16S-ITGDB: An Integrated Database for Improving Species Classification of Prokaryotic 16S Ribosomal RNA Sequences [PDF]
Frontiers in Bioinformatics, 2022 Analyzing 16S ribosomal RNA (rRNA) sequences allows researchers to elucidate the prokaryotic composition of an environment. In recent years, third-generation sequencing technology has provided opportunities for researchers to perform full-length sequence
Yu-Peng Hsieh +9 more
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Choice of 16S Ribosomal RNA Primers Impacts Male Urinary Microbiota Profiling [PDF]
Frontiers in Cellular and Infection Microbiology, 2022 Accessibility to next-generation sequencing (NGS) technologies has enabled the profiling of microbial communities living in distinct habitats. 16S ribosomal RNA (rRNA) gene sequencing is widely used for microbiota profiling with NGS technologies.
Vitor Heidrich +9 more
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Novel and Efficient Method for Diagnosing Infective Endocarditis Using 16S Ribosomal RNA Gene Amplicon Sequence [PDF]
JACC: Case Reports, 2023 We present 2 cases that both developed infective endocarditis and underwent mitral valve replacement. In addition to positive blood culture and echocardiographic findings, such as vegetation or mitral valve perforation, the 16S ribosomal RNA gene ...
Akihisa Kataoka, MD, PhD +14 more
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Choice of 16S ribosomal RNA primers affects the microbiome analysis in chicken ceca [PDF]
Scientific Reports, 2021 We evaluated the effect of applying different sets of 16S rRNA primers on bacterial composition, diversity, and predicted function in chicken ceca. Cecal contents from Ross 708 birds at 1, 3, and 5 weeks of age were collected for DNA isolation.
Nadia Darwish +3 more
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Chromosomal 16S Ribosomal RNA Methyltransferase RmtE1 in Escherichia coli Sequence Type 448 [PDF]
Emerging Infectious Diseases, 2017 We identified rmtE1, an uncommon 16S ribosomal methyltransferase gene, in an aminoglycoside- and cephalosporin-resistant Escherichia coli sequence type 448 clinical strain co-harboring blaCMY-2.
Bin Li, Marissa P. Pacey, Yohei Doi
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Optimizing PCR primers targeting the bacterial 16S ribosomal RNA gene [PDF]
BMC Bioinformatics, 2018 Background Targeted amplicon sequencing of the 16S ribosomal RNA gene is one of the key tools for studying microbial diversity. The accuracy of this approach strongly depends on the choice of primer pairs and, in particular, on the balance between ...
Francesco Sambo +9 more
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Reading canonical and modified nucleobases in 16S ribosomal RNA using nanopore native RNA sequencing. [PDF]
PLoS ONE, 2019 The ribosome small subunit is expressed in all living cells. It performs numerous essential functions during translation, including formation of the initiation complex and proofreading of base-pairs between mRNA codons and tRNA anticodons.
Andrew M Smith +4 more
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16S Ribosomal RNA-Based Analysis of Thermophilic Bacteria in Gedongsongo Hot Spring
Microbiology Indonesia, 2010 Denaturing gradient gel electrophoresis was used to identify the bacterial community at the Gedongsongo (WGS-2) hot spring. The bacterial samples were obtained from both culture dependent and independent strategies.
AGUSTINA LULUSTYANINGATI NURUL AMININ1 +3 more
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Frontiers in Microbiology, 2022 Ribosome assembly is a complex fundamental cellular process that involves assembling multiple ribosomal proteins and several ribosomal RNA species in a highly coordinated yet flexible and resilient manner.
Vignesh M. P. Babu +3 more
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A comparison of structural and evolutionary attributes of Escherichia coli and Thermus thermophilus small ribosomal subunits: signatures of thermal adaptation. [PDF]
PLoS ONE, 2013 Here we compare the structural and evolutionary attributes of Thermus thermophilus and Escherichia coli small ribosomal subunits (SSU). Our results indicate that with few exceptions, thermophilic 16S ribosomal RNA (16S rRNA) is densely packed compared to
Saurav Mallik, Sudip Kundu
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