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Biology, Chemistry, and Environmental Sciences Faculty Articles and Research
This Teradata Tools and Utilities (TTU) 17.00 package is the full collection of Teradata client tools for macOS. This includes load & unload utilities, open interfaces and drivers to be used to connect to your Teradata Advanced SQL (database) instance. Installation is easy and simple. The size of the download zip file is 50 MB. SILVA provides comprehensive, quality checked and regularly updated databases of aligned small (16S / 18S, SSU) and large subunit (23S / 28S, LSU) ribosomal RNA (rRNA) sequences for all three domains of life (Bacteria, Archaea and Eukarya). IDBA-UD required extensive source code revision to operate on Mac OS X and reduce its memory usage for laptop hardware. These changes are available in the A5-miseq source code repository. We benchmarked A5-miseq 20140521 and A5 on the raw GAGE-B MiSeq datasets.
Title
Authors
Document Type
Article
Publication Date
6-6-2012
Abstract
In archaea and eukaryotes aminoacyl-tRNA synthetases (aaRSs) associate in multi-synthetase complexes (MSCs), however the role of such MSCs in translation is unknown. MSC function was investigated in vivo in the archaeon Thermococcus kodakarensis, wherein six aaRSs were affinity co-purified together with several other factors involved in protein synthesis, suggesting that MSCs may interact directly with translating ribosomes. In support of this hypothesis, the aminoacyltRNA synthetase (aaRS) activities of the MSC were enriched in isolated T. kodakarensis polysome fractions. These data indicate that components of the archaeal protein synthesis machinery associate into macromolecular assemblies in vivo and provide the potential to increase translation efficiency by limiting substrate diffusion away from the ribosome, thus facilitating rapid recycling of tRNAs.
Recommended Citation
Raina, M., Elgamal, S., Santangelo, T. and Ibba, M. (2012) Association of a multi-synthetase complex with translating ribosomes in the archaeon Thermococcus kodakarensis. FEBS Letts. 586, 2232-2238. https://doi.org10.1016/j.febslet.2012.05.039
Copyright
Federation of European Biochemical Societies
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My book, Evolution Since Coding, updates the story of genesis, told from an evolutionary point of view. The book is accessible to a broad audience. I stress code breaking in interpretation of ~4 billion year old protein and RNA motifs. The ancient codes are so dumb, even scientists could break them, but, perhaps, the stark simplicity of the codes has not been widely acknowledged. Because the earth is only ~4.6 billion years old, ~4 billion year old motifs and codes now can be collected as antiquities, and I show how to do this. Motifs and codes are best visualized and appreciated by learning molecular graphics software, which is about as complicated as an online computer game.
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The core story of genesis requires explanation of RNA synthesis and protein synthesis. The story of RNA synthesis is a story of RNA polymerases, promoters and general transcription factors. The story of protein synthesis is a story of the evolution of transfer RNA, the ribosome and the genetic code.
The story of evolution of cellular life is the story of the RNA-protein world progressing to LUCA (the last universal cellular common ancestor) and DNA genomes. LUCA diverges to archaea and bacteria. Archaea and bacteria then fuse to form eukaryotes. The complexity of eukaryotes is explained from their tortured path of evolution.
Models are advanced to explain each transition.
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I present a surprisingly simple and conceptual story of the evolution of life on earth since coding.