scholarly journals Bacterial Communities from the Arsenic Mine in Złoty Stok, Sudety Mountains, Poland

2017 ◽  
Vol 66 (3) ◽  
pp. 375-381
Author(s):  
Tomasz Cłapa ◽  
Dorota Narożna ◽  
Rafał Siuda ◽  
Andrzej Borkowski ◽  
Marek Selwet ◽  
...  
Keyword(s):  
16S Rdna ◽  
Bacterial Communities ◽  
Pcr Amplification ◽  
Nucleotide Sequences ◽  
Restriction Patterns ◽  
Mine Environment ◽  
Total Dna ◽  
Sudety Mountains ◽  
Metagenomic Approach

Investigations of bacterial communities and characterization of mineralogy of the environment in the Złoty Stok As-Au deposit were carried out. PXRD analysis revealed the presence of picropharmacolite as the most common secondary arsenic mineral in the mine. Total DNA was extracted from slime streams or slime biofilms samples to investigate the bacterial communities. PCR amplification of 16S rDNA was performed followed by subcloning of its products. Over 170 clones were analyzed by means of RFLP method. Eight group of clones representing different restriction patterns were identified. The nucleotide sequences of their inserts suggest that bacteria present in the mine environment belong to: Flavobacteria, Sphingobacteriia, Bacteroides, Proteobacteria, Mollicutes and Firmicutes. The metagenomic approach allows to demonstrate a higher diversity of microbiota than classical microbiological studies of cultivable isolates.

scholarly journals Characterization of Bacterial Communities in Selected Smokeless Tobacco Products Using 16S rDNA Analysis

PLoS ONE ◽  
2016 ◽  
Vol 11 (1) ◽  
pp. e0146939 ◽  
Author(s):  
Robert E. Tyx ◽  
Stephen B. Stanfill ◽  
Lisa M. Keong ◽  
Angel J. Rivera ◽  
Glen A. Satten ◽  
...  
Keyword(s):  
16S Rdna ◽  
Smokeless Tobacco ◽  
Bacterial Communities ◽  
Tobacco Products ◽  
16S Rdna Analysis ◽  
Smokeless Tobacco Products ◽  
Rdna Analysis

scholarly journals Molecular Characterization of Epiphytic Bacterial Communities on Charophycean Green Algae

1998 ◽  
Vol 64 (11) ◽  
pp. 4384-4389 ◽  
Author(s):  
Madeline M. Fisher ◽  
Lee W. Wilcox ◽  
Linda E. Graham
Keyword(s):  
Green Algae ◽  
Bacterial Communities ◽  
Bacterial Species ◽  
Pcr Amplification ◽  
Cloning And Sequencing ◽  
16S Ribosomal Dna ◽  
Filamentous Green Algae ◽  
Sequence Types ◽  
Sheath Material

ABSTRACT Epiphytic bacterial communities within the sheath material of three filamentous green algae, Desmidium grevillii, Hyalotheca dissiliens, andSpondylosium pulchrum (class Charophyceae, order Zygnematales), collected from a Sphagnum bog were characterized by PCR amplification, cloning, and sequencing of 16S ribosomal DNA. A total of 20 partial sequences and nine different sequence types were obtained, and one sequence type was recovered from the bacterial communities on all three algae. By phylogenetic analysis, the cloned sequences were placed into several major lineages of the Bacteria domain: theFlexibacter/Cytophaga/Bacteroides phylum and the α, β, and γ subdivisions of the phylum Proteobacteria. Analysis at the subphylum level revealed that the majority of our sequences were not closely affiliated with those of known, cultured taxa, although the estimated evolutionary distances between our sequences and their nearest neighbors were always less than 0.1 (i.e., greater than 90% similar). This result suggests that the majority of sequences obtained in this study represent as yet phenotypically undescribed bacterial species and that the range of bacterial-algal interactions that occur in nature has not yet been fully described.

scholarly journals Genetic characterization of hydatid cysts of different intermediate hosts

2020 ◽  
Vol 57 (3) ◽  
pp. 185-195
Author(s):  
W. M. Mousa ◽  
A. M. Abdel-Wahab ◽  
M. El-Gameel Sohila ◽  
O. A. Mahdy
Keyword(s):  
Pcr Amplification ◽  
Genetic Mutation ◽  
Sensu Stricto ◽  
Nucleotide Sequences ◽  
Hydatid Cysts ◽  
Intermediate Hosts ◽  
Economic Problems ◽  
Animal Isolates ◽  
Cattle And Sheep

SummaryCystic echinococcosis is an important cosmopolitan parasitic zoonosis that causes public health and economic problems in Egypt. The present study was undertaken to identify genotypes of hydatid cyst (HC) DNA isolated from different animal isolates and to identify the genotype of secondary hydatid cysts (HCs) developed in rabbits experimentally infected with camel HC for detection of any genetic mutation. In the present study, we extracted DNA from the germinal layers of 8 HCs collected from 3 camels, 1 cattle, 1 sheep and 3 donkeys in addition to 3 secondary HCs collected from rabbits experimentally infected with camel HC. PCR amplification of the ITS1 gene of all examined samples showed an amplified DNA band at 1115 bp. The partial nucleotide sequences of the ITS1 gene of all isolates were aligned and compared with the reference sequences of the genotypes G1–G8 in GenBank. The camel and rabbit samples were identified as Echinococcus canadensis genotype 6 (G6), while the cattle and sheep samples belonged to E. granulosus sensu stricto (G1). The donkey isolates belonged to E. equines (G4). Alignment of the ITS1 partial nucleotide sequences of the camel HCs and rabbit secondary HCs isolates with the G6 partial nucleotide sequence in GenBank was performed. Both camel HCs and rabbit secondary HCs isolates exhibited the same sequence identity matrix, which indicated the absence of mutation in the rabbit secondary HCs. It can be concluded that camel and rabbit samples were identified as E. canadensis (G6), the cattle and sheep samples belonged to E. granulosus sensu stricto (G1) and donkey isolates belonged to E. equines (G4). No mutation occurred during HCs transmission from camel to rabbit.

scholarly journals Characterization of the microbiome and bioluminescent symbionts across life stages of Ceratioid Anglerfishes of the Gulf of Mexico

2019 ◽  
Vol 95 (10) ◽  
Author(s):  
Lindsay L Freed ◽  
Cole Easson ◽  
Lydia J Baker ◽  
Danté Fenolio ◽  
Tracey T Sutton ◽  
...  
Keyword(s):  
Gulf Of Mexico ◽  
16S Rdna ◽  
Bacterial Communities ◽  
Host Family ◽  
Transmission Electron ◽  
Rdna Sequencing ◽  
Light Organs ◽  
Adult Skin ◽  
Host Development

ABSTRACT The interdependence of diverse organisms through symbiosis reaches even the deepest parts of the oceans. As part of the DEEPEND project (deependconsortium.org) research on deep Gulf of Mexico biodiversity, we profiled the bacterial communities (‘microbiomes’) and luminous symbionts of 36 specimens of adult and larval deep-sea anglerfishes of the suborder Ceratioidei using 16S rDNA. Transmission electron microscopy was used to characterize the location of symbionts in adult light organs (esca). Whole larval microbiomes, and adult skin and gut microbiomes, were dominated by bacteria in the genera Moritella and Pseudoalteromonas. 16S rDNA sequencing results from adult fishes corroborate the previously published identity of ceratioid bioluminescent symbionts and support the findings that these symbionts do not consistently exhibit host specificity at the host family level. Bioluminescent symbiont amplicon sequence variants were absent from larval ceratioid samples, but were found at all depths in the seawater, with a highest abundance found at mesopelagic depths. As adults spend the majority of their lives in the meso- and bathypelagic zones, the trend in symbiont abundance is consistent with their life history. These findings support the hypothesis that bioluminescent symbionts are not present throughout host development, and that ceratioids acquire their bioluminescent symbionts from the environment.

scholarly journals Characterization of the Dominant Bacterial Communities Associated with Terrestrial Isopod Species Based on 16S rDNA Analysis by PCR-DGGE

2018 ◽  
Vol 08 (09) ◽  
pp. 495-509 ◽  
Author(s):  
Delhoumi Majed ◽  
Zaabar Wahiba ◽  
Bouslama Mohamed Fadhel ◽  
Achouri Mohamed Sghaier
Keyword(s):  
16S Rdna ◽  
Bacterial Communities ◽  
16S Rdna Analysis ◽  
Terrestrial Isopod ◽  
Rdna Analysis

Further characterization of isolated presumptive euchromatin fractions of mouse hepatoma cells utilizing a cDNA probe complementary to the homologous poly(A)+ mRNA

1981 ◽  
Vol 59 (7) ◽  
pp. 534-542
Author(s):  
Jacob D. Duerksen ◽  
Julia Y. Chan ◽  
Brenda Robichaud
Keyword(s):  
Cdna Probe ◽  
Hepatoma Cells ◽  
Nucleotide Sequences ◽  
Ascites Cell ◽  
Nick Translation ◽  
Cell Cytoplasm ◽  
Mouse Hepatoma ◽  
Nuclease Digestion ◽  
Total Dna

Poly(A)+ mRNA from mouse hepatoma ascites cell cytoplasm is characterized by three frequency classes: an abundant frequency class of a limited number of different nucleotide sequences, a less abundant frequency class of a larger number of different nucleotide sequences, and a rare frequency class containing a high number of different nucleotide sequences. [3H]cDNA synthesized on this poly(A)+ mRNA template hybridizes with some of the DNAs of the putative transcribable euchromatin fraction at a significantly faster rate than with total DNA if residual contaminating RNA is not removed. Following NaOH incubation to remove such RNA, the cDNA probe hybridized with essentially the same rate to the euchromatin fractions and total DNA. Nick translation of the nuclease-sensitive sequences of chromatin demonstrated that, even with limited nuclease digestion, the excised sequences rapidly converted to small oligonucleotides. The nick-translatable, small chromatin segments showed no enrichment for transcribable sequences. Chromatin segments, which distribute to the 50S–70S glycerol gradient fractions and which satisfy several of the presumptive criteria for enrichment for transcribable sequences, therefore show no enrichment for sequences complementary to the cDNA for poly(A)+ mRNA.

Characterization of a cDNA for Rhesus Monkey Protein C Inhibitor – Evidence for N-Terminal Involvement in Heparin Stimulation

1995 ◽  
Vol 74 (04) ◽  
pp. 1079-1087 ◽  
Author(s):  
Klaus-P Radtke ◽  
José A Fernández ◽  
Bruno O Villoutreix ◽  
Judith S Greengard ◽  
John H Griffin
Keyword(s):  
Rhesus Monkey ◽  
Protein C ◽  
Activated Protein C ◽  
Pcr Amplification ◽  
Amino Acid Sequences ◽  
Heparin Binding ◽  
Reactive Center ◽  
Protein C Inhibitor ◽  
Polymerase Chain

SummarycDNAs for protein C inhibitor (PCI) were cloned from human and rhesus monkey 1 liver RNAs by reverse transcription and polymerase chain reaction (PCR) amplification. Sequencing showed that rhesus monkey and human PCI cDNAs were 93% identical. Predicted amino acid sequences differed at 26 of 387 residues. Pour of these differences (T352M, N359S, R362K, L3631) were in the reactive center loop that is important for inhibitory specificity, and two were in the N-terminal helix (M8T, E13K) that is implicated in glycosaminoglycan binding. PCI in human or rhesus monkey plasma showed comparable inhibitory activity towards human activated protein C in the presence of 10 U/ml heparin. However, maximal acceleration of the inhibition of activated protein C required 5-fold lower heparin concentration for rhesus monkey than for human plasma, consistent with the interpretation that the additional positive charge (E13K) in a putative-heparin binding region increased the affinity for heparin.

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