State Key Laboratory of Applied Microbiology

Guangzhou, China

State Key Laboratory of Applied Microbiology

Guangzhou, China
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Wu H.-Q.,State Key Laboratory of Applied Microbiology | Wu H.-Q.,Jiangxi Agricultural University | Wang L.,State Key Laboratory of Applied Microbiology | He X.,State Key Laboratory of Applied Microbiology | And 5 more authors.
Chinese Traditional and Herbal Drugs | Year: 2014

Objective: To clone the sesquiterpene synthase gene As-SesTPS from total RNA of Aquilaria sinensis and to analyze the bioinformatics and gene expression. Methods: The gene containing intact open reading frame (ORF) was cloned by reverse transcription-PCR (RT-PCR) and rapid amplification of cDNA ends (RACE). The similarity comparison and homology analysis of the sequence were carried out using bioinformatic method, the coding protein was predicted and the physicochemical properties were analyzed. The expression of the gene in different locations of A. sinensis trunk was determined by semiquantitative PCR using gene-specific primers. Results: The As-SesTPS gene, containing a 1 629 bp ORF that encoded 542 amino acids, was cloned. The deduced protein sequence had the most similarity to the (-)-germacrene-D synthase in Vitis vinifera and exhibited two conserved motifs (RRx8W and DDxxD). Without transmembrane domain, As-SesTPS was located in cytoplasm and expressed only in the agarwood part. Conclusion: The As-SesTPS gene probably encoding (-)-germacrene-D synthase of A. sinensis is successfully cloned for the first time, which would provide a reference for the study of sesquiterpene biosynthase pathway in A. sinensis.

Dai G.,State Key Laboratory of Applied Microbiology | Dai G.,Guangdong Institute of Microbiology | Yu A.,Guangdong Institute of Microbiology | Cai X.,Jinan University | And 3 more authors.
Journal of Rare Earths | Year: 2012

A series of zinc ions or/and cerium ions co-doped α-zirconium phosphate (Zn-Ce@ZrPs) were prepared. The novel Zn-Ce@ZrPs were characterized and the antibacterial activity on Gram-negative Escherichia coli and Gram-positive Staphylococcus aureus were tested. The results showed that zinc ions (Zn2+) or/and cerium ions (Ce3+) were combined with ZrP, and the Ce3+ was adsorbed on the surface of ZrP through hydrogen bonds, while Zn 2+ intercalated into the interlayer of ZrP. Zn-Ce@ZrPs showed excellent synergistic antibacterial activity. When Zn2+/Ce3+ atomic ratio was 0.6, the Zn-Ce@ZrP3 showed the highest synergistic antibacterial efficiency, suggesting great potential application as antibacterial agents in microbial control.

Ni J.,CAS Wuhan Institute of Hydrobiology | Ni J.,Guangdong Institute of Microbiology | Ni J.,State Key Laboratory of Applied Microbiology | Yan Q.,CAS Wuhan Institute of Hydrobiology | And 2 more authors.
FEMS Microbiology Ecology | Year: 2014

Gut microbiota have attracted extensive attention recently because of their important role in host metabolism, immunity and health maintenance. The present study focused on factors affecting the gut microbiome of grass carp (Ctenopharyngodon idella) and further explored the potential effect of the gut microbiome on metabolism. Totally, 43.39 Gb of screened metagenomic sequences obtained from 24 gut samples were fully analysed. We detected 1228 phylotypes (116 Archaea and 1112 Bacteria), most of which belonged to the phyla Firmicutes, Proteobacteria and Fusobacteria. Totally, 41 335 of the detected open reading frames (ORFs) were matched to Kyoto Encyclopedia of Genes and Genomes pathways, and carbohydrate and amino acid metabolism was the main matched pathway deduced from the annotated ORFs. Redundancy analysis based on the phylogenetic composition and gene composition of the gut microbiome indicated that gut fullness and feeding (i.e. ryegrass vs. commercial feed, and pond-cultured vs. wild) were significantly related to the gut microbiome. Moreover, many biosynthesis and metabolism pathways of carbohydrates, amino acids and lipids were significantly enhanced by the gut microbiome in ryegrass-fed grass carp. These findings suggest that the metabolic role played by the gut microbiome in grass carp can be affected by feeding. These findings contribute to the field of fish gut microbial ecology and also provide a basis for follow-up functional studies. © 2013 Federation of European Microbiological Societies.

Xu M.,Guangdong Institute of Microbiology | Xu M.,State Key Laboratory of Applied Microbiology | Xu M.,Guangdong Open Laboratory of Applied Microbiology | Chen X.,Guangdong Institute of Microbiology | And 15 more authors.
PLoS ONE | Year: 2012

Polybrominated diphenyl ethers (PBDEs) can be reductively degraded by microorganisms under anaerobic conditions. However, little is known about the effect of electron donors on microbial communities involved in PBDEs degradation. Here we employed 454 Titanium pyrosequencing to examine the phylogenetic diversity, composition, structure and dynamics of microbial communities from microcosms under the conditions of different electron donor amendments. The community structures in each of the five alternate electron donor enrichments were significantly shifted in comparison with those of the control microcosm. Commonly existing OTUs between the treatment and control consortia increased from 5 to 17 and more than 50% of OTUs increased around 13.7 to 186 times at least in one of the microcosms after 90-days enrichment. Although the microbial communities at different taxonomic levels were significantly changed by different environmental variable groups in redundancy analysis, significant correlations were observed between the microbial communities and PBDE congener profiles. The lesser-brominated PBDE congeners, tri-BDE congener (BDE-32) and hexa-BDE, were identified as the key factors shaping the microbial community structures at OTU level. Some rare populations, including the known dechlorinating bacterium, Dehalobacter, showed significant positive-correlation with the amounts of PBDE congeners in the consortia. The same results were also observed on some unclassified bacteria. These results suggest that PBDEs-degrading microbial communities can be successfully enriched, and their structures and compositions can be manipulated through adjusting the environmental parameters. © 2012 Xu et al.

Yang Y.,Guangdong Institute of Microbiology | Yang Y.,State Key Laboratory of Applied Microbiology | Xu M.,Guangdong Institute of Microbiology | Xu M.,State Key Laboratory of Applied Microbiology | And 7 more authors.
PLoS ONE | Year: 2013

Due to environmental persistence and biotoxicity of polybrominated diphenyl ethers (PBDEs), it is urgent to develop potential technologies to remediate PBDEs. Introducing electrodes for microbial electricity generation to stimulate the anaerobic degradation of organic pollutants is highly promising for bioremediation. However, it is still not clear whether the degradation of PBDEs could be promoted by this strategy. In this study, we hypothesized that the degradation of PBDEs (e.g., BDE-209) would be enhanced under microbial electricity generation condition. The functional compositions and structures of microbial communities in closed-circuit microbial fuel cell (c-MFC) and open-circuit microbial fuel cell (o-MFC) systems for BDE-209 degradation were detected by a comprehensive functional gene array, GeoChip 4.0, and linked with PBDE degradations. The results indicated that distinctly different microbial community structures were formed between c-MFCs and o-MFCs, and that lower concentrations of BDE-209 and the resulting lower brominated PBDE products were detected in c-MFCs after 70-day performance. The diversity and abundance of a variety of functional genes in c-MFCs were significantly higher than those in o-MFCs. Most genes involved in chlorinated solvent reductive dechlorination, hydroxylation, methoxylation and aromatic hydrocarbon degradation were highly enriched in c-MFCs and significantly positively correlated with the removal of PBDEs. Various other microbial functional genes for carbon, nitrogen, phosphorus and sulfur cycling, as well as energy transformation process, were also significantly increased in c-MFCs. Together, these results suggest that PBDE degradation could be enhanced by introducing the electrodes for microbial electricity generation and by specifically stimulating microbial functional genes. © 2013 Yang et al.

Yang Y.,South China University of Technology | Yang Y.,Guangdong Institute of Microbiology | Yang Y.,Guangdong Provincial Key Laboratory of Microbial Culture Collection | Yang Y.,State Key Laboratory of Applied Microbiology | And 9 more authors.
Bioresource Technology | Year: 2011

Biofilms formation capacities of Shewanella species in microbial fuel cells (MFCs) and their roles in current generation have been documented to be species-dependent. Understandings of the biofilms growth and metabolism are essential to optimize the current generation of MFCs. Shewanella decolorationis S12 was used in both closed-circuit and open-circuit MFCs in this study. The anodic S. decolorationis S12 biofilms could generate fivefold more current than the planktonic cells, playing a dominant role in current generation. Anodic biofilms viability was sustained at 98 ± 1.2% in closed-circuit while biofilms viability in open-circuit decreased to 72 ± 7% within 96. h. The unviable domain in open-circuit MFCs biofilms majorly located at the inner layer of biofilm. The decreased biofilms viability in open-circuit MFCs could be recovered by switching into closed-circuit, indicating that the current-generating anode in MFCs could serve as a favorable electron acceptor and provide sufficient energy to support cell growth and metabolism inside biofilms. © 2011 Elsevier Ltd.

Zhu C.,South China University of Technology | Zhu C.,Guangdong Institute of Microbiology | Zhu C.,State Key Laboratory of Applied Microbiology | Sun G.,Guangdong Institute of Microbiology | And 7 more authors.
International Journal of Systematic and Evolutionary Microbiology | Year: 2014

Six Gram-stain-positive, motile, filamentous and/or rod-shaped, spherical spore-forming bacteria (strains GY32T, L31, F01, F03, F06 and F07) showing polybrominated diphenyl ether transformation were investigated to determine their taxonomic status. After spore germination, these organisms could grow more than one hundred microns long as intact single cells and then divide into rod cells and form endospores in 33 h. The cell-wall peptidoglycan of these strains was type A4α, the predominant menaquinone was MK-7 and the major fatty acids were iso-C16 : 0, iso-C15 : 0and C16 : 1ω7C. Diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine were detected in the polar lipid profile. Analysis of the 16S rRNA gene sequences indicated that these strains should be placed in the genus Lysinibacillus and they were most closely related to Lysinibacillus sphaericus DSM 28T(99% 16S rRNA gene sequence similarity). The gyrB sequence similarity and DNA-DNA relatedness between strain GY32Tand L. sphaericus JCM 2502Twere 81% and 52 %, respectively. The G+C content of the genomic DNA of strain GY32Twas 43.2 mol%. In addition, strain GY32Tshowed differences in nitrate reduction, starch and gelatin hydrolysis, carbon resource utilization and cell morphology. The phylogenetic distance from its closest relative measured by DNA-DNA relatedness and DNA G+C content, and its phenotypic properties demonstrated that strain GY32T represents a novel species of the genus Lysinibacillus, for which the name Lysinibacillus varians sp. nov. is proposed. The type strain is GY32T(=NBRC 109424T=CGMCC 1.12212T=CCTCC M 2011307T). © 2014 IUMS.

Sun W.,South China University of Technology | Sun W.,Guangdong Institute of Microbiology | Sun W.,State Key Laboratory of Applied Microbiology | Xia C.,Guangdong Institute of Microbiology | And 8 more authors.
Microbes and Environments | Year: 2013

Ammonia-oxidizing archaea (AOA) and bacteria (AOB) play important roles in nitrification. However, limited information about the characteristics of AOA and AOB in the river ecosystem is available. The distribution and abundance of AOA and AOB in the sediments of the Dongjiang River, a drinking water source for Hong Kong, were investigated by clone library analysis and quantitative real-time PCR. Phylogenetic analysis showed that Group 1.1b-and Group 1.1b-associated sequences of AOA predominated in sediments with comparatively high carbon and nitrogen contents (e.g. total carbon (TC) >13 g kg- sediment, NH4+-N >144 mg kg- sediment), while Group 1.1a-and Group 1.1a-associated sequences were dominant in sediments with opposite conditions (e.g. TC <4 g kg- sediment, NH4+-N <93 mg kg- sediment). Although Nitrosomonas-and Nitrosospira-related sequences of AOB were detected in the sediments, nearly 70% of the sequences fell into the Nitrosomonas-like B cluster, suggesting similar sediment AOB communities along the river. Higher abundance of AOB than AOA was observed in almost all of the sediments in the Dongjiang River, while significant correlations were only detected between the distribution of AOA and the sediment pH and TC, which suggested that AOA responded more sensitively than AOB to variations of environmental factors. These results extend our knowledge about the environmental responses of ammonia oxidizers in the river ecosystem.

Sun W.,South China University of Technology | Sun W.,Guangdong Institute of Microbiology | Sun W.,State Key Laboratory of Applied Microbiology | Xu M.-Y.,Guangdong Institute of Microbiology | And 9 more authors.
Journal of Applied Microbiology | Year: 2014

Aims: The aim of this study was to characterize anaerobic ammonium oxidation (anammox) community in sediments of the Dongjiang River, a drinking water source of Hong Kong. Methods and Results: The diversity and distribution of the anammox community were investigated based on a comparative analyses of 16S rRNA and hydrazine oxidation (hzo) genes of anammox bacteria. Candidatus Brocadia and two new anammox bacterial clusters were detected based on phylogenetic analysis of 16S rRNA genes. In contrast, the targeting of hzo genes indicated the presence of only Candidatus Jettenia with four different clusters. It was found that the sequence diversities of hzo genes were higher than those of the 16S rRNA genes. The abundance of anammox bacteria varied significantly among the sediment samples based on qPCR. Pearson correlation analysis indicated that nitrite concentration was the key factor influencing the abundance of anammox bacteria. The redundance analysis (RDA) confirmed that the combination of the contents of nitrite and nitrate, and the ratio of total nitrogen vs total carbon (TN/TC) had significant impact on the anammox bacterial community structure. Conclusions: The results revealed that the diverse anammox bacteria were present in sediments of the Dongjiang River, and the community structures were associated with varied environmental factors caused by urban pollutant invasion. Significance and Impact of the Study: This is the first report about the distribution of anammox bacterial community in sediments of the Dongjiang River, which provides helpful information of anammox niche specificity and influencing factors in the river ecosystem. © 2013 The Society for Applied Microbiology.

Xia C.,CAS South China Botanical Garden | Xia C.,University of Chinese Academy of Sciences | Xu M.,University of Chinese Academy of Sciences | Xu M.,Guangdong Institute of Microbiology | And 5 more authors.
Bioresource Technology | Year: 2015

By operating a SMFC in heavily contaminated sediment and analyzing its global organic chemical degradation profile, this study showed a brief trend that SMFC prefers to stimulate the degradation of organic chemicals with higher polarity. As a comparison, adding nitrate as a microbial respiration-based sediment remediation strategy preferred lower polarity chemicals. Both SMFC and nitrate reactors showed high degradation capacity in benzene homologs. These results provide crucial information for the selective and proper application of SMFC in bioremediation. © 2015 Elsevier Ltd.

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