ArticleNucleic acids research2017
Genomic and transcriptomic landscape of Escherichia coli BL21(DE3).
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
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- Characterization of Homeodomain Proteins at the Aβ Sublocus inJournal of fungi (Basel, Switzerland) · 2025Article
- The stomatin-like protein StlP organizes membrane microdomains to govern polar growth in filamentous actinobacteria under hyperosmotic stress.Nature communications · 2025Article
- Identification and analysis of the key genes for Escherichia coli heterologous protein expression by transcriptomic profiling.Molecular biology reports · 2024Article
- The parallel biosynthesis routes of hyperoside from naringenin inHorticulture research · 2023Article
- Characterization, complete genome sequencing, and CRISPR/Cas9 system-based decontamination of a novelFrontiers in microbiology · 2023Article
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- Strategies for efficient production of recombinant proteins in Escherichia coli: alleviating the host burden and enhancing protein activity.Microbial cell factories · 2022Review
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- Detecting SARS-CoV-2 and its variant strains with a full genome tiling array.Briefings in bioinformatics · 2021Article
- Discovery of a small protein-encoding cis-regulatory overlapping gene of the tumor suppressor gene Scribble in humans.Communications biology · 2021Article
- Conformational Changes of Anoplin, W-MreBInternational journal of molecular sciences · 2020Article
- Systematic prediction of genes functionally associated with bacterial retrons and classification of the encoded tripartite systems.Nucleic acids research · 2020Article
- Heat-responsive and time-resolved transcriptome and metabolome analyses of Escherichia coli uncover thermo-tolerant mechanisms.Scientific reports · 2020Article
- Evolution ofInternational journal of molecular sciences · 2020Review
- Genome re-sequencing and reannotation of the Escherichia coli ER2566 strain and transcriptome sequencing under overexpression conditions.BMC genomics · 2020Article
- A single amino acid substitution in aromatic hydroxylase (HpaB) of Escherichia coli alters substrate specificity of the structural isomers of hydroxyphenylacetate.BMC microbiology · 2020Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Escherichia coli BL21(DE3) has long served as a model organism for scientific research, as well as a workhorse for biotechnology. Here we present the most current genome annotation of E. coli BL21(DE3) based on the transcriptome structure of the strain that was determined for the first time. The genome was annotated using multiple automated pipelines and compared to the current genome annotation of the closely related strain, E. coli K-12. High-resolution tiling array data of E. coli BL21(DE3) from several different stages of cell growth in rich and minimal media were analyzed to characterize the transcriptome structure and to provide supporting evidence for open reading frames. This new integrated analysis of the genomic and transcriptomic structure of E. coli BL21(DE3) has led to the correction of translation initiation sites for 88 coding DNA sequences and provided updated information for most genes. Additionally, 37 putative genes and 66 putative non-coding RNAs were also identified. The panoramic landscape of the genome and transcriptome of E. coli BL21(DE3) revealed here will allow us to better understand the fundamental biology of the strain and also advance biotechnological applications in industry.
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