scholarly journals Transcriptomic Characterization of Tuberculous Sputum Reveals a Host Warburg Effect and Microbial Cholesterol Catabolism

mBio ◽  
2021 ◽  
Author(s):  
Rachel P. J. Lai ◽  
Teresa Cortes ◽  
Suzaan Marais ◽  
Neesha Rockwood ◽  
Melissa L. Burke ◽  
...  
Keyword(s):  
Ribosomal Dna ◽  
Warburg Effect ◽  
Clinical Specimens ◽  
Microbiome Composition ◽  
16S Ribosomal Dna ◽  
Functional Inference

Although a few studies have described the microbiome composition of TB sputa based on 16S ribosomal DNA, these studies did not compare to non-TB samples and the nature of the method does not allow any functional inference. This is the first study to apply such technology using clinical specimens and obtained functional transcriptional data on all three aspects simultaneously.

scholarly journals Identification of NDM-1 in a Putatively Novel Acinetobacter Species (“NB14”) Closely Related to Acinetobacter pittii

2015 ◽  
Vol 59 (10) ◽  
pp. 6657-6660 ◽  
Author(s):  
Paula Espinal ◽  
Noraida Mosqueda ◽  
Murat Telli ◽  
Tanny van der Reijden ◽  
Dora Rolo ◽  
...  
Keyword(s):  
Ribosomal Dna ◽  
Restriction Analysis ◽  
Conjugative Plasmid ◽  
Acinetobacter Species ◽  
Content Type ◽  
16S Ribosomal Dna ◽  
Acinetobacter Pittii ◽  
Dna Restriction ◽  
Molecular Sequencing

ABSTRACTIn this study, we describe the molecular characterization of a plasmid-locatedblaNDM-1harbored by anAcinetobacterclinical isolate recovered from a patient in Turkey that putatively constitutes a novelAcinetobacterspecies, as shown by its distinct ARDRA (amplified 16S ribosomal DNA restriction analysis) profile and molecular sequencing techniques.blaNDM-1was carried by a conjugative plasmid widespread among non-baumannii Acinetobacterisolates, suggesting its potential for dissemination before reaching more clinically relevantAcinetobacterspecies.

scholarly journals Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota

Pathogens ◽  
2021 ◽  
Vol 10 (4) ◽  
pp. 405
Author(s):  
Anna Matysiak ◽  
Michal Kabza ◽  
Justyna A. Karolak ◽  
Marcelina M. Jaworska ◽  
Malgorzata Rydzanicz ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Ocular Surface ◽  
Molecular Techniques ◽  
Corneal Tissue ◽  
Rna Seq ◽  
Microbiome Composition ◽  
Viral Sequences ◽  
Pcr Techniques ◽  
Unmapped Reads

The ocular microbiome composition has only been partially characterized. Here, we used RNA-sequencing (RNA-Seq) data to assess microbial diversity in human corneal tissue. Additionally, conjunctival swab samples were examined to characterize ocular surface microbiota. Short RNA-Seq reads, obtained from a previous transcriptome study of 50 corneal tissues, were mapped to the human reference genome GRCh38 to remove sequences of human origin. The unmapped reads were then used for taxonomic classification by comparing them with known bacterial, archaeal, and viral sequences from public databases. The components of microbial communities were identified and characterized using both conventional microbiology and polymerase chain reaction (PCR) techniques in 36 conjunctival swabs. The majority of ocular samples examined by conventional and molecular techniques showed very similar microbial taxonomic profiles, with most of the microorganisms being classified into Proteobacteria, Firmicutes, and Actinobacteria phyla. Only 50% of conjunctival samples exhibited bacterial growth. The PCR detection provided a broader overview of positive results for conjunctival materials. The RNA-Seq assessment revealed significant variability of the corneal microbial communities, including fastidious bacteria and viruses. The use of the combined techniques allowed for a comprehensive characterization of the eye microbiome’s elements, especially in aspects of microbiota diversity.

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