A facultative heterotrophic strain （DS-0205） was isolated from a deep-sea sediment sample collected at a depth of 5.2 km in the eastern Pacific Ocean, China. Strain DS-0205 is motile helmet-like single cell or pairs...A facultative heterotrophic strain （DS-0205） was isolated from a deep-sea sediment sample collected at a depth of 5.2 km in the eastern Pacific Ocean, China. Strain DS-0205 is motile helmet-like single cell or pairs, forming hemisphere with the center sunken of variable size. It has a widespread carbon source and nitrogen source, including agarose, citric acid, salicin, D-glucitol nitrate, sodium nitrite and cthylamine, tt can grow in the following environment： temperature 4-37℃, pH 2.0-12.0, tolerance to NaCl≤15%. Two phylogenetic trees, one based on the ITS and 5.8S rRNA sequences and the other based on the 18S rRNA sequences, unite strain DS-0205（=JCM 0205） to the type strain of Rhodosporidium diobovatum JCM 3787 through a considerable evolutionary distance. These results suggest that strain DS-0205 is a new strain of the Rhodosporidium diobovatum.展开更多
In this paper, we explore possible conflict between morphological and molecular interpretations of phylogenetic relationships within the well-known peritrichous genus Zoothamnium. On the basis of morphological evidenc...In this paper, we explore possible conflict between morphological and molecular interpretations of phylogenetic relationships within the well-known peritrichous genus Zoothamnium. On the basis of morphological evidence, for a long time this genus has been believed to be a well-defined monophyletic taxon. Nonetheless, Zoothamnium exhibits higher genetic diversity than the gross morphology of its species. Here, we used all available genetic information for the small subunit of ribosomal RNA （SSU rRNA） and internal transcribed spacer region （ITS1-5.8S-ITS2） for this genus to reconstruct phylogenies for four datasets （SSU rRNA, ITS1, ITS2, and ITS1-5.8S-ITS2） and a combined dataset （SSU rRNA＋ITSI-5.8S- ITS2） using different phylogenetic methods and with consideration of the secondary structure of the genes. Confidence in phylogenetic tree selection was assessed with the approximately unbiased test. The molecular results showed both that Zoothamnium is more likely to be polyphyletic, and morphologically similar genera Zoothamnopsis and Myoschiston were always nested among Zoothamnium species. Accordingly, as with some other groups of ciliates, to understand more fully the correct phylogeny of Zoothamnium there remains a need for additional data from both morphological and molecular studies, covering additional Zoothamnium spp. and members of closely related genera （e.g. Zoothamnopsis, Myoschiston, and Epistylis）.展开更多
In 2013,a novel disease was detected in tilapia( Oreochromis niloticus × O.aureus) in Guangzhou,South China.To identify the causative pathogen,we conducted histological examination,bacteria isolation,and purifica...In 2013,a novel disease was detected in tilapia( Oreochromis niloticus × O.aureus) in Guangzhou,South China.To identify the causative pathogen,we conducted histological examination,bacteria isolation,and purification,and sequenced the 16 S rRNA gene of isolates.Infected fish had a large number of white granulomas in the kidney,liver,heart,and spleen.The head kidney and spleen were markedly swollen.A bacterium strain designated as gz201301 was recovered from the spleen of infected tilapia.The 16 S rRNA sequence of gz201301 revealed that it was highly similar to F.noatunensis subsp.orientalis.This is the first report of a Francisella-like infection in farmed tilapia in China.展开更多
In order to develop halophilic microorganism resources to improve environment, a Gram-positive, strictly aerobic and moderately halophilic bacterial strain JSA1 was obtained from the waste water sample collected from ...In order to develop halophilic microorganism resources to improve environment, a Gram-positive, strictly aerobic and moderately halophilic bacterial strain JSA1 was obtained from the waste water sample collected from Jinhong Chemical Plant at Weihai city, by the methods of quick isolation and screening of halophilie bacteria. Systematic studies on it were carried out. Results show that the strain JSA1 is bacillus. The temperature range most suitable for its growth is 29 - 35 ℃ and the most suitable pH is 6. 5 - 9. 0. It can grow well at the salt mass concentration of 30 - 150 g/L. The C ＋ G mole fraction of its DNA is 37.5%. The analytical result of 16S rRNA gene sequence reveals that this strain has the closest relationship with Alkalibacillus halophilus （DQ359731） of Alkalibacillts. Their similarities are as high as 99%. However, they have obvious differences in aspects of whole-cell main fatty acid components, cell size, cell morphology, motility, oxidase, gelatine liquefication, NaCl tolerance range, pH tolerance range, G ＋ C mole fraction, sole carbon source, sole nitrogen source, antibiotic sensitivity and strain source. Comparing with other species of the same genus, differences of this strain are even more obvious. In view of muhiple identification results, we believe this strain is a new subspecies ofAlkalibacillus halophilus and name it Alkalibacillus halophilus subsp, hitensis subsp, nov.展开更多
Amazonian Dark Earth(ADE) is a highly fertile soil of anthropogenic origin characterized by high levels of charred black carbon(BC). It is considered a model of fertility; however, knowledge on the fungal community st...Amazonian Dark Earth(ADE) is a highly fertile soil of anthropogenic origin characterized by high levels of charred black carbon(BC). It is considered a model of fertility; however, knowledge on the fungal community structure and diversity inhabiting ADE and its BC particles is scarce. Fungal community structure and diversity of ADE and its BC from four sites under different land uses(three agricultural systems and a secondary pristine forest) in the Brazilian Central Amazon were evaluated by 18S rRNA gene pyrosequencing. Fungal communities in ADE and BC were dissimilar and showed differential abundances of fungal operational taxonomic units(OTUs). Estimated fungal species richness(abundance-based coverage estimate and Chao-1 index) and diversity estimators(Shannon and Simpson's reciprocal indices) were higher in ADE than in BC in all agricultural areas. No differences were observed in those parameters in ADE and BC samples from the secondary forest. Pezizomycotina fungi and OTUs assigned to Cordyceps confragosa,Acremonium vitellinum, Camarops microspora, and Hirsutella rhossiliensis were more abundant in BC particles than in ADE. These findings represent a breakthrough in our understanding of fungal communities in BC particles from ADE, and will be valuable in future studies considering biochar application in soil.展开更多
基金Projects(40776035, 40376036) supported by the National Natural Science Foundation of ChinaProject(DY105-02-04-05) supported by the China Ocean Mineral Resources Research and Development Association+2 种基金Project(07MX27) supported by the Mittal Student FoundationProject (2340-74236000003) supported by the Post-graduate Foundation of Hunan Province, ChinaProject (200805330053) supported by the Doctoral Foundation of Ministry of Education of China
文摘A facultative heterotrophic strain （DS-0205） was isolated from a deep-sea sediment sample collected at a depth of 5.2 km in the eastern Pacific Ocean, China. Strain DS-0205 is motile helmet-like single cell or pairs, forming hemisphere with the center sunken of variable size. It has a widespread carbon source and nitrogen source, including agarose, citric acid, salicin, D-glucitol nitrate, sodium nitrite and cthylamine, tt can grow in the following environment： temperature 4-37℃, pH 2.0-12.0, tolerance to NaCl≤15%. Two phylogenetic trees, one based on the ITS and 5.8S rRNA sequences and the other based on the 18S rRNA sequences, unite strain DS-0205（=JCM 0205） to the type strain of Rhodosporidium diobovatum JCM 3787 through a considerable evolutionary distance. These results suggest that strain DS-0205 is a new strain of the Rhodosporidium diobovatum.
基金Supported by the National Natural Science Foundation of China(Nos.31071898,31111120437)the Scientific Research Foundation for the Returned Overseas Chinese Scholars,State Education Ministry of China+1 种基金the Key Laboratory of Mariculture(KLM),Ministry of Education,Ocean University of China,the Research Group Project(No.RGP-VPP-083)the King Saud University Deanship of Scientific Research
文摘In this paper, we explore possible conflict between morphological and molecular interpretations of phylogenetic relationships within the well-known peritrichous genus Zoothamnium. On the basis of morphological evidence, for a long time this genus has been believed to be a well-defined monophyletic taxon. Nonetheless, Zoothamnium exhibits higher genetic diversity than the gross morphology of its species. Here, we used all available genetic information for the small subunit of ribosomal RNA （SSU rRNA） and internal transcribed spacer region （ITS1-5.8S-ITS2） for this genus to reconstruct phylogenies for four datasets （SSU rRNA, ITS1, ITS2, and ITS1-5.8S-ITS2） and a combined dataset （SSU rRNA＋ITSI-5.8S- ITS2） using different phylogenetic methods and with consideration of the secondary structure of the genes. Confidence in phylogenetic tree selection was assessed with the approximately unbiased test. The molecular results showed both that Zoothamnium is more likely to be polyphyletic, and morphologically similar genera Zoothamnopsis and Myoschiston were always nested among Zoothamnium species. Accordingly, as with some other groups of ciliates, to understand more fully the correct phylogeny of Zoothamnium there remains a need for additional data from both morphological and molecular studies, covering additional Zoothamnium spp. and members of closely related genera （e.g. Zoothamnopsis, Myoschiston, and Epistylis）.
基金Supported by the Pearl River Science&Technology Nova Program of Guangzhou City(No.2012J2200078)the Marine Fishery Science&Technology Promotion Project of Guangdong Provinces(No.A201301B06)
文摘In 2013,a novel disease was detected in tilapia( Oreochromis niloticus × O.aureus) in Guangzhou,South China.To identify the causative pathogen,we conducted histological examination,bacteria isolation,and purification,and sequenced the 16 S rRNA gene of isolates.Infected fish had a large number of white granulomas in the kidney,liver,heart,and spleen.The head kidney and spleen were markedly swollen.A bacterium strain designated as gz201301 was recovered from the spleen of infected tilapia.The 16 S rRNA sequence of gz201301 revealed that it was highly similar to F.noatunensis subsp.orientalis.This is the first report of a Francisella-like infection in farmed tilapia in China.
基金Sponsored by the Science Foundation of Harbin Institute of Technology(Grant No. HIT(WH)XB200804)the National Basic Research Program of China(973 Program)(Grant No. 2004CB185050)
文摘In order to develop halophilic microorganism resources to improve environment, a Gram-positive, strictly aerobic and moderately halophilic bacterial strain JSA1 was obtained from the waste water sample collected from Jinhong Chemical Plant at Weihai city, by the methods of quick isolation and screening of halophilie bacteria. Systematic studies on it were carried out. Results show that the strain JSA1 is bacillus. The temperature range most suitable for its growth is 29 - 35 ℃ and the most suitable pH is 6. 5 - 9. 0. It can grow well at the salt mass concentration of 30 - 150 g/L. The C ＋ G mole fraction of its DNA is 37.5%. The analytical result of 16S rRNA gene sequence reveals that this strain has the closest relationship with Alkalibacillus halophilus （DQ359731） of Alkalibacillts. Their similarities are as high as 99%. However, they have obvious differences in aspects of whole-cell main fatty acid components, cell size, cell morphology, motility, oxidase, gelatine liquefication, NaCl tolerance range, pH tolerance range, G ＋ C mole fraction, sole carbon source, sole nitrogen source, antibiotic sensitivity and strain source. Comparing with other species of the same genus, differences of this strain are even more obvious. In view of muhiple identification results, we believe this strain is a new subspecies ofAlkalibacillus halophilus and name it Alkalibacillus halophilus subsp, hitensis subsp, nov.
基金supported by the Joint Research Project Be-Basic and So Paulo Research Foundation-FAPESP (No.13/50365-5)Federal University of Santa Maria (UFSM), Brazil in coordinating the Brazil-The Netherlands co-operation and CAPES/NUFFIC Program for the author’s fellowship sponsoring (No.057/2014)
文摘Amazonian Dark Earth(ADE) is a highly fertile soil of anthropogenic origin characterized by high levels of charred black carbon(BC). It is considered a model of fertility; however, knowledge on the fungal community structure and diversity inhabiting ADE and its BC particles is scarce. Fungal community structure and diversity of ADE and its BC from four sites under different land uses(three agricultural systems and a secondary pristine forest) in the Brazilian Central Amazon were evaluated by 18S rRNA gene pyrosequencing. Fungal communities in ADE and BC were dissimilar and showed differential abundances of fungal operational taxonomic units(OTUs). Estimated fungal species richness(abundance-based coverage estimate and Chao-1 index) and diversity estimators(Shannon and Simpson's reciprocal indices) were higher in ADE than in BC in all agricultural areas. No differences were observed in those parameters in ADE and BC samples from the secondary forest. Pezizomycotina fungi and OTUs assigned to Cordyceps confragosa,Acremonium vitellinum, Camarops microspora, and Hirsutella rhossiliensis were more abundant in BC particles than in ADE. These findings represent a breakthrough in our understanding of fungal communities in BC particles from ADE, and will be valuable in future studies considering biochar application in soil.
