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==Research==
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The Comai Lab is in the Department of Plant Biology and the UC Davis Genome Center. We study how  chromosome number, type, and hybridization affect gene regulation, development and genome evolution. Our model systems are Arabidopsis thaliana, rice, poplar and tomato. With collaborators, we are continuing the work of our colleague Simon Chan investigating the role of Centromeric Histone 3 in centromere function. We are developing improved methods for TILLING to efficiently discover mutations in plant genes. Click on the research links below to find out more.
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[[POLYPLOIDY|Polyploidy]], [[Heterosis]], [[Centromeres]], and [[TILLING]]
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==Publications==
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[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=search&db=PubMed&term=Comai+L%5BAU%5D+(plant+OR+TILLING) Pubmed report]
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==News==
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===Recently published or in press===
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|Helen Tsai and colleagues demonstrate that treating Arabidopsis thaliana Col-0 autotetraploid with EMS results in high density mutations. A 500-individual population allows searches of KOs with an efficiency comparable to that of very large tagging populations. The paper can be accessed freely in [http://www.plantphysiol.org/content/early/2013/02/15/pp.112.213256.full.pdf+html Plant Physiology]. A copy of CAMBa2.0 can be downloaded [http://bioshare.bioinformatics.ucdavis.edu/Data/g5ubf7jpsn/CAMBa2.0.zip here].
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|Jennifer Monson-Miller et al. describe the Comai lab method for reduced complexity sequencing, called RESCAN. In collaboration with the Tai lab they demonstrate its use for mutation discovery in rice (BMC Genomics 2012, 13:72 [http://www.biomedcentral.com/1471-2164/13/72/abstract link to journal]). In collaboration with the Maloof and Chan labs the method was used for ultradense mapping of RIL lines made by dihaploid induction [http://www.pnas.org/content/109/11/4227.full?sid=634c4a17-db91-4faf-8039-a39bf008db2b Seymour et al., PNAS].
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|Why do certain plant varieties hybridize more easily with other species than others? Diana Burkart-Waco, Caroline Josefsson, et al. describe the mapping of quantitative trait loci determining the differential response to interspecific hybridization in Arabidopsis thaliana. The work, revealing a network of interacting loci, can be accessed freely in [http://www.plantphysiol.org/content/early/2011/12/01/pp.111.188706.long Plant Physiology].
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===TILLING workshops===
 
A [http://tilling.ucdavis.edu/index.php/TILLING_workshop TILLING training workshop] was held Aug 24 and 25 2009, Aug 23 and 24 2010, and August 22 and 23 2011. There is no workshop planned for 2013. We may resume our free workshop program if funding allows. Future workshop might include RESCAN and mutation discovery by exome capture.
 
 
===Video tutorials on analysis of high throughput sequence data and on multiplexing===
 
 
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|[[image:barcoded_adapter.png‎|300px|The Y adapter for Illumina sequencing]]
 
|We offer [http://comailab.genomecenter.ucdavis.edu/index.php/Video instructional video] tutorials on manipulating and analyzing datasets from next-generation sequencing, as well as on sample multiplexing.  The target audience is biologists who might use these techniques but would like to perform some of the analysis themselves.
 
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===Funding sources===
 
 
Our research is funded by the National Science Foundation Plant Genome grant DBI-0733857 (Functional Genomics of Polyploids), NSF Plant Genome award DBI-0822383, (TRPGR: Efficient identification of induced mutations in crop species by ultra-high-throughput DNA sequencing), and National Institutes of Health R01 GM076103-01A1 (Dosage dependent regulation in hybridization) to LC.
 

Latest revision as of 01:59, 1 April 2019

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