New species, Actinomadura fulvescens sp. nov. and Actinomadura turkmeniaca sp. nov. and their antagonistic properties

Two new species of Actinomadura isolated from soil samples of the Turkmen SSR, i.e. Actinomadura fulvescens sp. nov. and Actinomadura turkmeniaca sp. nov. are described. The first species is characterized by formation of short (1-2 turns) spiral spore chains, smooth spores, scanty white aerial mycelium, colourless or yellowish substrate mycelium on synthetic media and brownish-yellow substrate mycelium and soluble pigment of the same colour on organic media. No melanoid pigment is secreted. The type culture is designated as INA 3321. The cultures of A. fulvescens show antibiotic activity. A. turkmeniaca is characterized by formation of short straight or spiral spore chains, smooth spores, scanty white aerial mycelium, substrate mycelium and soluble pigment of pinkish-violet colour, absence of melanoid pigment. The type culture is designated as INA 3344. The strains of this species have low antibiotic activity. The study on the use of carbon sources by the representatives of 7 species (9 strains) of Actinomadura showed that the majority of the cultures (5 species, 7 strains) produced no growth on the Pridham and Gottlieb medium (ISP-9) with various carbon sources, including glucose. Possibly this medium cannot be used as the main medium for investigation of the spectrum of carbohydrate consumption in Actinomadura.     

Systematic position of Streptomyces luteofluorescens]

On the basis of the cell wall composition (the presence of meso-diaminopimelic acid and madurose sugar) and according to the morphological structure, Streptomyces luteofluorescens (type culture 719, ISP 5398) is transferred to Actinomadura genus. The organism is considered to be a new species of the Actinomadura genus -- Actinomadura luteofluorescens (Shinobu, 1962) Preobrazhenskaya et Lavrova, 1974, comb. nov.     

Ultrastructure of the mycelium and spores of Actinomadura fastidiosa sp. nov]

A new species of the Actinomadura genus, A. fastidiosa sp. nov., is described. The ultrastructure of the vegetative mycelium and spores of this organism was studied. The vegetative cells have a multilayered cell wall, often consisting of five layers with different thickness and electron density. The spores are similar to the vegetative cells by their inner structure but have a thicker wall.     

云南高原湖泊中高温放线菌四新种

在进行云南高原湖泊水生放线菌研究的过程中,分离到大量高温放线菌,按国内通用的方法进行鉴定,有4个新种。模式菌株Y86—8217,Y86—8100,Y86—8010,Y86—8048均保存于云南省微生物研究所。     

Teichococcus ludipueritiae gen. nov. sp. nov., and Muricoccus roseus gen. nov. sp. nov. representing two new genera of the alpha-1 subclass of the Proteobacteria

Two bacterial isolates (170/96T and 173/96T) were recovered from the indoor building materials of a children's day care center. Phylogenetic analyses using the 16S rRNA gene sequences of both isolates indicated they both represent new lineages in the alpha-1-subclass of the Proteobacteria, with the highest sequence similarities of 93.7% and 93.6%, respectively to the type strain of Paracraurococcus ruber. When directly compared both isolates showed a 93.4% sequence similarity of their 16S rRNAs. The major respiratory quinone in both strains was a ubiquinone with 10 isoprenoid units and the major whole cell fatty acid of both strains was 18:1 omega7c. Both isolates also contained 18:1 2-OH and other fatty acids typical for members of the alpha-1 subclass of the Proteobacteria. Both strains were heterotrophic and strictly aerobic and formed slightly red-colored colonies on tryptone soy agar. Bacteriochlorophyll a could not be detected by direct spectrophotometric analyses of aerobically grown cells. On the basis of the phylogenetic analyses, physiological and biochemical characteristics, we propose that strains 170/96T and 173/96T represent two new genera and new species of the alpha-1 subclass of the Proteobacteria for which we propose the names Teichococcus ludipueritiae gen. nov. sp. nov., and Muricoccus roseus gen. nov. sp. nov., respectively.     

A new H2 / CO2-using acetogenic bacterium from the rumen: Description of Ruminococcus schinkii sp. nov.

Abstract Two strains of H2 / CO2-using acetogenic bacteria were isolated from the rumen of suckling lambs. Both strains displayed a coccobacillar morphology and possessed a Gram-positive type cell wall. Numerous organic substrates, including some O-methylated aromatic compounds, were used heterotrophically. 16S rRNA gene sequencing demonstrated that the two acetogenic isolates were phylogenetically identical and represent a new subline within Clostridium cluster XIVa. Based on phenotypic and phylogenetic considerations a new species, Ruminococcus schinkii sp. nov., is proposed.     

Candida khmerensis sp. nov., a novel cation-tolerant yeast isolated from dry salted shrimp and sewage in Cambodia

Two cation-tolerant yeasts with powdered colonies, K28-3-2T and K26-1-4, were isolated from dry salted shrimp and sewage, respectively, in Siem Reap province, Cambodia. The D1/D2 sequences of the 26S rDNA data showed that the two isolates were conspecific and related to the Pichia burtonii and Candida fennica. Two isolates were examined by a polyphasic taxonomic approach, including molecular phylogenetic analysis, morphological, physiological and biochemical tests, DNA hybridization and MSP-PCR fingerprinting, in comparison with P. burtonii and C. fennica. The two isolates were found to grow by multilateral budding with true and pseudo-mycelium, to not produce ascospores, and to contain ubiquinone Q-8 similar to that of P. burtonii and C. fennica. The two isolates were not differentiated from the two closest species, P. burtonii and C. fennica, by the phenotypic character examined, except for the cation (Li+)-tolerance. From DNA-DNA reassociation studies, however, the two isolates showed low similarities to the closest two species. Based on D1/D2 sequences of 26S rDNA and DNA-DNA reassociation data, they were shown to be a new distinct species from P. burtonii and C. fennica. Therefore, a novel species is proposed, Candida khmerensis sp. nov., represented by strain K28-3-2T (=JCM 13262(T)=CBS 9784T). The novel species, Candida khmerensis sp. nov. can be clearly distinguished from P. burtonii and C. fennica by either the 26S rDNA D1/D2 or ITS region with 5.8S rDNA sequencing, or by the MSP-PCR fingerprinting pattern.     

云南禄丰、元谋晚中新世古猿地点始鼠科化石

<正>始鼠科(Eomyidae)是一类绝灭了的啮齿类动物,渐新世和中新世时广布全北区,但亚洲远没有欧洲和北美常见。中国含始鼠类化石地点不多,发现的属只有渐新世的Eomys、Eomyodon和Pseudotheridomys,以及中新世的Keramidomys和Leptodontomys(Zheng and Li,1982;Falhbusch et al．,1983;Wang and Emry,1991;Qiu,1996;Wang,2002)。本文描述的云南始鼠类化石,系1983年在禄丰石灰坝和1999、2000年在元谋雷老两个古猿地点采集到的。材料不多,但至少代表始鼠科的两个新属,为我国惟一采自南方,并与古猿类共生的稀少啮齿类动物。新种的模式产地均为禄丰石灰坝。     

Majority of Actinomadura clinical isolates from sputa or bronchoalveolar lavage fluid in Japan belongs to the cluster of Actinomadura cremea and Actinomadura nitritigenes, and the description of Actinomadura chibensis sp. nov

In Japan during 1996-2004, 21 actinomycete strains that have madurose as the diagnostic cell-wall sugar and show true branching in their substrate and aerial mycelia were isolated from sputa or bronchoalveolar lavage (BAL) fluid of patients with pulmonary infections or who were suspected of having related infections. Chemotaxonomic studies showed that all the isolates belong to the genus Actinomadura. Among them, six and seven strains were classified respectively into clusters of Actinomadura nitritigenes and Actinomadura cremea based on 16S rDNA analyses because their 16S rDNA similarities to those respective species were greater than 99.5%. To our knowledge, this is first report that strains of above two species were isolated from clinical specimens. Neither Actinomadura madurae nor Actinomadura pelletieri strain was isolated, and one new species, Actinomadura chibensis, was proposed; the remaining seven strains were not assigned into any known species, suggesting the presence of another new Actinomadura species.     

Neonectria and Cylindrocarpon: the Nectria mammoidea group and species lacking microconidia

Neonectria (Hypocreales: Nectriaceae) species having Cylindrocarpon anamorphs that lack microconidia and chlamydospores include: Neo. discophora var. discophora, Neo. discophora var. rubi, stat nov. et comb. nov., Neo. lucida, comb. nov., Neo. viridispora, sp. nov. and Neo. westlandica, comb. nov. Perithecia of these species are red and perithecial anatomyis of the N. mammoidea type, with a palisade of hypha-like cells in the outer perithecial wall. These species occur on recently dead or dying trees. Perithecia of Neo. betulae, sp. nov and Neo. dumontii, sp. nov. are anatomically and biologically similar to those of Neo. discophora. The only known culture of Neo. betulae remained sterile, while Neo. dumontii has not been cultured; their anamorphs are presumed to be Cylindrocarpon. Analyses of mit ssu rDNA sequences indicate that Neonectria/Cylindrocarpon is monophyletic. Within the genus, species having N. mammoidea type perithecia are paraphyletic. Most species cluster with Neo. discophora, but Neo. westlandica and Neo. trachosa are basal to a clade that includes species that do not have a N. mammoidea-type perithecium. Nectria fuckeliana clusters independently of Neonectria and Nectria. Although reported to have a Cylindrocarpon anamorph, fresh ascospore isolates of N. fuckeliana did not produce Cylindrocarpon macroconidia but produced acremonium- or verticillium-like anamorphs. A key to nectriaceous species of Neonectria that have Cylindrocarpon anamorphs that lack microconidia and chlamydospores and/or that have a N. mammoidea type perithecial wall anatomy is presented. New combinations are proposed for other species formerly included in Nectria that have non-microconidial Cylindrocarpon anamorphs: Neonectria cinnamomea, Neo. jungneri, Neo. platycephala, Neo. phaeodisca and Neo. verrucospora.     

New species of Actinomadura isolated from soils in Turkmenia and their antagonistic properties

New species, i.e. Actinomadura polychroma and Actinomadura umbrina are described. The cell wall of the cultures contains meso-diaminopimelic acid galactose, glucose and madurose. The former species is characterized by short spore chains in the form of spirals or pseudosporangia, smooth spore surface, white aerial mycelium and colourless, yellowish-brown or blue-green substrate mycelium. The cultures of this species have no antagonistic activity with respect to various test-microbes. The type culture of A. polychroma is designated as INA 2755. A. umbrina is characterized by formation of short spore chains, which are straight, hooked or spiral, often branching, smooth spore surface, white scanty aerial mycelium and brownish or black-brown substrate mycelium and soluble pigment of the same colour. The strains of this species inhibit the growth of some gram-positive bacteria and have no activity against gram-negative organisms. The type culture of A. umbrina is designed as INA 2309.     

Neokomagataea gen. nov., with descriptions of Neokomagataea thailandica sp. nov. and Neokomagataea tanensis sp. nov., osmotolerant acetic acid bacteria of the α-Proteobacteria

Isolates AH11(T) and AH13(T) were isolated from flowers of lantana and candle bush respectively collected in Thailand. In phylogenetic trees based on 16S rRNA gene sequences, the two isolates formed an independent cluster, which was then connected to the type strain of Saccharibacter floricola. The calculated pair-wise 16S rRNA gene sequence similarities of isolate AH11(T) were 95.7-92.3% to the type strains of the type species of the 12 genera of acetic acid bacteria. The DNA base composition was from 51.2 to 56.8 mol % G+C, with a range of 5.6 mol %. When isolate AH11(T) was labeled, DNA-DNA similarities were 100, 12, 4, 5, and 4% respectively to isolates AH11(T) and AH13(T) and the type strains of Saccharibacter floricola, Gluconobacter oxydans, and Acetobacter aceti. The two isolates were non-motile and did not oxidize either acetate or lactate. No growth was found in the presence of 0.35% acetic acid w/v. The two isolates were not osmophilic but osmotolerant, produced 2,5-diketo-D-gluconate from D-glucose, and did not oxidize lactate, thus differing from strains of Saccharibacter floricola, which showed weak lactate oxidation. The two isolates contained unsaturated C(18:1)ω7c fatty acid as the major fatty acid, and were unique in the presence of a considerable amount of straight-chain C(18:1)2OH fatty acid. Q-10 was present as the major isoprenoid quinone. Neokomagataea gen. nov. was proposed with the two species, Neokomagataea thailandica sp. nov. for isolate AH11(T) (=BCC 25710(T)=NBRC 106555(T)), which has 56.8 mol % G+C, and Neokomagataea tanensis sp. nov. for isolate AH13(T) (=BCC 25711(T)=NBRC 106556(T)), which has 51.2 mol % G+C.     

Bifidobacterium reuteri sp. nov., Bifidobacterium callitrichos sp. nov., Bifidobacterium saguini sp. nov., Bifidobacterium stellenboschense sp. nov. and Bifidobacterium biavatii sp. nov. isolated from faeces of common marmoset (Callithrix jacchus) and red-handed tamarin (Saguinus midas)

Five strains of bifidobacteria were isolated from faeces of a common marmoset (Callithrix jacchus) and a red-handed tamarin (Saguinus midas). The five isolates clustered inside the phylogenetic group of the genus Bifidobacterium but did not show high sequence similarities between the isolates and to known species in the genus by phylogenetic analysis based on 16S rRNA gene sequences. Sequence analyses of dnaJ1 and hsp60 also indicated their independent phylogenetic positions to each other in the Bifidobacterium cluster. DNA G+C contents of the species ranged from 57.3 to 66.3 mol%, which is within the values recorded for Bifidobacterium species. All isolates showed fructose-6-phosphate phosphoketolase activity. Based on the data provided, the five isolates represent five novel species, for which the names Bifidobacterium reuteri sp. nov. (type strain: AFB22-1(T) = JCM 17295(T) = DSM 23975(T)), Bifidobacterium callitrichos sp. nov. (type strain: AFB22-5(T) = JCM 17296(T) = DSM 23973(T)), Bifidobacterium saguini sp. nov. (type strain: AFB23-1(T) = JCM 17297(T) = DSM 23967(T)), Bifidobacterium stellenboschense sp. nov. (type strain: AFB23-3(T) = JCM 17298(T) = DSM 23968(T)) and Bifidobacterium biavatii sp. nov. (type strain: AFB23-4(T) = JCM 17299(T) = DSM 23969(T)) are proposed.     

Actinomadura of the sierozem soils of Turkmenia and their antagonistic properties

Occurrence of actinomycetes of the genus Actinomadura in the grey earth soils of Turkmenistan was studied. The Gause organic medium No. 2 with rubomycin proved to be most favourable for isolation of Actinomadura from the soil samples. The number of Actinomadura in 1 g of the soil varied from 3 to 686 000 depending on the sample which constituted 0.2-11 per cent of the total number of the actinomycetes. It was shown that Actinomadura are rather widely distributed in the grey earth soils of Turkmenistan. They were detected practically in all the soil samples tested. The number of Actinomadura significantly depended on the level of the soil cultivation. The number of Actinomadura in the samples of cultivated soils was higher than that in the virgin land samples. The isolates were classified as belonging to 16 species of actinomadura, 5 of which proved to be new Actinomadura species. It was shown with the streak plate method that Actinomadura had moderate antagonistic properties. The majority of the isolates were active against gram-positive organisms.     

Desulfosporomusa polytropa gen. nov., sp. nov., a novel sulfate-reducing bacterium from sediments of an oligotrophic lake

Five strains of sulfate-reducing bacteria were isolated from the highest positive dilutions of a most probable number (MPN) series supplemented with lactate and inoculated with sediments from the oligotrophic Lake Stechlin. The isolates were endospore-forming and were motile by means of laterally inserted flagella. They stained Gram-negative and contained b-type cytochromes. CO difference spectra indicated the presence of P582 as a sulfite reductase. Phylogenetic analyses of the 16S rDNA sequences revealed that the isolates were very closely affiliated with the genus Sporomusa. However, sulfate and amorphous Fe(OH)₃, but not sulfite, elemental sulfur, MnO₂, or nitrate were used as terminal electron acceptors. Homoacetogenic growth was found with H₂/CO₂ gas mixture, formate, methanol, ethanol, and methoxylated aromatic compounds. The strains grew autotrophically with H₂ plus CO₂ in the presence or absence of sulfate. Formate, butyrate, several alcohols, organic acids, carbohydrates, some amino acids, choline, and betaine were also utilized as substrates. The growth yield with lactate and sulfate as substrate was 7.0 g dry mass/mol lactate and thus two times higher than in sulfate-free fermenting cultures. All isolates were able to grow in a temperature range of 4–37°C. Physiologically and by the presence of a Gram-negative cell wall, the new isolates resemble known Desulfosporosinus species. However, phylogenetically they are affiliated with the Gram-negative genus Sporomusa belonging to the Selenomonas subgroup of the Firmicutes. Therefore, the new isolates reveal a new phylogenetic lineage of sulfate-reducing bacteria. A new genus and species, Desulfosporomusa polytropa gen. nov., sp. nov. is proposed.Dedicated to Prof. H. G. Schlegel on the occasion of his 80th birthday.     

A Hammondia-like parasite from the European fox (Vulpes vulpes) forms biologically viable tissue cysts in cell culture

Tissue cysts of parasites of the genus Hammondia are rarely described in naturally or experimentally infected intermediate hosts. However, ultrastructural examinations on tissue cyst stages of Hammondia sp. are needed, e.g. to compare these stages with those of Neospora caninum and other related parasites. We describe a cell culture system employed to examine the in vitro development of tissue cysts of a Hammondia sp.-like parasite (isolate FOX 2000/1) which uses the European fox as a definitive host. Cells of a diploid finite cell line from embryonal bovine heart (KH-R; CCLV, RIE 090) were infected by inoculation of sporozoites und cultivated for up to 3 months. Transmission electron microscopic examination of 17 day old cell culture material revealed the presence of cyst walls. Infected cell cultures cultivated for 2 months were used to feed a fox. Six to 13 days post infection the fox shed large numbers (n=1.2 x 10(7)) of Hammondia-sp. like oocysts which could not be distinguished from those used to infect the cell culture as determined by DNA sequencing of the internal transcribed spacer 1 and the D2/D3 domain of the large subunit ribosomal DNA. To find out the proportion of parasitophorous vacuoles that had developed into tissue cysts, the expression of bradyzoite markers was examined by probing infected cell cultures with mouse polyclonal antibodies against Toxoplasma gondii bradyzoite antigen 1 (anti-BAG1) and rat monoclonal antibodies against a cyst wall protein (mAbCC2). Nineteen and 90 days post infection all parasitophorous vacuoles in the cell cultures were positive with anti-BAG1 and mAbCC2. This shows that biologically viable (i.e. infectious) tissue cysts of a fox-derived Hammondia sp. isolate (FOX 2000/1) can be efficiently produced in this cell culture system. Since in vitro cystogenesis of dog-derived Hammondia heydorni has not been observed yet, in vitro cyst formation might be one trait to separate fox-derived Hammondia sp. from H. heydorni on a species level.     

Surface microflora of four smear-ripened cheeses

The microbial composition of smear-ripened cheeses is not very clear. A total of 194 bacterial isolates and 187 yeast isolates from the surfaces of four Irish farmhouse smear-ripened cheeses were identified at the midpoint of ripening using pulsed-field gel electrophoresis (PFGE), repetitive sequence-based PCR, and 16S rRNA gene sequencing for identifying and typing the bacteria and Fourier transform infrared spectroscopy and mitochondrial DNA restriction fragment length polymorphism (mtDNA RFLP) analysis for identifying and typing the yeast. The yeast microflora was very uniform, and Debaryomyces hansenii was the dominant species in the four cheeses. Yarrowia lipolytica was also isolated in low numbers from one cheese. The bacteria were highly diverse, and 14 different species, Corynebacterium casei, Corynebacterium variabile, Arthrobacter arilaitensis, Arthrobacter sp., Microbacterium gubbeenense, Agrococcus sp. nov., Brevibacterium linens, Staphylococcus epidermidis, Staphylococcus equorum, Staphylococcus saprophyticus, Micrococcus luteus, Halomonas venusta, Vibrio sp., and Bacillus sp., were identified on the four cheeses. Each cheese had a more or less unique microflora with four to nine species on its surface. However, two bacteria, C. casei and A. arilaitensis, were found on each cheese. Diversity at the strain level was also observed, based on the different PFGE patterns and mtDNA RFLP profiles of the dominant bacterial and yeast species. None of the ripening cultures deliberately inoculated onto the surface were reisolated from the cheeses. This study confirms the importance of the adventitious, resident microflora in the ripening of smear cheeses.     

甘肃兰州盆地咸水河组下段红色泥岩中的跳鼠化石

兰州盆地咸水河组下段上部红色泥岩共产有４属８种跳鼠：Ｐａｒａｓｍｉｎｔｈｕｓ　　ａｓｉａｅ－ｃｅｎｔｒａｌｉｓ, Ｐ． ｔａｎｇｉｎｇｏｌｉ． Ｐ． ｐａｒｖｕｌｕｓ Ｐａｒａｓｍｉｎｔｕｓ． ｓｐ． Ｉ, Ｐａｒａｓｍｉｎｔｕｓ　ｓｐ． ＩＩ,黄河简齿鼠（新属、种）Ｌｉｔｏｄｏｎｏｍｙｓ　ｈｕａｎｇｈｅｅｎｓｉｓ　ｇｅｎ．ｅｔ ｓｐ．ｎｏｖ、,兰州异蹶鼠（新种）Ｈｅｔｅｒｏｓｍｉｎｔｈｕｓ　ｌａｎｚｈｏｕｅｎｓｉｓ ｓｐ．ｎｏｖ．和Ｓｉｎｏｓｍｉｎｔｈｕｓ　ｓｐ。Ｌｉｌｏｄｏｎｏｍｙｓ,ｈｕａｎｇｈｅｅｎｓｉｓ的主要特征是颊齿比例上较宽短,冠面结构较简单,脊较发育,下中脊短或无,下外脊直接由下原尖伸出。Ｈｅｔｅｒｓｍｉｎｔｈｕｓ ｌａｎｚｈｏｕｅｎｓｉｓ为Ｈｅｔｅｒｏｓｍｉｎｔｈｕｓ属的一较原始的种。它的臼齿的颊、舌侧主齿尖虽错位,但幅度还较小,Ｍ１／２具原小尖,但无原附尖,ｍｌ具发达的下中脊,下外脊折线形,下外中脊向前倾等。 兰州盆地下红泥岩所产跳鼠组合基本上与甘肃省党河流域Ｔａｂｅｎ－ｂｕｌｕｋ的一致。它们的时代可能大致相当,为晚渐新世。 本文用 ＰＡＵＰ３．１．１对早第三纪的各跳鼠属间的关系作了分析和讨论。 跳鼠在?