blake hovde university of washington, department of genome sciences, biology
DESCRIPTION
Genomics of the haptophyte Chrysochromulina tobin : Cell Division, Lipid Production and Storage in an Oil Producing Alga. Blake Hovde University of Washington, Department of Genome Sciences, Biology Rose Ann Cattolico Lab. Do we need to study new algal species ?. The benefit is two fold: - PowerPoint PPT PresentationTRANSCRIPT
Genomics of the haptophyte Chrysochromulina tobin: Cell Division, Lipid Production and
Storage in an Oil Producing Alga
Blake Hovde
University of Washington, Department of Genome Sciences, Biology
Rose Ann Cattolico Lab
Do we need to study new algal species?
The benefit is two fold: New models to study desirable algal traits
-biological/metabolic
More desirable traits available-better starting point for manipulation
Sequencing projects on algal species are increasing in number
Keeling et al. MMETSP project PLOS Bio 2014
Chrysochromulina tobin as a model organism
Sexual Reproduction?
--Likely, and is ideal for genetics
Lipid Accumulation
Lipid Depletion
24 hours:
12 hours dark / 12 hours light
Isolation of C. tobin
Environmental Sample Antibiotic
treatments
Reiterative flow cytometry
Sequencing
Cleaned Culture
Lab conditions
Sequencing and gene annotation pipeline
Blast2GO
•Genomes:• Mitochondrial• Chloroplast• Nuclear
•Transcriptomes:• 7 time points over
photoperiod•Proteomes• Whole cell• Lipid body isolation
KEGG database
“Omes” competed:
High throughput sequencing (Illumina and 454)
Assembly
Hovde et. al. (BMC Genomics 2014), Hovde et. al. (in final preparation), Brunelle et. al. (in prep)
Dependable fatty acid content of C. tobin
X ug/L production
Proposed standard for fatty acid content
Bigelow et. al. (Algal Research, 2013)
• DHA• EPA• Stearic• Palmitic• Myristic• …etc…
Total lipid ~17mg/L
Mixotrophy and defense systems for algal biomass production
Genomic identification of multiple defense/mixotrophic mechanisms Useful for large pond cultures
Potential for engineering/culture maintenance
Hovde et. al. (in final preparation)
Fatty acid productivity is increased when grown w/ bacteria
New algal model species are easier and cheaper than ever before to develop
Flow cytometery, antibiotics
‘Omics’ costs / informatics
New species can provide new metabolic pathway insights
Co-culturing provides opportunities for higher productivity in C. tobin
New species provide mor”e parts” for engineering efforts Current generation genome editing tools are powerful
Conclusions
Acknowledgements
Monnat Lab (UW)• Ray Monnat• Ryan Sinit
Cattolico Lab (UW)• Rose Ann Cattolico• Chloe Deodato• Heather Huntsperger• Will Yost• John Patterson• Stephanie Brunelle• Bill Hardin
Los Alamos Natl Lab
• Shannon Johnson• Shawn Starkenburg
Rocap Lab (UW)• Gabrielle Rocap• Cedar McKay
Funding and support:
Pacific Northwest Natl. Lab
• Mary Lipton