Farre Lab:Research: Difference between revisions
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'''Arabidopsis thaliana''' | '''Arabidopsis thaliana''' | ||
We focus our work on the role of the PSEUDO-RESPONSE REGULATORS (PRR)(Farre and Liu, 2013). These proteins are not only involved in the regulation of the Arabidopsis circadian oscillator (Figure 2) but are also involved in the direct regulation of physiological processes (Huang et al., 2012; Liu et al., 2013; Nakamichi et al., 2012). | |||
[[Image:Clock_2014.jpg | center |600 px| Figure 2]] | |||
'''Figure 2.''' Current status of the Arabidopsis circadian clock (2014) | |||
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*Hastings MH, Reddy AB, Maywood ES. 2003. A clockwork web: circadian timing in brain and periphery, in health and disease. Nature Reviews Neuroscience 4, 649-661. | *Hastings MH, Reddy AB, Maywood ES. 2003. A clockwork web: circadian timing in brain and periphery, in health and disease. Nature Reviews Neuroscience 4, 649-661. | ||
*Hu H, Gao K. 2003. Optimization of growth and fatty acid composition of a unicellular marine picoplankton, Nannochloropsis sp., with enriched carbon sources. Biotechnology Letters 25, 421-425. | *Hu H, Gao K. 2003. Optimization of growth and fatty acid composition of a unicellular marine picoplankton, Nannochloropsis sp., with enriched carbon sources. Biotechnology Letters 25, 421-425. | ||
Huang W, Perez-Garcia P, Pokhilko A, Millar AJ, Antoshechkin I, Riechmann JL, Mas P. 2012. Mapping the core of the Arabidopsis circadian clock defines the network structure of the oscillator. Science 336, 75-79. | *Huang W, Perez-Garcia P, Pokhilko A, Millar AJ, Antoshechkin I, Riechmann JL, Mas P. 2012. Mapping the core of the Arabidopsis circadian clock defines the network structure of the oscillator. Science 336, 75-79. | ||
*Imaizumi T, Kay SA. 2006. Photoperiodic control of flowering: not only by coincidence. Trends in Plant Science 11, 550-558. | *Imaizumi T, Kay SA. 2006. Photoperiodic control of flowering: not only by coincidence. Trends in Plant Science 11, 550-558. | ||
*Jinkerson RE, Radakovits R, Posewitz MC. 2012. Genomic insights from the oleaginous model alga Nannochloropsis gaditana. Bioengineered 4, 1-7. | *Jinkerson RE, Radakovits R, Posewitz MC. 2012. Genomic insights from the oleaginous model alga Nannochloropsis gaditana. Bioengineered 4, 1-7. | ||
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*Nakamichi N, Kiba T, Kamioka M, Suzuki T, Yamashino T, Higashiyama T, Sakakibara H, Mizuno T. 2012. Transcriptional repressor PRR5 directly regulates clock-output pathways. Proceedings of the National Academy of Sciences of the United States of America 109, 17123-17128. | *Nakamichi N, Kiba T, Kamioka M, Suzuki T, Yamashino T, Higashiyama T, Sakakibara H, Mizuno T. 2012. Transcriptional repressor PRR5 directly regulates clock-output pathways. Proceedings of the National Academy of Sciences of the United States of America 109, 17123-17128. | ||
*Ouyang Y, Andersson CR, Kondo T, Golden SS, Johnson CH. 1998. Resonating circadian clocks enhance fitness in cyanobacteria. Proceedings of the National Academy of Sciences of the United States of America 95, 8660-8664. | *Ouyang Y, Andersson CR, Kondo T, Golden SS, Johnson CH. 1998. Resonating circadian clocks enhance fitness in cyanobacteria. Proceedings of the National Academy of Sciences of the United States of America 95, 8660-8664. | ||
Pan K, Qin J, Li S, Dai W, Zhu B, Jin Y, Yu W, Yang G, Li D. 2011. Nuclear monoploidy and asexual propagation of Nannochloropsis oceanica (Eustigmatophyceae) as revealed by its genome sequence. Journal of Phycology 47, 1425-1432. | *Pan K, Qin J, Li S, Dai W, Zhu B, Jin Y, Yu W, Yang G, Li D. 2011. Nuclear monoploidy and asexual propagation of Nannochloropsis oceanica (Eustigmatophyceae) as revealed by its genome sequence. Journal of Phycology 47, 1425-1432. | ||
*Radakovits R, Jinkerson RE, Fuerstenberg SI, Tae H, Settlage RE, Boore JL, Posewitz MC. 2012. Draft genome sequence and genetic transformation of the oleaginous alga Nannochloropis gaditana. Nature Communications 3. | *Radakovits R, Jinkerson RE, Fuerstenberg SI, Tae H, Settlage RE, Boore JL, Posewitz MC. 2012. Draft genome sequence and genetic transformation of the oleaginous alga Nannochloropis gaditana. Nature Communications 3. | ||
*Rodolfi L, Zittelli GC, Bassi N, Padovani G, Biondi N, Bonini G, Tredici MR. 2009. Microalgae for Oil: Strain Selection, Induction of Lipid Synthesis and Outdoor Mass Cultivation in a Low-Cost Photobioreactor. Biotechnology and Bioengineering 102, 100-112. | *Rodolfi L, Zittelli GC, Bassi N, Padovani G, Biondi N, Bonini G, Tredici MR. 2009. Microalgae for Oil: Strain Selection, Induction of Lipid Synthesis and Outdoor Mass Cultivation in a Low-Cost Photobioreactor. Biotechnology and Bioengineering 102, 100-112. |
Revision as of 09:42, 6 May 2014
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Circadian clocks
Circadian systems can be thought of consisting of 3 parts (Figure 1). The imput pathways are involved in the entrainment or reprograming of the central oscillator which is the core of the circadian system. In turn this molecular self-sustained oscillator regulates the different physiological processes by regulating output pathways.
Arabidopsis thaliana We focus our work on the role of the PSEUDO-RESPONSE REGULATORS (PRR)(Farre and Liu, 2013). These proteins are not only involved in the regulation of the Arabidopsis circadian oscillator (Figure 2) but are also involved in the direct regulation of physiological processes (Huang et al., 2012; Liu et al., 2013; Nakamichi et al., 2012).
Figure 2. Current status of the Arabidopsis circadian clock (2014)
Nannochloropsis species are small unicellular alga with a diameter of about 2 μm. Marine Nannochloropsis species are used as a source of fish food and omega-3 fatty acids (Adarme-Vega et al., 2012). Due to their high lipid content, which is particularly elevated under nitrogen deprivation, these species have been considered as a potential source of biofuels (Hu and Gao, 2003; Rodolfi et al., 2009; Van Vooren et al., 2012; Xu et al., 2004). The genomes of two Nannochloropsis species have been recently sequenced (Jinkerson et al., 2012; Pan et al., 2011; Radakovits et al., 2012; Vieler et al., 2012). Both species have a small genome of ~30 Mb, containing ~9,000-12,000 genes, similar to the diatoms Phaeodactylum tricornutum and Thalassiosira pseudonana (Armbrust et al., 2004; Bowler et al., 2008). Current research suggests that Nannochloropsis species are haploid and homologous gene replacement has been recently reported (Kilian et al., 2011; Pan et al., 2011). Cell division and lipid content are strongly diurnally regulated in Nannochloropsis (Fábregas et al., 2002; Sukenik and Carmeli, 1990). We are currently characterizing diel and circadian gene expression in Nannochloropsis oceanica.
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