic archaeon isolated from a salt mine
Antonie van Leeuwenhoek, 2019Co-Authors: Siqi Sun, Feilong Chen, Jingwen Liu, Shaoxing ChenAbstract:A pleomorphic and non-motile halophilic archaeon forming light-red pigmented colonies, strain ZC67T, was isolated from the Yuanyongjing Salt Mine, Yunnan, China. Based on similarity search and phylogenetic analysis of the 16S rRNA gene sequence, strain ZC67T belongs to the genus Halorubrum and is closely related to the species of Halorubrum (Hrr.) saccharovorum JCM 8865T, Hrr. persicum C49T, Hrr. halophilum B8T, Hrr. lipolyticum 9-3T, Hrr. salsamenti Y69T and Hrr. depositum Y78T with 16S rRNA gene sequence similarities of 99.0%, 98.7%, 98.5%, 98.4%, 98.1% and 97.7%, respectively. The values of average nucleotide identity (ANI) and average amino-acid identity (AAI) between strain ZC67T and its close relatives were less than 90.5% and 89.3%, respectively. In silico DNA-DNA hybridization (DDH) analysis showed that DNA-DNA relatedness between strain ZC67T and its relatives is less than 45%. Values of ANI, AAI and in silico DDH were clearly below the thresholds used for the delineation of a new species. The major polar lipids of strain ZC67T were similar to other neutrophilic members in the genus Halorubrum containing phosphatidylglycerol, phosphatidylglycerolphosphate methyl ester, phosphatidylglycerol sulfate and sulfated mannosyl-glucosyl-glycerol diether-1. The DNA G+C content was determined to be 66.3 mol% (based on the draft genome). Combined with other diagnostic characteristics, e.g. phenotypic and chemotaxonomic differences, strain ZC67T is concluded to represent a novel species in the genus Halorubrum, for which the name Halorubrum amylolyticum sp. nov. is proposed. The type strain is ZC67T (=CGMCC 1.15718T = JCM 31850T).
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Halorubrum glutamatedens sp. nov., a Halophilic Archaeon Isolated from a Rock Salt.
Current microbiology, 2018Co-Authors: Chizhen Xie, Siqi Sun, Shaoxing ChenAbstract:An extremely halophilic archaeon, strain ZY8T, was isolated from a rock salt of Yunnan salt mine. It was able to grow at 12–30% (w/v) NaCl (optimum, 15–20%), pH 7.0–9.0 (optimum, pH 8.5), and 20–45 °C (optimum, 42 °C). Sequence similarity search of its 16S rRNA gene showed that strain ZY8T belonged to the genus Halorubrum, and it is closely related to species of H. aethiopicum SAH-A6T (98.6%), H. aquaticum EN-2T (98.6%), and H. halodurans Cb34T (98.5%), respectively. Strain ZY8T contained phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester and phosphatidylglycerol sulfate as its major phospholipids, and a sulfated diglycosyl diether as its major glycolipid. The DNA G+C content was 66.7 mol%. DNA–DNA relatedness between strains ZY8T and closely related species were far below 70%. Based on the phenotypic and phylogenetic analyses, it is proposed that strain ZY8T represents a novel species of the genus Halorubrum, for which the name Halorubrum glutamatedens sp. nov. is proposed. The type strain is ZY8T (=CGMCC 1.16026T=NBRC 112866T).
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Halorubrum depositum sp. nov., a Novel Halophilic Archaeon Isolated from a Salt Deposit.
Current microbiology, 2018Co-Authors: Shaoxing Chen, Siqi Sun, Linan Chen, Liu LiuAbstract:A non-motile, pleomorphic rod-shaped or oval, red-pigmented (nearly scarlet), extremely halophilic archaeon, strain Y78T, was isolated from a salt deposit of Yunnan salt mine, China. Analysis of the 16S rRNA gene sequence showed that it was phylogenetically related to species of the genus Halorubrum, with a close relationship to Halorubrum rutilum YJ-18-S1T (98.6%), Halorubrum yunnanense Q85T (98.3%), and Halorubrum lipolyticum 9-3T (98.1%). The temperature, NaCl, and pH ranges for growth were 25–50 °C, 12–30% (w/v), and 6.5–9.0, respectively. Mg2+ was required for growth. The polar lipids of strain Y78T were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate, and a sulfated diglycosyl diether. The DNA G+C content was 66.6 mol%. DNA–DNA hybridization values between strain Y78T and two closely related species of the genus Halorubrum were far below 70%. Based on the data presented in this study, strain Y78T represents a novel species for which the name Halorubrum depositum sp. nov. is proposed; the type strain is Y78T (= CGMCC 1.15456T = JCM 31272T).
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Halorubrum salsamenti sp. nov., a Novel Halophilic Archaeon Isolated from a Brine of Salt Mine
Current microbiology, 2017Co-Authors: Shaoxing Chen, Jiao Zhang, Jiao HuangAbstract:A non-motile, spherical or oval extremely halophilic archaeon, strain Y69T, was isolated from a brine of the Yunnan salt mine, China. Colonies on JCM 168 agar plate were round (1–2 mm in diameter), moist, and orange-pigmented. Phylogenetic analysis of the almost-complete 16S rRNA gene sequence showed that the isolate belonged to the species of the genus Halorubrum, with a close relationship to Halorubrum aidingense 31-hongT (98.5%), Halorubrum lacusprofundi ATCC 49239T (98.2%), and Halorubrum kocurii BG-1T (98.0%). The major polar lipids of strain Y69T were phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and a sulfated diglycosyl diether. Strain Y69T grew in 15–30% (w/v) NaCl. The temperature and pH ranges for growth were 25–50 °C and 6.5–9.0, respectively. Optimal growth occurred at 20% (w/v) NaCl, 42 °C, and pH 8.0. Mg2+ was required for growth. The DNA G+C content was determined to be 65.1 mol% by the thermal denaturation method. DNA–DNA hybridization values between strain Y69T and the closely related species were lower than 70%. Based on the data presented in this study, strain Y69T represents a novel species for which the name Halorubrum salsamenti sp. nov. is proposed. The type of the strain is Y69T (=CGMCC 1.15455T = JCM 31270T).
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Halorubrum trueperi sp. nov., a halophilic archaeon isolated from a salt mine.
International journal of systematic and evolutionary microbiology, 2017Co-Authors: Shaoxing ChenAbstract:A novel, extremely halophilic archaeon, strain Y73T, was isolated from a salt mine in Yunnan, China. Colonies formed on solid medium were circular (2–3 mm in diameter), smooth, orange, glistening and convex (~1 mm in elevation). Cells were Gram-stain-negative, non-motile and pleomorphic. Mg2+ was required for growth (optimum at 0.05 M). Optimal growth was observed at 20 % (w/v) NaCl, 42–45 °C and pH 7.5–8.5 under aerobic conditions. 16S rRNA gene sequence comparison showed that strain Y73T was closely related to Halorubrum halophilum B8T (similarity: 98.1 %), Halorubrum lipolyticum 9-3T (97.9 %) and Halorubrum saccharovorum JCM 8865T (97.6 %). Levels of rpoB′ gene sequence similarity between strain Y73T and H. halophilum B8T, H. lipolyticum 9-3T and H. saccharovorum JCM 8865T were 93.6, 93.8 and 94.7 %, respectively. DNA–DNA relatedness between strain Y73T and H. halophilum B8T was 38.7±0.5 %, while that between strain Y73T and H. saccharovorum JCM 8865T was 31.0±0.9 % . The DNA G+C content of strain Y73T was 61.9 mol%. The major polar lipids of strain Y73T were phosphatidic acid, phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester and phosphatidylglycerol sulfate as phospholipids, and sulfated diglycosyl diether-1 as glycolipid. The phenotypic, chemotaxonomic and phylogenetic properties suggest that strain Y73T represents a novel species, for which the name Halorubrum trueperi sp. nov is proposed. The type strain is Y73T (=CGMCC 1.15503T=JCM 31271T).
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Strain NCIMB 13488 may serve as the type strain of Halorubrum trapanicum. Opinion 74.
International journal of systematic and evolutionary microbiology, 2003Co-Authors: Judicial Commission Of The International CommitteeAbstract:The Judicial Commission of the International Committee on Systematics of Prokaryotes decided that strain NCIMB 13488 may serve as the type strain of Halorubrum trapanicum.
