- Volume 55, Issue 3, 2005
Volume 55, Issue 3, 2005
- New Taxa
-
- Gram-Positive Bacteria
-
-
Leuconostoc durionis sp. nov., a heterofermenter with no detectable gas production from glucose
Three lactic acid bacterial (LAB) strains obtained from a Malaysian acid-fermented condiment, tempoyak (made from pulp of the durian fruit), showed analogous but distinct patterns after screening by SDS-PAGE of whole-cell proteins and comparison with profiles of all recognized LAB species. 16S rRNA gene sequencing of one representative strain showed that the taxon belongs phylogenetically to the genus Leuconostoc, with its nearest neighbour being Leuconostoc fructosum (98 % sequence similarity). Biochemical characteristics and DNA–DNA hybridization experiments demonstrated that the strains differ from Leuconostoc fructosum and represent a single, novel Leuconostoc species for which the name Leuconostoc durionis sp. nov. is proposed. The type strain is LMG 22556T (=LAB 1679T=D-24T=CCUG 49949T).
-
-
-
Bacillus axarquiensis sp. nov. and Bacillus malacitensis sp. nov., isolated from river-mouth sediments in southern Spain
Two Gram-positive, rod-shaped, endospore-forming bacteria (strains CR-119T and CR-95T) were isolated from brackish sediments in the mouth of the river Vélez in Málaga, southern Spain, and subjected to a polyphasic taxonomic study. Phenotypic tests showed that these strains were related to other Bacillus species at a similarity level of less than 87·6 %. Both strains are halotolerant, aerobic, chemoheterotrophic, motile with peritrichous flagella and biosurfactant producers. Their endospores are oval, subterminal and non-deforming structures. The predominant menaquinone in both strains is MK-7. The fatty-acid profiles of both strains contain large quantities of branched and saturated fatty acids. The major fatty acids (%) are 15 : 0 anteiso (32·4), 15 : 0 iso (16·8), 17 : 0 iso (13·4), 16 : 0 (11·5) and 17 : 0 anteiso (10·2) in strain CR-119T and 15 : 0 anteiso (37·5), 17 : 0 iso (16·0) and 17 : 0 anteiso (15·8) in strain CR-95T. The G+C contents of strains CR-119T and CR-95T are 41·0 and 42·5 mol%, respectively. RAPD analysis confirmed the low degree of similarity between the two strains and also amongst other Bacillus species. 16S rRNA gene analysis of strain CR-119T showed the highest sequence similarity to be 97·4 %, with Bacillus mojavensis and Bacillus subtilis subsp. spizizenii. In the case of strain CR-95T, the maximum similarity value was 99·5 %, with B. mojavensis. DNA–DNA hybridization of strains CR-119T and CR-95T with the above species produced values lower than 46·9 %. Therefore, on the basis of phenotypic characteristics, phylogenetic data and genomic distinctiveness, we conclude that these Bacillus strains merit classification as novel species, for which we propose the names Bacillus axarquiensis sp. nov. (type strain CR-119T=CECT 5688T=LMG 22476T) and Bacillus malacitensis sp. nov. (type strain CR-95T=CECT 5687T=LMG 22477T).
-
-
-
Paenibacillus rhizosphaerae sp. nov., isolated from the rhizosphere of Cicer arietinum
Two sporulating bacterial strains designated CECAP06T and CECAP16 were isolated from the rhizosphere of the legume Cicer arietinum in Argentina. Almost-complete 16S rRNA gene sequences identified the isolates as a Paenibacillus species. It was most closely related to Paenibacillus cineris LMG 18439T (99·6 % sequence similarity), Paenibacillus favisporus LMG 20987T (99·4 % sequence similarity) and Paenibacillus azoreducens DSM 13822T (97·7 % sequence similarity). The cells of this novel species were motile, sporulating, rod-shaped, Gram-positive and strictly aerobic. The predominant fatty acids were anteiso-C15 : 0, C16 : 0 and iso-C16 : 0. The DNA G+C content of strains CECAP06T and CECAP16 was 51·3 and 50·9 mol%, respectively. Growth was observed from many carbohydrates, but gas production was not observed from glucose. Catalase and oxidase activities were present. The isolates produced β-galactosidase and hydrolysed aesculin. Gelatinase, caseinase and urease were not produced. The results of DNA–DNA hybridization showed that the strains from this study constitute a novel species of the genus Paenibacillus, for which the name Paenibacillus rhizosphaerae sp. nov. is proposed. The type strain is CECAP06T (=LMG 21955T=CECT 5831T).
-
-
-
Reclassification of Pediococcus urinaeequi (ex Mees 1934) Garvie 1988 as Aerococcus urinaeequi comb. nov.
More LessThe taxonomic status of Pediococcus urinaeequi is described, and the transfer of the species to the genus Aerococcus with the name Aerococcus urinaeequi comb. nov. is proposed, on the basis of the analysis of 16S rRNA gene sequence and DNA–DNA hybridization data.
-
-
-
Streptomyces sodiiphilus sp. nov., a novel alkaliphilic actinomycete
More LessAn alkaliphilic actinomycete, strain YIM 80305T, which was isolated from a muddy sample in Chaka salt lake, Qinghai Province of China, was characterized using a polyphasic approach. The isolate produced light-yellow substrate and yellow–white aerial mycelia on most tested media. Optimum pH for growth was 9·0–10·0 with scant growth at pH 7·0. Results showed that strain YIM 80305T was obligately Na+-dependent, and showed sensitivity to K+. The DNA G+C content was 70·5 mol%. 16S rRNA gene sequence analysis together with these characteristics consistently assigned strain YIM 80305T to the genus Streptomyces. It formed a distinct clade based on analyses of the almost-complete and 120-nucleotide variable γ region of the 16S rRNA gene. It could be differentiated by phenotypic and genotypic analysis from all the Streptomyces species whose names have been validly published. On the basis of polyphasic evidence, Streptomyces sodiiphilus sp. nov. is proposed. The type strain is YIM 80305T (=CCTCC AA 203015T=CIP 107975T).
-
-
-
Lentibacillus salarius sp. nov., isolated from saline sediment in China, and emended description of the genus Lentibacillus
A Gram-positive, spore-forming and moderately halophilic bacterium, strain BH139T, was isolated from saline sediment of Xinjiang Province, China. Cells of strain BH139T were motile, flagellated rods. The organism grew optimally at 30–35 °C in the presence 12–14 % (w/v) NaCl. The major fatty acids were branched saturated fatty acids such as iso-C16 : 0, anteiso-C15 : 0, iso-C15 : 0, iso-C14 : 0 and anteiso-C17 : 0. The G+C content of the genomic DNA was about 43 mol% and the predominant isoprenoid quinone was MK-7. Comparative 16S rRNA gene sequence analyses showed that strain BH139T was most closely related to Lentibacillus salicampi KCCM 41560T (96·9 % 16S rRNA gene sequence similarity) and formed a distinct phyletic line from that species. On the basis of physiological and molecular properties, the isolate represents a novel species within the genus Lentibacillus, for which the name Lentibacillus salarius sp. nov. is proposed. The type strain is BH139T (=KCTC 3911T=DSM 16459T).
-
-
-
Reclassification of Nocardia corynebacterioides Serrano et al. 1972 (Approved Lists 1980) as Rhodococcus corynebacterioides comb. nov.
More LessThe type strain of Nocardia corynebacterioides was the subject of a polyphasic taxonomic study. The 16S rRNA gene sequence was aligned with the sequences of representatives of the genera Corynebacterium, Dietzia, Gordonia, Mycobacterium, Nocardia, Rhodococcus, Skermania, Tsukamurella and Williamsia, and phylogenetic trees were constructed by using maximum-parsimony, maximum-likelihood and neighbour-joining methods. It was evident from the phylogenetic analysis that N. corynebacterioides represents a distinct phyletic line within the genus Rhodococcus. Menaquinone analysis showed that the organism contained dihydrogenated menaquinone with eight isoprene units, MK-8(H2), as the major isoprenologue. The genealogical evidence, together with chemotaxonomic and phenotypic data from this and previous studies, indicates that N. corynebacterioides DSM 20151T (=CIP 104510T) should be reclassified in the genus Rhodococcus as Rhodococcus corynebacterioides comb. nov.
-
- Unicellular Eukaryotes
-
-
Taxonomy and phylogeny of the ascomycetous yeast genus Zygoascus, with proposal of Zygoascus meyerae sp. nov. and related anamorphic varieties
More LessPhysiological characters, mating compatibility, PCR-RAPD fingerprints, mol% G+C content, DNA–DNA relatedness, and large-subunit and internal transcribed spacer rRNA gene sequences of strains assigned to the genus Zygoascus were re-examined. On the basis of those data, and after phylogenetic analyses, an emendation of Zygoascus hellenicus (type material is a cross of CBS 6736T×CBS 5839T) is proposed, comprising two novel anamorphic varieties, Candida steatolytica var. steatolytica (CBS 6736T) and C. steatolytica var. inositophila (CBS 5839T). A novel teleomorphic species, Zygoascus meyerae sp. nov. (type material is a cross of CBS 4099T×CBS 7521T) is described, together with two novel anamorphic varieties corresponding to it, Candida hellenica var. hellenica (CBS 4099T) and C. hellenica var. acidophila (CBS 7115T).
-
-
-
Cryptococcus taeanensis sp. nov., a new anamorphic basidiomycetous yeast isolated from a salt farm
More LessCryptococcus taeanensis, a new anamorphic yeast species originating from a salt farm on the Taean peninsula in Korea, is described. Strain 3-12T grew by budding, contained ubiquinone Q-10 and xylose in cell hydrolysates, utilized d-glucuronate and did not ferment d-glucose. A molecular phylogenetic analysis based on the large-subunit rRNA D1/D2 domain and ITS region sequences placed C. taeanensis near Auriculibuller fuscus and Bullera japonica, recently proposed taxa of the Tremellales. However, these species were distinguishable based on standard physiological tests used for yeast identification, with characteristics including the assimilation of l-sorbose, absence of ballistoconidia, no arbutin hydrolysis and no growth in the presence of 0·01 % cycloheximide. The isolate exhibited the typical physiology of the genus Cryptococcus Vuillemin, but its large-subunit rRNA D1/D2 domain sequence was clearly distinct from previously described species in the genus. Therefore, on the basis of these results, Cryptococcus taeanensis sp. nov. is proposed; the type strain is 3-12T (=KCTC 17149T=CBS 9742T).
-
-
-
Metschnikowia hamakuensis sp. nov., Metschnikowia kamakouana sp. nov. and Metschnikowia mauinuiana sp. nov., three endemic yeasts from Hawaiian nitidulid beetles
More LessThree heterothallic, haplontic yeast species, Metschnikowia hamakuensis, Metschnikowia kamakouana and Metschnikowia mauinuiana, are described from isolates associated with endemic nitidulid beetles living on various endemic plants on three Hawaiian islands. As morphospecies, they are similar to Metschnikowia hawaiiensis, but based on mating compatibility and ascospore formation, they can be assigned clearly to distinct biological species. Analysis of ITS/5·8S and D1/D2 large subunit rDNA sequences shows that, with M. hawaiiensis and two other isolates, these species form a distinct subclade within the large-spored Metschnikowia species, indicating that they are Hawaiian endemics. Type cultures are: M. hamakuensis, UWOPS 04-207.1T=CBS 10056T=NRRL Y-27834T (type, h+) and UWOPS 04-204.1=CBS 10055=NRRL Y-27833 (allotype, h−); M. kamakouana, UWOPS 04-112.5T=CBS 10058T=NRRL Y-27836T (type, h+) and UWOPS 04-109.1=CBS 10057=NRRL Y-27835 (allotype, h−); and M. mauinuiana, UWOPS 04-190.1T=CBS 10060T=NRRL Y-27838T (type, h+) and UWOPS 04-110.4=CBS 10059=NRRL Y-27837 (allotype, h−).
-
-
-
Pichia myanmarensis sp. nov., a novel cation-tolerant yeast isolated from palm sugar in Myanmar
More LessFour halotolerant yeast strains, M21T, M34-1, HS054 and D41, were isolated from various foods in South-East Asia. These isolates were most closely related to Pichia anomala, with which each strain had from zero to two differences in the 26S rDNA D1/D2 domain nucleotide sequence; for this reason, they were thought to be the same as, or sister species of, P. anomala. Of the four yeast isolates, only one strain, M21T, had an 18S rDNA sequence that differed from those of P. anomala IFO 10213T and the other three isolates, having 20 substitutions and two gaps. Strain M21T showed lower cation (Li+) tolerance (⩽0·3 M LiCl) than P. anomala IFO 10213T or the other three strains (⩽0·5 M LiCl). Furthermore, the DNA–DNA hybridization data indicated that M21T was clearly distinct from P. anomala IFO 10213T and the other three isolates. The ability of strain M21T to assimilate d-arabinose distinguished it from P. anomala IFO 10213T and the other three isolates; it also differed in that it was able to grow at 37 and 40 °C. Strain M21T grew by multilateral budding, produced persistent asci, in which between one and four hat-shaped ascospores were formed, and contained ubiquinone Q-7. On the basis of this polyphasic characterization, strain M21T represents a novel species within the Q-7-containing group of the genus Pichia, for which the name Pichia myanmarensis is proposed. The type strain is M21T (=NBRC 11090T=JCM 12922T=CBS 9786T).
-
- Evolution, Phylogeny And Biodiversity
-
-
-
Genomic analysis of Hyphomonas neptunium contradicts 16S rRNA gene-based phylogenetic analysis: implications for the taxonomy of the orders ‘Rhodobacterales’ and Caulobacterales
More LessHyphomonas neptunium is a marine prosthecate α-proteobacterium currently classified as a member of the order ‘Rhodobacterales’. Although this classification is supported by 16S rRNA gene sequence phylogeny, 23S rRNA gene sequence analysis, concatenated ribosomal proteins, HSP70 and EF-Tu phylogenies all support classifying Hyphomonas neptunium as a member of the Caulobacterales instead. The possible reasons why the 16S rRNA gene sequence gives conflicting results in this case are also discussed.
-
-
-
-
Application of a recN sequence similarity analysis to the identification of species within the bacterial genus Geobacillus
More LessFull-length recN and 16S rRNA gene sequences were determined for a collection of 68 strains from the thermophilic Gram-positive genus Geobacillus, members of which have been isolated from geographically and ecologically diverse locations. Phylogenetic treeing methods clustered the isolates into nine sequence similarity groups, regardless of which gene was used for analysis. Several of these groups corresponded unambiguously to known Geobacillus species, whereas others contained two or more type strains from species with validly published names, highlighting a need for a re-assessment of the taxonomy for this genus. For taxonomic analysis of bacteria related at a genus, species or subspecies level, recN sequence comparisons had a resolving power nearly an order or magnitude greater than 16S rRNA gene comparisons. Mutational saturation rendered recN comparisons much less powerful than 16S rRNA gene comparisons for analysis of higher taxa, however. Analysis of recN sequences should prove a powerful tool for assigning strains to species within Geobacillus, and perhaps within other genera as well.
-
-
-
Comparative study of overlapping genes in bacteria, with special reference to Rickettsia prowazekii and Rickettsia conorii
More LessOverlapping genes have been proposed as a means of achieving genome reduction by compressing the maximum amount of information in limited sequence space. In this report, comparative analyses of the overlapping genes of genomes of nine bacteria with different lifestyles were performed. The results clearly suggest that overlapping genes may be a result of evolutionary pressure to minimize genome size. The genomes of two closely related obligatory intracellular parasites – Rickettsia prowazekii and Rickettsia conorii – were investigated further. Detailed analyses of these two genomes revealed that mutations at the ends of coding regions and elimination of intergenic DNA are the main forces that determine overlapping of genes.
-
- Letters To The Editor
-
- International Committee On Systematics Of Prokaryotes
-
- Minutes
- Request For An Opinion
-
-
Phylogenetic analysis and description of Eperythrozoon coccoides, proposal to transfer to the genus Mycoplasma as Mycoplasma coccoides comb. nov. and Request for an Opinion
More LessEperythrozoon coccoides, an epierythrocytic organism that causes a mild haemolytic anaemia in laboratory and wild mice, currently is thought to be a rickettsia. To determine the relationship of this agent to other haemotrophic bacterial parasites, the 16S rRNA gene of this organism has been sequenced and it is shown by phylogenetic analysis that this wall-less bacterium is not a rickettsia but actually is a mycoplasma. This mycoplasma shares properties with and is closely related to the other uncultivated mycoplasmas that comprise a recently identified group, the haemotrophic mycoplasmas (haemoplasmas). The haemoplasma group is composed of former Eperythrozoon and Haemobartonella species as well as newly identified haemotrophic mycoplasmas. Haemoplasmas parasitize the surface of erythrocytes of a wide variety of vertebrate animal hosts and are transmitted mainly by blood-feeding arthropod vectors. Because both primary infections and chronic latent infections caused by this bacterium have been observed in many laboratories and this bacterium has been the subject of much experimental work, considerable information exists about this haemotrophic mycoplasma that may be applicable to other haemoplasmas. It is proposed that Eperythrozoon coccoides be reclassified as Mycoplasma coccoides comb. nov. A Request for an Opinion is submitted to the Judicial Commission of the International Committee on Systematics of Prokaryotes regarding this reclassification.
-
- Errata
-
Volumes and issues
-
Volume 74 (2024)
-
Volume 73 (2023)
-
Volume 72 (2022 - 2023)
-
Volume 71 (2020 - 2021)
-
Volume 70 (2020)
-
Volume 69 (2019)
-
Volume 68 (2018)
-
Volume 67 (2017)
-
Volume 66 (2016)
-
Volume 65 (2015)
-
Volume 64 (2014)
-
Volume 63 (2013)
-
Volume 62 (2012)
-
Volume 61 (2011)
-
Volume 60 (2010)
-
Volume 59 (2009)
-
Volume 58 (2008)
-
Volume 57 (2007)
-
Volume 56 (2006)
-
Volume 55 (2005)
-
Volume 54 (2004)
-
Volume 53 (2003)
-
Volume 52 (2002)
-
Volume 51 (2001)
-
Volume 50 (2000)
-
Volume 49 (1999)
-
Volume 48 (1998)
-
Volume 47 (1997)
-
Volume 46 (1996)
-
Volume 45 (1995)
-
Volume 44 (1994)
-
Volume 43 (1993)
-
Volume 42 (1992)
-
Volume 41 (1991)
-
Volume 40 (1990)
-
Volume 39 (1989)
-
Volume 38 (1988)
-
Volume 37 (1987)
-
Volume 36 (1986)
-
Volume 35 (1985)
-
Volume 34 (1984)
-
Volume 33 (1983)
-
Volume 32 (1982)
-
Volume 31 (1981)
-
Volume 30 (1980)
-
Volume 29 (1979)
-
Volume 28 (1978)
-
Volume 27 (1977)
-
Volume 26 (1976)
-
Volume 25 (1975)
-
Volume 24 (1974)
-
Volume 23 (1973)
-
Volume 22 (1972)
-
Volume 21 (1971)
-
Volume 20 (1970)
-
Volume 19 (1969)
-
Volume 18 (1968)
-
Volume 17 (1967)
-
Volume 16 (1966)
-
Volume 15 (1965)
-
Volume 14 (1964)
-
Volume 13 (1963)
-
Volume 12 (1962)
-
Volume 11 (1961)
-
Volume 10 (1960)
-
Volume 9 (1959)
-
Volume 8 (1958)
-
Volume 7 (1957)
-
Volume 6 (1956)
-
Volume 5 (1955)
-
Volume 4 (1954)
-
Volume 3 (1953)
-
Volume 2 (1952)
-
Volume 1 (1951)