 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on May 06, 2016 |
| Title |
Transcriptional profiling of triacylglycerol biosynthesis in rhodococci and identification of a key diacylglyceride O-acyltransferase |
| Organism |
Rhodococcus jostii |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Oleaginous microorganisms have considerable potential for biofuel and commodity chemical production. Under nitrogen-limitation, Rhodococcus jostii RHA1 grown on benzoate, an analog of lignin depolymerization products, accumulated triacylglycerols (TAGs) to 55% of its dry weight during transition to stationary phase, with the predominant fatty acids being C16:0 and C17:0. Transcriptomic analyses of RHA1 grown under conditions of N-limitation and N-excess revealed 1,826 dysregulated genes. Genes whose transcripts were more abundant under N-limitation included those involved in ammonium assimilation, benzoate catabolism, fatty acid biosynthesis and the methylmalonyl-CoA pathway. Of the 16 atf genes potentially encoding diacylglycerol O-acyltransferases, atf8 transcripts were the most abundant during N-limitation (~50-fold more abundant than during N-excess). Consistent with Atf8 being a physiological determinant of TAG accumulation, a Δatf8 mutant accumulated 70% less TAG than wild-type RHA1 while atf8 overexpression increased TAG accumulation 20%. Genes encoding type-2 phosphatidic acid phosphatases were not significantly expressed. By contrast, three genes potentially encoding phosphatases of the haloacid dehalogenase superfamily and that cluster with, or are fused with other Kennedy pathway genes were dysregulated. Overall, these findings advance our understanding of TAG metabolism in mycolic acid-containing bacteria and provide a framework to engineer strains for increased TAG production.
|
| |
|
| Overall design |
Transcriptomes of R. jostii RHA1 from nitrogen excess and nitrogen limited cultures were analysed using a Genome Analyzer IIx (Illumina®).
|
| |
|
| Contributor(s) |
Otani H, Seghezzi N, Amara S, Eltis LD |
| Citation(s) |
27126051, 28778885 |
| Submission date |
Jan 24, 2016 |
| Last update date |
Sep 13, 2019 |
| Contact name |
Hiroshi Otani |
| E-mail(s) |
hotani@lbl.gov
|
| Phone |
5104958541
|
| Organization name |
Lawerence Berkeley National Laboratory
|
| Department |
DOE Joint Genome Institute
|
| Street address |
1 Cyclotron Road
|
| City |
Berkeley |
| State/province |
CA |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL21367 |
Illumina Genome Analyzer IIx (Rhodococcus jostii) |
|
| Samples (8)
|
| GSM2045104 |
Nitrogen excess condition, exponential phase 1 |
| GSM2045105 |
Nitrogen excess condition, exponential phase 2 |
| GSM2045106 |
Nitrogen excess condition, stationary phase 1 |
| GSM2045107 |
Nitrogen excess condition, stationary phase 2 |
| GSM2045108 |
Nitrogen limited condition, exponential phase 1 |
| GSM2045109 |
Nitrogen limited condition, exponential phase 2 |
| GSM2045110 |
Nitrogen limited condition, stationary phase 1 |
| GSM2045111 |
Nitrogen limited condition, stationary phase 2 |
|
| Relations |
| BioProject |
PRJNA309609 |
| SRA |
SRP068816 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE77158_RAW.tar |
240.0 Kb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
Less...
More...