Identification ofEnterococcus sp. from midgut of silkworm based on biochemical and 16S rDNA sequencing analysis

2006 ◽  
Vol 56 (3) ◽  
pp. 201-205 ◽  
Author(s):  
Chen Fei ◽  
Xing-meng Lu ◽  
Yong-hua Qian ◽  
Haiyan Zhang ◽  
Qaisar Mahmood
Keyword(s):  
16S Rdna ◽  
Sequencing Analysis ◽  
16S Rdna Sequencing ◽  
Rdna Sequencing

Metabolite fingerprinting of novel Streptomyces UK-238 from the Himalayan forest

2020 ◽  
Vol 16 ◽  
Author(s):  
Nidhi Srivastava ◽  
Indira P. Sarethy
Keyword(s):  
Ethyl Acetate ◽  
16S Rdna ◽  
Retention Index ◽  
Ethyl Acetate Extract ◽  
Similarity Index ◽  
Antimicrobial Drug ◽  
16S Rdna Sequencing ◽  
Metabolite Fingerprinting ◽  
Streptomyces Sp ◽  
Rdna Sequencing

Aims: Characterization of antimicrobial metabolites of novel Streptomyces sp. UK-238. Background: Novel antimicrobial drug discovery is urgently needed due to emerging multi antimicrobial drug resistance among pathogens. Since many years, natural products have provided the basic skeletons for many therapeutic compounds including antibiotics. Bioprospection of un/under explored habitats and focussing on selective isolation of actinobacteria as major reservoir of bio and chemodiversity has yielded good results. Objective: The main objectives of the study were the identification of UK-238 by 16S rDNA sequencing and antimicrobial metabolite fingerprinting of culture extracts. Method: In the present study, a promising isolate, UK-238, has been screened for antimicrobial activity and metabolite fingerprinting from the Himalayan Thano Reserve forest. It was identified by 16S rDNA sequencing. Ethyl acetate extract was partially purified by column chromatography. The pooled active fractions were fingerprinted by GC-MS and compounds were tentatively identified by collated data analysis based on Similarity Index, observed Retention Index from Databases and calculated Retention Index. Results: UK-238 was identified as Streptomyces sp. with 98.4% similarity to S. niveiscabiei. It exhibited broad-spectrum antibacterial and antifungal activity. GC-MS analysis of active fractions of ethyl acetate extract showed the presence of eighteen novel antimicrobial compounds belonging to four major categories- alcohols, alkaloid, esters and peptide. Conclusion: The study confirms that bioprospection of underexplored habitats can elaborate novel bio and chemodiversity.

scholarly journals 2-Way k-Means as a Model for Microbiome Samples

2017 ◽  
Vol 2017 ◽  
pp. 1-7 ◽  
Author(s):  
Weston J. Jackson ◽  
Ipsita Agarwal ◽  
Itsik Pe’er
Keyword(s):  
Unsupervised Learning ◽  
16S Rdna ◽  
Mixture Model ◽  
Vaginal Microbiome ◽  
16S Rdna Sequencing ◽  
Sequencing Data ◽  
Cluster Assignment ◽  
Rdna Sequencing

Motivation. Microbiome sequencing allows defining clusters of samples with shared composition. However, this paradigm poorly accounts for samples whose composition is a mixture of cluster-characterizing ones and which therefore lie in between them in the cluster space. This paper addresses unsupervised learning of 2-way clusters. It defines a mixture model that allows 2-way cluster assignment and describes a variant of generalized k-means for learning such a model. We demonstrate applicability to microbial 16S rDNA sequencing data from the Human Vaginal Microbiome Project.

Analysis of the bacterial floral structure and diversity of Xuanwei ham by 16S rDNA sequencing

2020 ◽  
Vol 40 (4) ◽  
Author(s):  
Luying Shan ◽  
Yinjiao Li ◽  
Shi Zheng ◽  
Yuanmiao Wei ◽  
Ying Shang
Keyword(s):  
16S Rdna ◽  
16S Rdna Sequencing ◽  
Floral Structure ◽  
Rdna Sequencing

scholarly journals ISOLATION, PURIFICATION, AND CHARACTERIZATION OF LIPASE FROM BACILLUS SP. FROM KITCHEN GREASE

2018 ◽  
Vol 11 (6) ◽  
pp. 224
Author(s):  
Jaiganesh R ◽  
Jaganathan Mk
Keyword(s):  
16S Rdna ◽  
Solvent Tolerance ◽  
16S Rdna Sequencing ◽  
Bacillus Sp ◽  
Purification And Characterization ◽  
Lipase Enzyme ◽  
Sequencing Method ◽  
Rdna Sequencing ◽  
Solvent Tolerant

Objective: The objective of this work was to isolation, purification and characterization of solvent tolerant lipase from Bacillus sp. The objective of this work was to isolation, purification and characterization of solvent tolerant lipase from Bacillus sp. from kitchen grease for a variety of applications including organic synthetic reactions and preparation of enantiomerically pure pharmaceuticals.Methods: Lipase producing isolates were screened from kitchen grease on a selective medium rhodamine B olive oil agar, and tributyrin agar was used to screen the lipase and esterase producing an organism, respectively. The isolate identified using 16S rDNA sequencing method and enzyme activity was quantitatively assayed. Lipase production was characterized in different conditions.Results: The isolate showed highest lipase activity was which later was identified as Bacillus sp. using 16S rDNA sequencing method. The lipase was purified using ammonium sulfate precipitation. The isolate showed excellent tolerance to methanol, ethanol, acetonitrile, and moderate tolerance to butanol. The increased biomass concentration, maximum production, and activity were achieved at 37°C in 24 h incubation, then gradual reduction in production was observed. The maximum activity of lipase enzyme was obtained at pH between 6 and 9.Conclusion: The isolate produce solvent tolerance lipase enzyme and it can be a promising candidate of solvent tolerance lipase enzyme for variety of industrial applications.

Gut microbiota community adaption during young children fecal microbiota transplantation by 16s rDNA sequencing

2016 ◽  
Vol 206 ◽  
pp. 66-72 ◽  
Author(s):  
Jian-Lei Gu ◽  
Yi-Zhong Wang ◽  
Shi-Yi Liu ◽  
Guang-Jun Yu ◽  
Ting Zhang ◽  
...  
Keyword(s):  
Young Children ◽  
Gut Microbiota ◽  
16S Rdna ◽  
Fecal Microbiota Transplantation ◽  
Fecal Microbiota ◽  
16S Rdna Sequencing ◽  
Rdna Sequencing

scholarly journals Determination of uterine bacterial community in postpartum dairy cows with metritis based on 16S rDNA sequencing

2020 ◽  
Vol 10 ◽  
pp. 100102
Author(s):  
Hao Chen ◽  
Kaiqiang Fu ◽  
Binbin Pang ◽  
Jifang Wang ◽  
Huatao Li ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Dairy Cows ◽  
16S Rdna ◽  
16S Rdna Sequencing ◽  
Rdna Sequencing

Differentiation and Characterization by Molecular Techniques of Bacillus cereus Group Isolates from Poto Poto and Dégué, Two Traditional Cereal-Based Fermented Foods of Burkina Faso and Republic of Congo

2007 ◽  
Vol 70 (5) ◽  
pp. 1165-1173 ◽  
Author(s):  
HIKMATE ABRIOUEL ◽  
NABIL BEN OMAR ◽  
ROSARIO LUCAS LÓPEZ ◽  
MAGDALENA MARTÍNEZ CAÑAMERO ◽  
ELENA ORTEGA ◽  
...  
Keyword(s):  
Melting Curve ◽  
Pcr Amplification ◽  
Curve Analysis ◽  
Melting Curve Analysis ◽  
Toxin Gene ◽  
Fermented Foods ◽  
Sequencing Analysis ◽  
16S Rdna Sequencing ◽  
Bacillus Cereus Group ◽  
Rdna Sequencing

Poto poto (a maize sourdough) and dégué (a pearl millet–based food) are two traditional African fermented foods. The molecular biology of toxigenic and pathogenic bacteria found in those foods is largely unknown. The purpose of this study was to study the phylogenetic relatedness and toxigenic potential of 26 Bacillus cereus group isolates from these traditional fermented foods. The relatedness of the isolates was evaluated with repetitive element sequence-based PCR (REP-PCR) and 16S rDNA sequencing analysis. A multiplex real-time PCR assay targeting the lef and capC genes of B. anthracis pXO1 and pXO2 plasmids and the sspE chromosomal gene of B. cereus and B. anthracis also was carried out. Melting curve analysis of the sspE amplification product was used to differentiate B. cereus from B. anthracis, and the presence of the B. cereus enterotoxin genes was determined with PCR amplification. Isolates had 15 different REP-PCR profiles, according to which they could be clustered into four groups. 16S rDNA sequencing analysis identified 23 isolates as B. cereus or B. anthracis and three isolates as B. cereus or Bacillus sp. Multiplex real-time PCR amplification indicated the absence of the lef and capC genes of B. anthracis pXO1 and pXO2 plasmids, and melting curve analysis revealed amplification of the 71-bp sspE product typical of B. cereus in all isolates instead of the 188-bp amplicon of B. anthracis, confirming the identity of these isolates as B. cereus. Four isolates had amylolytic activity. All isolates had lecithinase activity and beta-hemolytic activity. Enterotoxin production was detected in two isolates. The emetic toxin gene was not detected in any isolate. The nheB toxin gene was detected in 19 isolates by PCR amplification; one of these isolates also contained the hblD (L1) gene. The cytotoxin K cytK-1 gene was not detected, but the cytK-2 gene was clearly detected in six isolates.

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