The potato clock project
Overview:
The Potato Clock Project is funded by an award from the National Science Foundation (NSF-award #1950376: “Cycling below ground: Circadian regulation in wild and domesticated potato“). This is a four year project (May 2020- April 2024) of researchers led by Eva M. Farre (MSU) and with Robin Buell (UGA), Krishnan Arjun (U. of Colorado), Addie Thompson (MSU), David Douches (MSU) and David Stroupe (U. of Utah) as collaborators.
Project Updates and News:
Listen to Eva Farre, Miles Roberts and Kevin Folta discuss about circadian clocks – July 2020
MSU faculty explores factors that make both potatoes and science teachers tick – May 2020
Project Datasets:
- Solanum candolleanum (PI 210044) genome : SpudDB . Short read data in BioProject PRJNA826514.
- Solanum chacoense (M6) genome: SpudDB . Short read data in BioProject PRJNA826516.
- The diel expression data (2 hour resolution) for Solanum candolleanum (PI 210044), Solanum chacoense (M6) and Solanum tuberosum cv. Atlantic can be accessed under the Sequence Read Archive BioProject PRJNA957457 (short day) and BioProject PRJNA1093480 (long day).
- Large datasets from our publication “High resolution diel transcriptomes of autotetraploid potato reveal expression and sequence conservation among rhythmic genes”.
- Wild potato diversity panel sequencing data : The accessions (219) were selected to represent the geographic diversity (latitude and elevation) across and within wild potato species (Clade 4). One clone from each accessions was isolated and sequenced and the reads can be accessed under BioProject PRJNA1416935.
Project Publications:
- Feke A, Farré EM (2025) Early birds and night owls: natural variation of circadian traits in plants. J Exp Bot. 77(8):2142-2155 (doi: 10.1093/jxb/erag013)
- Feke A, Vaillancourt B, Acheson K, Brose J, Hamilton JP, Martin D, Wang YW, Wood JC, Buell CR, Farré EM (2025) High resolution diel transcriptomes of autotetraploid potato reveal expression and sequence conservation among rhythmic genes. BMC Genomics 16;26(1):925. (doi: 10.1186/s12864-025-11945-8)
- Hoopes GM, Zarka D, Feke A, Acheson K, Hamilton JP, Douches D, Buell CR, Farré EM (2022) Keeping time in the dark: potato diel and circadian rhythmic gene expression reveals tissue-specific circadian clocks.(doi/10.1002/pld3.425)