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. Highresolution 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 noncoding 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.
| Original language | English |
|---|---|
| Pages (from-to) | 5285-5293 |
| Number of pages | 9 |
| Journal | Nucleic acids research |
| Volume | 45 |
| Issue number | 9 |
| DOIs | |
| Publication status | Published - 2017 May 19 |
Fingerprint
All Science Journal Classification (ASJC) codes
- Genetics
Cite this
}
Genomic and transcriptomic landscape of Escherichia coli BL21(DE3). / Kim, Sinyeon; Jeong, Haeyoung; Kim, Eun Youn; Kim, Jihyun F.; Lee, Sang Yup; Yoon, Sung Ho.
In: Nucleic acids research, Vol. 45, No. 9, 19.05.2017, p. 5285-5293.Research output: Contribution to journal › Article
TY - JOUR
T1 - Genomic and transcriptomic landscape of Escherichia coli BL21(DE3)
AU - Kim, Sinyeon
AU - Jeong, Haeyoung
AU - Kim, Eun Youn
AU - Kim, Jihyun F.
AU - Lee, Sang Yup
AU - Yoon, Sung Ho
PY - 2017/5/19
Y1 - 2017/5/19
N2 - 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. Highresolution 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 noncoding 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.
AB - 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. Highresolution 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 noncoding 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.
UR - http://www.scopus.com/inward/record.url?scp=85027276390&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85027276390&partnerID=8YFLogxK
U2 - 10.1093/nar/gkx228
DO - 10.1093/nar/gkx228
M3 - Article
C2 - 28379538
AN - SCOPUS:85027276390
VL - 45
SP - 5285
EP - 5293
JO - Nucleic Acids Research
JF - Nucleic Acids Research
SN - 0305-1048
IS - 9
ER -