From Comaiwiki

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|Why do certain plant varieties hybride 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].
 
|Why do certain plant varieties hybride 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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Revision as of 11:41, 11 January 2012

Flowers.jpg

Contents

Research

The Comai Lab is in the Department of Plant Biology and the UC Davis Genome Center. One part of the laboratory studies how chromosome number and type affect gene regulation, development and genome evolution. Our model systems are Arabidopsis thaliana and rice. The other laboratory part is adapting next generation sequencing to a functional discovery tool called TILLING. We are developing methods and services to efficiently find mutations in genes of interest in rice, wheat, tomato, and tetraploid Arabidopsis. Click on the research links below to find out more.

Polyploidy, Heterosis, and TILLING

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Publications

Pubmed report

News

Recently published or in press

Circos fee.png Why do certain plant varieties hybride 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 Plant Physiology.
Samba.png Victor Missirian et al. describe a efficient computational method, called CAMBa, to identify mutants from pooled resequencing data. The paper explains the bioinformatics component of our TILLING-by-sequencing method and appeared in BMC Bioinformatics. More on the TILLING_by_Sequencing page.
3d.png In a paper in Plant Physiology, Helen Tsai et al. describe the use of Illumina sequencing for TILLING populations of rice and wheat. The image above illustrates a tri-dimensional pooling strategy to identify mutant individuals for genes of interest in large populations. Methods and data from this work are available on the TILLING_by_Sequencing page.

TILLING workshops

A TILLING training workshop was held Aug 24 and 25 2009, and Aug 23 and 24 2010 in Davis. An additional one is planned for August 2011.

Video tutorials on analysis of high throughput sequence data and on multiplexing

The Y adapter for Illumina sequencing We offer 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.

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.

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