- Volume 64, Issue Pt_3, 2014
Volume 64, Issue Pt_3, 2014
- New Taxa
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- Bacteroidetes
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Pontibacter yuliensis sp. nov., isolated from soil
More LessA Gram-staining-negative, rod-shaped and pink bacterium was isolated from the soil of a Populus euphratica forest in the Taklamakan desert, Xinjiang, China. It was designated strain H9XT. A 16S rRNA gene sequence homology search indicated that the isolate was most closely related to the family Cytophagaceae . The 16S rRNA gene of strain H9XT displayed 94.2–96.3 % sequence identities to those of type strains of other species of the genus Pontibacter . It only possessed menaquinone-7. The major cellular fatty acids of the novel isolate were iso-C15 : 0, C16 : 1ω5c summed feature 3 (containing C16 : 1ω6c and/or C16 : 1ω7c) and summed feature 4 (comprising anteiso-C17 : 1 B and/or iso-C17 : 1 I). The major polar lipids were phosphatidylethanolamine, one unknown aminophospholipid, one unknown glycophospholipid and several unknown phospholipids. The DNA G+C content of this bacterium was 55.2 mol%. Based on the phenotypic and genotypic data presented, it can be concluded that this isolate represents a novel species of the genus Pontibacter , for which the name Pontibacter yuliensis sp. nov. is proposed. The type strain is H9XT ( = CCTCC AB 2013047T = KCTC 32396T).
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Polaribacter huanghezhanensis sp. nov., isolated from Arctic fjord sediment, and emended description of the genus Polaribacter
A Gram-negative, orange-colony-forming, aerobic and non-flagellated bacterium, designated strain SM1202T, was isolated from marine sediment of Kongsfjorden, Svalbard. Analysis of 16S rRNA gene sequences revealed that strain SM1202T was phylogenetically closely related to the genus Polaribacter . It shared the highest 16S rRNA gene sequence similarity with the type strain of Polaribacter dokdonensis (94.2 %) and 92.7–93.9 % sequence similarity with type strains of other known species of the genus Polaribacter . The strain grew at 4–35 °C and with 1.0–5.0 % (w/v) NaCl. It contained iso-C15 : 0, iso-C15 : 0 3-OH, iso-C13 : 0, C15 : 0, iso-C15 : 1 G, iso-C17 : 0 3-OH and C15 : 1ω6c as predominant cellular fatty acids and menaquinone-6 (MK-6) as the major respiratory quinone. The polar lipids of strain SM1202T were phosphatidylethanolamine, one unidentified lipid, two unidentified aminophospholipids and one unidentified aminolipid. The genomic DNA G+C content of strain SM1202T was 36.4 mol%. On the basis of the data from this polyphasic taxonomic study, strain SM1202T represents a novel species in the genus Polaribacter of the family Flavobacteriaceae , for which the name Polaribacter huanghezhanensis sp. nov. is proposed. The type strain of Polaribacter huanghezhanensis is SM1202T ( = CCTCC AB 2013148T = KCTC 32516T). An emended description of the genus Polaribacter is also presented.
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Hymenobacter ruber sp. nov., isolated from grass soil
More LessA taxonomic study using a polyphasic approach was performed on a Gram-stain-negative, aerobic, non-motile, non-spore-forming, rod-shaped bacterium, designated strain PB156T, isolated from grass soil. Comparative 16S rRNA gene sequence studies showed that the isolate was clearly affiliated with the phylum Bacteroidetes , and most closely related to Hymenobacter soli PB17T, Hymenobacter antarcticus VUG-A42aaT and Hymenobacter glaciei VUG-A130T, showing 96.4, 96.2 and 95.9 % 16S rRNA gene sequence similarity, respectively, while all other species of the genus shared only 89.3–95.2 % similarity. The main polyamine present was sym-homospermidine. The predominant menaquinone was MK-7. The major fatty acids were C15 : 0 iso, summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c/t), C16 : 1ω5c and C15 : 0 anteiso. The G+C content of the genomic DNA of strain PB156T was 61.7 mol%. The combined genotypic and phenotypic data supported the conclusion that strain PB156T represents a novel species of the genus Hymenobacter , for which the name Hymenobacter ruber sp. nov. is proposed. The type strain is PB156T ( = KCTC 32477T = JCM 19433T).
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Salinimicrobium sediminis sp. nov., isolated from a deep-sea sediment
More LessStrain JC207T was isolated from a deep (265 m) sea sediment, and appeared as dark yellow colonies on agar plates with cells staining Gram-negative. Catalase, oxidase and caseinase were positive, while chitinase, gelatinase and amylase were negative. Major (>5 %) fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 1ω9c, iso-C16 : 0, iso-C15 : 0 3-OH, iso-C17 : 0 3-OH, iso-C14 : 0 and iso-C15 : 1G. Strain JC207T contained phosphatidylethanolamine as the major polar lipid, with minor amounts of five unidentified lipids. A bacterial hopane derivative, diplopterol and adenosylhopane were the major hopanoids. Genomic DNA G+C content was 47.5 mol%. 16S rRNA gene sequence comparisons indicated that strain JC207T represented a member of the genus Salinimicrobium within the family Flavobacteriaceae of the phylum Bacteroidetes . Strain JC207T had sequence similarity with Salinimicrobium terrae YIM-C338T (98 %), Salinimicrobium xinjiangense BH206T (97.6 %) and other members of the genus Salinimicrobium (<96.8 %). However, strain JC207T showed an average of 23.6±4 and 37±4 relatedness (based on DNA–DNA hybridization) with Salinimicrobium terrae CGMCC 1.6308T ( = YIM-C338T) and Salinimicrobium xinjiangense KCTC 12883T ( = BH206T), respectively. Morphological, physiological and genotypic differences from the previously described taxa support the classification of strain JC207T as a representative of a novel species in the genus Salinimicrobium , for which the name Salinimicrobium sediminis sp. nov. is proposed. The type strain is JC207T ( = KCTC 32444T = CGMCC 1.12641T).
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Cyclobacterium halophilum sp. nov., a marine bacterium isolated from a coastal-marine wetland
More LessA novel Gram-stain-negative, slightly halophilic bacterium, designated strain GASx41T, was isolated from soil of the coastal–marine wetland Gomishan in Iran. Cells of strain GASx41T were curved, ring-like or horseshoe-shaped rods and non-motile. Strain GASx41T was strictly aerobic, and catalase- and oxidase-positive. The strain was able to grow at NaCl concentrations of 1–10 % (w/v), with optimum growth occurring at 2.5–3 % (w/v) NaCl. The optimum temperature and pH for growth were 25–30 °C and pH 7.5–8.0. On the basis of 16S rRNA gene sequence analysis, strain GASx41T was shown to belong to the genus Cyclobacterium within the phylum Bacteroidetes and showed closest phylogenetic similarity to ‘Cyclobacterium jeungdonense’ HMD3055 (98.0 %). The DNA G+C content of strain GASx41T was 48.1 mol%. The major cellular fatty acids of strain GASx41T were iso-C15 : 0, summed feature 4 (iso-C15 : 0 2-OH and/or C16 : 1ω7c), anteiso-C15 : 0 2-OH, anteiso-C15 : 0 and iso-C17 : 0 3-OH, and its polar lipid pattern consisted of phosphatidylethanolamine, phosphatidylcholine and 12 unknown lipids. The only quinone present was menaquinone 7 (MK-7). All these features confirmed the placement of isolate GASx41T within the genus Cyclobacterium . On the basis of evidence from this study, a novel species of the genus Cyclobacterium , Cyclobacterium halophilum sp. nov., is proposed, with strain GASx41T ( = IBRC-M 10761T = CECT 8341T) as the type strain.
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Pontibacter ruber sp. nov. and Pontibacter deserti sp. nov., isolated from the desert
More LessTwo 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.
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Taibaiella koreensis sp. nov., isolated from soil of a ginseng field
More LessA Gram-staining-negative, strictly aerobic, motile (by gliding), non-spore-forming and rod-shaped bacterial strain, designated THG-DT86T, was isolated from soil of a ginseng field of Pocheon province in the Republic of Korea and its taxonomic position was investigated by a polyphasic approach. Growth occurred at 10–35 °C, at pH 6.5–8.5 and with 0–1.5 % (w/v) NaCl on trypticase soy agar. Flexirubin-type pigments were found to be present. On the basis of 16S rRNA gene sequence similarity, strain THG-DT86T was shown to belong to the genus Taibaiella and was related to Taibaiella smilacinae PTJT-5T (95.3 %). The G+C content of the genomic DNA was 50.1 mol%. The only isoprenoid quinone detected in strain THG-DT86T was menaquinone-7 (MK-7) and the only polyamine was homospermidine. The predominant fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, C16 : 0, iso-C15 : 1 G and iso-C17 : 0, and the major polar lipids were phosphatidylethanolamine, an unidentified aminophosphoglycolipid and an unidentified aminophospholipid. Phenotypic data and phylogenetic inference supported the affiliation of strain THG-DT86T to the genus Taibaiella , and a number of biochemical tests differentiated strain THG-DT86T from the recognized species of the genus Taibaiella . Therefore, the novel isolate represents a novel species, for which the name Taibaiella koreensis sp. nov. is proposed, with THG-DT86T as the type strain ( = KACC 17171T = JCM 18823T).
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- Other Bacteria
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Meiothermus terrae sp. nov., isolated from a geothermally heated soil sample
A Gram-negative, aerobic bacterium, designated strain YIM 77755T, was isolated from a geothermally heated soil sample collected at Rehai National Park, Tengchong, Yunnan province, south-west China. Cells of the strain were rod-shaped and colonies were yellow and circular. Growth occurred in 0–1 % (w/v) NaCl, at pH 6.0–8.0 (optimum, pH 7.0) and at 35–55 °C (optimum, 50 °C). The predominant menaquinone was MK-8 and the DNA G+C content was 68.9 mol%. Major fatty acids (>10 %) were anteiso-C15 : 0 and iso-C15 : 0. The polar lipids consisted of an uncharacterized phospholipid and four glycolipids. Based on 16S rRNA gene sequence analysis, strain YIM 77755T formed a cluster with Meiothermus chliarophilus ALT-8T and showed the highest 16S rRNA gene sequence similarity to M. chliarophilus ALT-8T (98.23 %). DNA–DNA relatedness between YIM 77755T and M. chliarophilus DSM 9957T was 54.9±4.1 %. On the basis of the morphological and chemotaxonomic characteristics as well as genotypic data, it is proposed that strain YIM 77755T represents a novel species of the genus Meiothermus , named Meiothermus terrae sp. nov. The type strain is YIM 77755T ( = DSM 26712T = CCTCC AB 2012942T).
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Pelolinea submarina gen. nov., sp. nov., an anaerobic, filamentous bacterium of the phylum Chloroflexi isolated from subseafloor sediment
A novel, anaerobic filamentous bacterium, strain MO-CFX1T, was isolated from a methanogenic community, which was originally established from subseafloor sediments collected from off the Shimokita Peninsula, Japan. Cells were non-spore-forming, non-motile, Gram-stain-negative and filamentous. The filaments were longer than 10 µm and 130–150 nm in width. Growth of the strain was observed at 10–37 °C (optimum 25–30 °C), at pH 5.5–8.5 (optimum pH 7.0) and in 0–50 g NaCl l−1 (optimum 15 g NaCl l−1). The strain was able to grow with a number of carbohydrates in the presence of yeast extract. The major cellular fatty acids were monounsaturated C18 : 1ω9, C16 : 1ω7 and saturated C18 : 0 and C16 : 0. The intact polar lipids of the strain were dominated by diacylglyceride and sphingolipid core lipid structures with monoglycosidic, mixed phosphomonoglycosidic and fatty-acid-modified monoglycosidic polar head groups. The G+C content of the genomic DNA was 52.4 mol%. Based on the comparative 16S rRNA gene sequence analysis, strain MO-CFX1T was affiliated with the class Anaerolineae within the phylum Chloroflexi and was most closely related to Leptolinea tardivitalis YMTK-2T (sequence identity of 91.0 %). Based on phenotypic and genetic properties of the novel isolate, we propose a novel species representing a new genus Pelolinea submarina gen. nov., sp. nov., for strain MO-CFX1T ( = JCM 17238T, = KCTC 5975T). This is the first formal description, to our knowledge, of an isolate of the phylum Chloroflexi from the deep-sea sedimentary environment.
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- Eukaryotic Micro-organisms
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Wickerhamomyces arborarius f.a., sp. nov., an ascomycetous yeast species found in arboreal habitats on three different continents
Five strains representing a novel yeast species belonging to the genus Wickerhamomyces were independently isolated from Ecuador, Taiwan and the USA. One strain (CLQCA 10-161T) was isolated from the white flower of an unidentified plant species collected in the Maquipucuna cloud forest reserve, near Quito, in Ecuador. A second strain (GY7L12) was isolated from the leaf of a Chinese sumac or nutgall tree (Rhus chinensis ‘roxburghiana’) collected in the Taoyuan mountain area, Kachsiung, in Taiwan. Three additional strains (A543, A546 and A563) were isolated from two species of wood-boring beetle (Xyleborus glabratus and Xyleborinus saxeseni) collected near Clyo, Georgia, USA. Analysis of the D1/D2 domains of the LSU rRNA gene indicated that the novel species belongs to the genus Wickerhamomyces, and is most closely related to Wickerhamomyces sydowiorum, an insect-associated species predominantly found in South Africa. The North American and Taiwanese strains have identical internal transcribed spacer (ITS) sequences and can be distinguished from the Ecuadorian strain based on a single nucleotide substitution in the ITS1 region. The species name of Wickerhamomyces arborarius f.a., sp. nov. is proposed to accommodate these strains, with CLQCA 10-161T ( = CBS 12941T = NCYC 3743T) designated the type strain.
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- ICSP
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- Taxonomic Note
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On the status of the species name Streptomyces ruanii Kumar and Goodfellow 2008.
More LessThe species name Streptomyces ruanii Kumar and Goodfellow 2008 was published in the International Journal of Systematic and Evolutionary Microbiology in 2008. It is generally treated as a legitimate and validly published name. However, closer examination of the publication indicates that this name is contrary to the Rules of the Nomenclatural Code dealing with prokaryotes and is both illegitimate and not validly published.
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A note on the genus name Rhodococcus Zopf 1891 and its homonyms
More LessThe genus name Rhodococcus Zopf 1891 was created to accommodate two species of red pigment (lipochrome)-producing bacteria. However, the genus name Rhodococcus Hansgirg 1884 had already been applied to an algal taxon. The wording of the 1975 and subsequent revisions of the Code dealing with bacteria/prokaryotes is such that the name Rhodococcus Zopf 1891 is illegitimate, despite the fact that it was included on the Approved Lists of Bacterial Names. Further research using databases of scientific names of organisms indicate the status of the name Rhodococcus Zopf 1891 needs to be carefully considered.
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What ever happened to Thermomicrobium fosteri Phillips and Perry 1976?
More LessThermomicrobium fosteri Phillips and Perry 1976 was included on the Approved List of Bacterial Names with the type strain designated ATCC 29033. However, this strain is no longer directly listed in the ATCC online catalogue and the only reference to ATCC 29033 is under ATCC 35268, a strain of Thermoleophilum minutum Zarilla and Perry 1986. There currently appears to be no formal documentation in the pages of the International Journal of Systematic and Evolutionary Microbiology with regards either the current status of the name Thermomicrobium fosteri Phillips and Perry 1976 or its type strain ATCC 29033.
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- Minutes
- Errata
Volumes and issues
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Volume 74 (2024)
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Volume 73 (2023)
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Volume 72 (2022 - 2023)
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Volume 71 (2020 - 2021)
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Volume 70 (2020)
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Volume 69 (2019)
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Volume 68 (2018)
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Volume 67 (2017)
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Volume 66 (2016)
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Volume 65 (2015)
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Volume 64 (2014)
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Volume 63 (2013)
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Volume 62 (2012)
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Volume 61 (2011)
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Volume 60 (2010)
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Volume 59 (2009)
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Volume 58 (2008)
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Volume 57 (2007)
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Volume 56 (2006)
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Volume 55 (2005)
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Volume 54 (2004)
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Volume 53 (2003)
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Volume 52 (2002)
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Volume 51 (2001)
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Volume 50 (2000)
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Volume 49 (1999)
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Volume 48 (1998)
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Volume 47 (1997)
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Volume 46 (1996)
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Volume 45 (1995)
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Volume 44 (1994)
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Volume 43 (1993)
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Volume 42 (1992)
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Volume 41 (1991)
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Volume 40 (1990)
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Volume 39 (1989)
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Volume 38 (1988)
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Volume 37 (1987)
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Volume 36 (1986)
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Volume 35 (1985)
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Volume 34 (1984)
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Volume 33 (1983)
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Volume 32 (1982)
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Volume 31 (1981)
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Volume 30 (1980)
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Volume 29 (1979)
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Volume 28 (1978)
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Volume 27 (1977)
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Volume 26 (1976)
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Volume 25 (1975)
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Volume 24 (1974)
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Volume 23 (1973)
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Volume 22 (1972)
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Volume 21 (1971)
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Volume 20 (1970)
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Volume 19 (1969)
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Volume 18 (1968)
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Volume 17 (1967)
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Volume 16 (1966)
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Volume 15 (1965)
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Volume 14 (1964)
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Volume 13 (1963)
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Volume 12 (1962)
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Volume 11 (1961)
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Volume 10 (1960)
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Volume 9 (1959)
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Volume 8 (1958)
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Volume 7 (1957)
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Volume 6 (1956)
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Volume 5 (1955)
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Volume 4 (1954)
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Volume 3 (1953)
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Volume 2 (1952)
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Volume 1 (1951)