{"id":"doi:10.1371/journal.pgen.1004463","kind":"article","title":"The coding and noncoding architecture of the Caulobacter crescentus genome","authors":["Schrader JM","Zhou B","Li GW","Lasker K","Childers WS","Williams B","Long T","Crosson S","McAdams HH","Weissman JS","Shapiro L"],"author_count":11,"year":2014,"published":"2014-07-31","venue":"PLoS genetics","cited_by":132,"doi":"10.1371/journal.pgen.1004463","arxiv_id":null,"nct_id":null,"source_url":"https://doi.org/10.1371/journal.pgen.1004463","archive_url":"https://space-kitty.com/papers/doi:10.1371/journal.pgen.1004463","updated":null,"pmid":"25078267","pmcid":"PMC4117421","openalex_id":null,"pdf_url":"https://europepmc.org/articles/PMC4117421/pdf","abstract":"Caulobacter crescentus undergoes an asymmetric cell division controlled by a genetic circuit that cycles in space and time. We provide a universal strategy for defining the coding potential of bacterial genomes by applying ribosome profiling, RNA-seq, global 5'-RACE, and liquid chromatography coupled with tandem mass spectrometry (LC-MS) data to the 4-megabase C. crescentus genome. We mapped transcript units at single base-pair resolution using RNA-seq together with global 5'-RACE. Additionally, using ribosome profiling and LC-MS, we mapped translation start sites and coding regions with near complete coverage. We found most start codons lacked corresponding Shine-Dalgarno sites although ribosomes were observed to pause at internal Shine-Dalgarno sites within the coding DNA sequence (CDS). These data suggest a more prevalent use of the Shine-Dalgarno sequence for ribosome pausing rather than translation initiation in C. crescentus. Overall 19% of the transcribed and translated genomic elements were newly identified or significantly improved by this approach, providing a valuable genomic resource to elucidate the complete C. crescentus genetic circuitry that controls asymmetric cell division.","abstract_license":"CC-BY (article license as recorded by Europe PMC; abstract reproduced unmodified apart from markup removal)","license":"CC-BY","is_open_access":true,"retracted":false,"peer_reviewed":null,"categories":[],"details":null,"provenance":"europepmc","attribution":"Abstract of \"The coding and noncoding architecture of the Caulobacter crescentus genome\" by Schrader JM, Zhou B, Li GW et al., https://doi.org/10.1371/journal.pgen.1004463, used under its Creative Commons Attribution license (CC-BY); markup removed, otherwise unmodified.","topics":[{"slug":"synthetic-biology","name":"Synthetic Biology & Genome Engineering","domain_slug":"biotech"}],"cited_in_dossiers":[]}