Rhodovulum tesquicola sp. nov., a haloalkaliphilic purple non-sulfur bacterium from brackish steppe soda lakes

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2962-2966 ◽  
Author(s):  
Elena I. Kompantseva ◽  
Anastasia V. Komova ◽  
Andrey A. Novikov ◽  
Nadezhda A. Kostrikina
Keyword(s):  
Type Species ◽  
Soda Lakes ◽  
Sequence Similarity ◽  
Anaerobic Respiration ◽  
Soda Lake ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Southern Siberia ◽  
Content Type ◽  
Link Type

Two strains of purple non-sulfur bacteria (A-36sT and A-51s) were isolated from brackish steppe soda lakes of southern Siberia. Genetically, the isolates were related most closely to the type strains of Rhodovulum steppense and Rhodovulum strictum , from which they differed at the species level (98.5 % 16S rRNA gene sequence similarity, 40–53 % DNA–DNA relatedness). Cells of the two strains were ovoid to rod-shaped, 0.4–0.8 µm wide and 1.0–2.5 µm long, and motile by means of a polar flagellum. They contained internal photosynthetic membranes of vesicular type and photosynthetic pigments (bacteriochlorophyll a and carotenoids of the spheroidene series). The strains were obligate haloalkaliphiles, growing over wide ranges of salinity (0.3–10.0 % NaCl) and pH (7.5–10.0), with growth optima at 1.0–3.0 % NaCl and pH 8.5–9.0. Photoheterotrophic and chemoheterotrophic growth occurred with a number of organic compounds and biotin, p-aminobenzoate, thiamine and niacin as growth factors. No anaerobic respiration on nitrite, nitrate or fumarate and no fermentation were demonstrated. The strains grew photolithoautotrophically and chemolithoautotrophically with sulfide, sulfur and thiosulfate, oxidizing them to sulfate. Sulfide was oxidized via deposition of extracellular elemental sulfur. No growth with H2 as the electron donor was observed. The major fatty acid was C18 : 1 (78 %). The major quinone was ubiquinone Q-10. The DNA G+C content of strain A-36sT was 65.4 mol% (T m). According to genotypic and phenotypic characteristics, the investigated strains were assigned to a novel species of the genus Rhodovulum , for which the name Rhodovulum tesquicola sp. nov. is proposed. The type strain is A-36sT ( = VKM B-2491T = ATCC BAA-1573T), which was isolated from steppe soda lake Sul’fatnoe (Zabaikal’skii Krai, southern Siberia, Russia).

Aquabacterium soli sp. nov., a novel bacterium isolated from soil under the long-term application of bifenthrin

2021 ◽  
Vol 71 (9) ◽  
Author(s):  
Lina Sun ◽  
Wei Chen ◽  
Kaihua Huang ◽  
Weiguang Lyu ◽  
Xinhua Gao
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
Novel Bacterium ◽  
Pr China

Strain SJQ9T, an aerobic bacterium isolated from a soil sample collected in Shanghai, PR China, was characterized using a polyphasic approach. It grew optimally at pH 7.0, 30–35 °C and in the presence of 1 % (w/v) NaCl. A comparative analysis of 16S rRNA gene sequences showed that strain SJQ9T fell within the genus Aquabacterium . The closest phylogenetic relatives of strain SJQ9T were Aquabacterium citratiphilum DSM 11900T (98.6 % sequence similarity) and Aquabacterium commune DSM 11901T (96.4 %). Cells of the strain were Gram-stain-negative, motile, non-spore-forming, rod-shaped and positive for oxidase activity and negative for catalase. The chemotaxonomic properties of strain SJQ9T were consistent with those of the genus Aquabacterium : the major fatty acid was summed feature 3 (C16 : 1  ω6c and/or C16 : 1  ω7c). The isoprenoid quinone was Q-8. The major polar lipids were phosphatidylethanolamine, phosphatidylcholine, phosphatidylglycerol and diphosphatidylglycerol. The DNA G+C content was 65.7 mol%. Strain SH9T exhibited a DNA–DNA relatedness level of 34±2 % with A. citratiphilum DSM 11900T and 28±3 % with A. commune DSM 11901T. Based on the obtained data, strain SJQ9T represents a novel species of the genus Aquabacterium , for which the name Aquabacterium soli sp. nov. is proposed. The type strain is SJQ9T (=JCM 33106T=CCTCC AB 2018284T).

scholarly journals Sulfitobacter undariae sp. nov., isolated from a brown algae reservoir

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1672-1678 ◽  
Author(s):  
Sooyeon Park ◽  
Yong-Taek Jung ◽  
Sung-Min Won ◽  
Ji-Min Park ◽  
Jung-Hoon Yoon
Keyword(s):  
Brown Algae ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, aerobic, non-spore-forming, non-flagellated and coccoid, ovoid or rod-shaped bacterial strain, W-BA2T, was isolated from a brown algae reservoir in Wando of South Korea. Strain W-BA2T grew optimally at 25 °C, at pH 7.0–8.0 and in the presence of approximately 2.0–3.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain W-BA2T fell within the clade comprising the type strains of species of the genus Sulfitobacter , clustering coherently with the type strains of Sulfitobacter donghicola and Sulfitobacter guttiformis showing sequence similarity values of 98.0–98.1 %. Sequence similarities to the type strains of the other species of the genus Sulfitobacter were 96.0–97.4 %. Strain W-BA2T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the major fatty acid. The major polar lipids of strain W-BA2T were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, one unidentified aminolipid and one unidentified lipid. The DNA G+C content of strain W-BA2T was 55.0 mol% and its DNA–DNA relatedness values with the type strains of Sulfitobacter donghicola , Sulfitobacter guttiformis and Sulfitobacter mediterraneus were 16–23 %. The differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, revealed that strain W-BA2T is separated from other species of the genus Sulfitobacter . On the basis of the data presented, strain W-BA2T is considered to represent a novel species of the genus Sulfitobacter , for which the name Sulfitobacter undariae sp. nov. is proposed. The type strain is W-BA2T ( = KCTC 42200T = NBRC 110523T).

Spirochaeta sphaeroplastigenens sp. nov., a halo-alkaliphilic, obligately anaerobic spirochaete isolated from soda lake Lonar

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2223-2228 ◽  
Author(s):  
S. Vishnuvardhan Reddy ◽  
S. Aspana ◽  
D. L. Tushar ◽  
Ch. Sasikala ◽  
Ch. V. Ramana
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Sequence Similarity ◽  
Soda Lake ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Dna Reassociation ◽  
Alkaline Conditions

Two helical-shaped bacteria (strains JC133T and JC143), which stain Gram-negative, were isolated from an alkaline soda lake, Lonar, India. Both strains were obligate anaerobes, mesophilic and required halo-alkaline conditions for growth. Both strains were resistant to rifampicin and kanamycin, but sensitive to gentamicin, tetracycline, ampicillin and chloramphenicol. Both strains had phosphatidylglycerol (PG), diphosphotidylglycerol (DPG), glycolipid (GL) and four unidentified lipids (L1–4) as the major polar lipids. C18 : 1ω7c was the predominant cellular fatty acid with significant proportions of C16 : 0, C18 : 1ω9c, C14 : 0, C18 : 0, C16 : 1ω5c, C18 : 1ω5c and C20 : 1ω9c. The DNA G+C contents of strain JC131T and JC143 were 58.2 and 58.5 mol%, respectively, and the two strains showed DNA reassociation >85 % (based on DNA–DNA hybridization). Based on the 16S rRNA gene sequence analysis, both strains were identified as belonging to the genus Spirochaeta with Spirochaeta alkalica Z-7491T (99.6 % sequence similarity), Spirochaeta americana ASpG1T (99 %) and other members of the genus Spirochaeta (<93 %) as their closest phylogenetic neighbours. However, strain JC133T and JC143 displayed less than 53.5 % binding (based on DNA–DNA hybridization) with S. alkalica Z-7491T and S. americana ASpG1T. On the basis of physiological, biochemical, chemotaxonomic and molecular properties, strains JC133T and JC143 can be differentiated from other members of the genus Spirochaeta and represent a novel species of the genus Spirochaeta , for which the name Spirochaeta sphaeroplastigenens sp. nov. is proposed. The type strain is JC133T ( = KCTC 15220T = NBRC 109056T).

Ruania rhizosphaerae sp. nov., a novel actinobacterium isolated from rhizosphere of Suaeda aralocaspica

2021 ◽  
Vol 71 (9) ◽  
Author(s):  
Wan-Ni Lu ◽  
Yi-Zhuo Xu ◽  
Yuan-Guo Xie ◽  
Rui Gao ◽  
Jie-Qiong Song ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
West China ◽  
Content Type ◽  
North West ◽  
Link Type

A Gram-stain-positive, non-motile and short rod-shaped actinobacterium, designated strain LNNU 22110T, was isolated from the rhizosphere soil of the halophyte Suaeda aralocaspica (Bunge) Freitag and Schütze, which collected in Xinjiang, north-west China. Growth occurred at 10–45 °C, pH 6.0–10.0 and in the presence of 0–11 % NaCl (w/v). Based on the results of 16S rRNA gene sequence phylogenetic analyses, strain LNNU 22110T belonged to the genus Ruania and had 97.5 and 95.5 % sequence similarity to Ruania alba KCTC 19413T and Ruania albidiflava CGMCC 4.3142T, respectively. The digital DNA–DNA hybridization relatedness values between strain LNNU 22110T and R. alba KCTC 19413T and R. albidiflava CGMCC 4.3142T were 23.2 and 19.9 %, respectively. The highest average nucleotide identity value between strain LNNU 22110T and its closest related strain ( R. alba KCTC 19413T) was 80.2 %, much lower than the species delineation threshold of 95–96 %. The genome of strain LNNU 22110T was 4.4 Mb, with a genomic DNA G+C content of 68.4 mol%. The diagnostic diamino acids in the peptidoglycan layer of strain LNNU 22110T were lysine, alanine, glycine, glutamic acid and aspartic acid. The predominant menaquinone was MK-8(H4). The major fatty acid (>10 %) was anteiso-C15 : 0. The polar lipid profile of strain LNNU 22110T included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, diacylated phosphatidyl dimannoside, one unidentified glycolipid and two unidentified phospholipids. According to the phenotypic, phylogenetic and chemotaxonomic results, strain LNNU 22110T is considered to represent a novel species of the genus Ruania , for which the name Ruania rhizosphaerae sp. nov. is proposed. The type strain is LNNU 22110T (=KCTC 39807T=CGMCC 1.17105T).

scholarly journals Loktanella maritima sp. nov. isolated from shallow marine sediments

2014 ◽  
Vol 64 (Pt_7) ◽  
pp. 2370-2375 ◽  
Author(s):  
Naoto Tanaka ◽  
Lyudmila A. Romanenko ◽  
Valeriya V. Kurilenko ◽  
Vassilii I. Svetashev ◽  
Natalia I. Kalinovskaya ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Phenotypic Characterization ◽  
The Sea Of Japan ◽  
Rrna Gene ◽  
Organic Substrates ◽  
Content Type ◽  
Link Type ◽  
Shallow Marine Sediments

An aerobic, Gram-stain-negative, non-motile bacterium, KMM 9530T, was isolated from a sediment sample collected from the Sea of Japan seashore. Comparative 16S rRNA gene sequence analysis positioned novel strain KMM 9530T in the genus Loktanella as a separate line adjacent to Loktanella sediminilitoris KCTC 32383T, Loktanella tamlensis JCM 14020T and Loktanella maricola JCM 14564T with 98.5–98.2 % sequence similarity. Strain KMM 9530T was characterized by its weak hydrolytic capacity and inability to assimilate most organic substrates. The major isoprenoid quinone was Q-10, polar lipids consisted of phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, an unknown phospholipid, an unknown aminolipid and unknown lipids, and the major fatty acid was C18 : 1ω7c. On the basis of phylogenetic analysis, DNA–DNA hybridization and phenotypic characterization, it can be concluded that the novel strain KMM 9530T represents a novel species in the genus Loktanella , for which the name Loktanella maritima sp. nov. is proposed. The type strain of the species is KMM 9530T ( = NRIC 0919T = JCM 19807T).

Actinoplanes atraurantiacus sp. nov., isolated from soil

2012 ◽  
Vol 62 (Pt_10) ◽  
pp. 2533-2537 ◽  
Author(s):  
Yabo Zhang ◽  
Jianli Zhang ◽  
Lei Fan ◽  
Huancheng Pang ◽  
Yuhua Xin ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Methyl Esters ◽  
Major Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Positive Staining ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type

A Gram-positive-staining bacterium, designated Y16T, was isolated from a soil sample from Yunnan Province, China. The isolate grew optimally at 25–30 °C, grew at pH 6.0–9.0 and could grow with 3 % NaCl. Strain Y16T had cell-wall peptidoglycan based on meso-diaminopimelic acid. The predominant menaquinones were MK-9(H4) and MK-9(H2). The major fatty acid methyl esters were anteiso-C15 : 0, iso-C15 : 0, anteiso-C17 : 0 and C16 : 0. These chemotaxonomic characteristics suggested that the organism belonged to the genus Actinoplanes . Strain Y16T shared 98.7, 98.3 and 97.9 % 16S rRNA gene sequence similarity with Actinoplanes deccanensis IFO 13994T, A. abujensis A4029T and A. brasiliensis DSM 43805T, respectively. The DNA G+C content of the isolate was 70.8 mol%. DNA–DNA relatedness between the novel isolate and the type strains of A. deccanensis , A. abujensis and A. brasiliensis was 35.2, 32.0 and 22.3 %, respectively. In addition, the pattern of phenotypic properties distinguished strain Y16T from its closest phylogenetic neighbours. It is therefore concluded that strain Y16T ( = CGMCC 4.6857T = JCM 17700T) represents a novel species of the genus Actinoplanes , for which the name Actinoplanes atraurantiacus sp. nov. is proposed.

Pontibacter ruber sp. nov. and Pontibacter deserti sp. nov., isolated from the desert

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 1006-1011 ◽  
Author(s):  
Y. Subhash ◽  
Ch. Sasikala ◽  
Ch. V. Ramana
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Genotypic Differences ◽  
Major Polar Lipid ◽  
Sequence Comparisons ◽  
Content Type ◽  
Link Type ◽  
Hydrolysed Casein

Two strains of bacteria, JC213T and JC215T, were isolated from desert soil. Colonies were red to pink and cells Gram-stain-negative. Both strains were oxidase- and catalase-positive and hydrolysed casein. In both strains, phosphatidylethanolamine was the major polar lipid, iso-C15 : 0 was the major fatty acid and the bacteriohopane derivative, BHD1, was the major hopanoid. The genomic DNA G+C contents of strains JC213T and JC215T were 52.7 and 46.3 mol%, respectively. 16S rRNA gene sequence comparisons indicated that both strains belong to the genus Pontibacter within the family Cytophagaceae and the phylum Bacteroidetes . Strain JC213T showed the highest sequence similarity to Pontibacter populi HLY7-15T (96.6 %) and with other species of the genus Pontibacter sequence similarity was less than 96 %. Strain JC215T exhibited highest sequence similarity with Pontibacter lucknowensis DM9T (95.1 %) and shared 95 % or less sequence similarity with other species of the genus Pontibacter . The sequence similarity between strains JC213T and JC215T was 95.8 %. Distinct morphological, physiological and genotypic differences from previously described taxa support JC213T and JC215T being representatives of two novel species of the genus Pontibacter , for which the names Pontibacter ruber sp. nov. and Pontibacter deserti sp. nov. are proposed and the type strains are JC213T ( = KCTC 32442T = LMG 27669T) and JC215T ( = KCTC 32443T = LMG 27670T), respectively.

scholarly journals Rhodoplanes oryzae sp. nov., a phototrophic alphaproteobacterium isolated from the rhizosphere soil of paddy

2014 ◽  
Vol 64 (Pt_7) ◽  
pp. 2198-2203 ◽  
Author(s):  
A. Srinivas ◽  
Ch. Sasikala ◽  
Ch. V. Ramana
Keyword(s):  
Type Species ◽  
Rhizosphere Soil ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
High Sequence Similarity ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Bacterium Strain

A Gram-stain-negative, rod-shaped, phototrophic bacterium, strain JA793T, was isolated from rhizosphere soil of paddy. The strain was capable of growing phototrophically and chemotrophically. Bacteriochlorophyll-a and carotenoids of the spirilloxanthin series were present as photosynthetic pigments. The major fatty acid of strain JA793T was C18 : 1ω7c/C18 : 1ω6c (>65.7 %), with minor amounts of C16 : 0, C16 : 1ω7c/C16 : 1ω6c, C20 : 2ω6,9c, C16 : 0 3-OH, C14 : 0 and C18 : 0 also present. Ubiquinone-10 and rhodoquinone-10 were present as primary quinones. Phosphatidylglycerol, phosphatidylethanolamine and phosphatidylcholine were the major polar lipids, while minor amounts of amino lipids and unidentified lipids were also present. The G+C content of genomic DNA of strain JA793T was 68.7 mol%. 16S rRNA gene-based EzTaxon-e blast search analysis of strain JA793T indicated highest sequence similarity with members of the genus Rhodoplanes in the family Hyphomicrobiaceae of the class Alphaproteobacteria . Strain JA793T had high sequence similarity with Rhodoplanes elegans AS130T (98.6 %), Rhodoplanes roseus 941T (98 %), Rhodoplanes pokkaliisoli JA415T (97.5 %) and Rhodoplanes piscinae JA266T (97.3 %) and other members of the genus Rhodoplanes (<97 %). However, strain JA266T was related by <59 % (based on DNA–DNA hybridization) to Rhodoplanes elegans DSM 11907T ( = AS130T), Rhodoplanes roseus DSM 5909T ( = 941T), Rhodoplanes pokkaliisoli JA415T and Rhodoplanes piscinae JA266T. The genomic information was well supported by phenotypic and chemotaxonomic data to classify strain JA793T as a representative of a novel species in the genus Rhodoplanes , for which the name Rhodoplanes oryzae sp. nov. is proposed. The type strain is JA793T ( = NBRC 109406T = KCTC 15260T).

Rhodovulum steppense sp. nov., an obligately haloalkaliphilic purple nonsulfur bacterium widespread in saline soda lakes of Central Asia

2010 ◽  
Vol 60 (5) ◽  
pp. 1210-1214 ◽  
Author(s):  
Elena I. Kompantseva ◽  
Anastasia V. Komova ◽  
Nadezhda A. Kostrikina
Keyword(s):  
Central Asia ◽  
Soda Lakes ◽  
Anaerobic Respiration ◽  
Soda Lake ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Southern Siberia ◽  
Wide Range ◽  
Nitrite Nitrate ◽  
A New Species

Seven strains of purple nonsulfur bacteria isolated from the shallow-water steppe soda lakes of the cryoarid zone of Central Asia formed a genetically homogeneous group within the genus Rhodovulum. The isolates were most closely related to Rhodovulum strictum, from which they differed at the species level (99.5 % 16S rRNA gene identity and 42–44 % DNA–DNA hybridization level). According to genotypic and phenotypic characteristics, the strains were assigned to a new species of the genus Rhodovulum, for which the name Rhodovulum steppense sp. nov. is proposed. Cells of all strains were ovoid to rod-shaped, 0.3–0.8 μm wide and 1–2.5 μm long, and motile by means of polar flagella. They contained internal photosynthetic membranes of the vesicular type and photosynthetic pigments (bacteriochlorophyll a and carotenoids of the spheroidene series). All strains were obligate haloalkaliphiles, growing within a wide range of salinity (0.3–10 %) and pH (7.5–10), with growth optima at 1–5 % NaCl and pH 8.5. Photo- and chemoheterotrophic growth occurred with a number of organic compounds and biotin, thiamine and niacin as growth factors. No anaerobic respiration on nitrite, nitrate or fumarate and no fermentation was demonstrated. Bacteria grew photo- and chemolithoautotrophically with sulfide, sulfur and thiosulfate, oxidizing them to sulfate. Sulfide was oxidized via deposition of extracellular elemental sulfur. No growth with H2 as electron donor was demonstrated. The major fatty acid was 18 : 1 (81.0 %). The major quinone was Q-10. The DNA G+C content was 66.1 mol% (T m). The type strain, A-20sT (=VKM B-2489T =DSM 21153T), was isolated from soda lake Khilganta (Zabaikal'skii Krai, southern Siberia, Russia).

Jatrophihabitans soli sp. nov., isolated from soil

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1759-1763 ◽  
Author(s):  
Soo-Jin Kim ◽  
Ji-Young Moon ◽  
Jun-Muk Lim ◽  
Moriyuki Hamada ◽  
Jae-Hyung Ahn ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Analysis ◽  
Content Type ◽  
Link Type ◽  
Diamino Acid ◽  
The 16S Rrna Gene

One bacterial strain, designated KIS75-12T, isolated from a soil sample collected from Wonsando island located in Boryeong city, Republic of Korea, was characterized as aerobic, Gram-stain-positive, non-flagellated and a short rod. It grew between temperatures of 15–37 °C, pH 4–9 and 0–3.0 % (w/v) NaCl. The 16S rRNA gene analysis showed the strain was moderately related to Jatrophihabitans endophyticus S9-650T (97.7 %) and revealed low sequence similarity (≤94.7 %) with all the other species with validly published names. Its major fatty acid was iso-C16 : 0. The predominant menaquinone of strain KIS75-12T was MK-9(H4). The polar lipids consisted of diphosphatidylglycerol and several small amounts of phosphatidylinositol, aminolipids and glycolipid. The peptidoglycan contained meso-A2pm as diagnostic diamino acid and the peptidoglycan type is A4γ. The genomic DNA G+C content of the type strain was 72.1 mol%. The combined phenotypic, chemotaxonomic and phylogenetic data showed that strain KIS75-12T could be clearly distinguished from the only member of the genus Jatrophihabitans , J. endophyticus . Therefore, the results of this study indicate the existence of a representative of a novel species of the genus Jatrophihabitans , for which we propose the name Jatrophihabitans soli sp. nov., with strain KIS75-12T ( = KACC 17298T = DSM 45908T  =  NBRC 109658T) as the type strain. An emended description of the genus Jatrophihabitans is also given.

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