User:Lindsay V. Clark
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| + | [[Image:LindsayClarkface2.jpg|thumb|left|Lindsay V. Clark]] | ||
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| + | '''Postdoctoral Research Associate, Plant Population Genetics''' | ||
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| + | '''Energy Biosciences Institute''' | ||
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| + | '''University of Illinois, Urbana-Champaign''' | ||
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== Research and Personal Info == | == Research and Personal Info == | ||
| - | [ | + | I am a postdoc studying the genetic diversity and population structure of ''Miscanthus'', a perennial grass being developed as a bioenergy crop, under [http://cropsci.illinois.edu/directory/esacks Dr. Erik Sacks] at the University of Illinois, Urbana-Champaign. |
| - | I | + | I recently finished my Ph.D. (September 2011) in the [[UC Davis Genetics Graduate Group|Genetics Graduate Group at UC Davis]] as a member of the [[Jasieniuk]] lab in the Department of Plant Sciences. My dissertation research was on the evolution of invasiveness in blackberry (''Rubus''), particularly relating to hybridization and asexual reproduction. I have also written software in R for the analysis of polyploid data. |
I graduated from Dartmouth College in 2004, having majored in Genetics, Cell & Developmental Biology and minored in Chemistry. From June 2002 to June 2004 I did my undergraduate thesis research in [http://www.dartmouth.edu/~tjack/ Thomas Jack's lab], where I worked on developing knockout mutants for a gene family putatively involved in floral development in ''Arabidopsis''. | I graduated from Dartmouth College in 2004, having majored in Genetics, Cell & Developmental Biology and minored in Chemistry. From June 2002 to June 2004 I did my undergraduate thesis research in [http://www.dartmouth.edu/~tjack/ Thomas Jack's lab], where I worked on developing knockout mutants for a gene family putatively involved in floral development in ''Arabidopsis''. | ||
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From November 2004 - July 2006 I worked at the [http://www.ars.usda.gov/Main/site_main.htm?modecode=19-10-10-00 Grape Genetics Research Unit] in Geneva, NY. Under the direction of Amanda Garris, I worked on gene cloning and QTL mapping towards an understanding of light detection and winter dormancy in grapevine. | From November 2004 - July 2006 I worked at the [http://www.ars.usda.gov/Main/site_main.htm?modecode=19-10-10-00 Grape Genetics Research Unit] in Geneva, NY. Under the direction of Amanda Garris, I worked on gene cloning and QTL mapping towards an understanding of light detection and winter dormancy in grapevine. | ||
| - | + | [[Image:plantintube.JPG|200 px|right]] | |
Contact: [[Special:Emailuser/Lindsay_V._Clark|email]] | Contact: [[Special:Emailuser/Lindsay_V._Clark|email]] | ||
| - | [[ | + | [http://www.researcherid.com/rid/B-3165-2008 ResearcherID] |
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| + | [http://ucdavis.academia.edu/LindsayClark Academia.edu profile] | ||
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| + | [[Media:lvclark_CV_2011_December13.pdf|Curriculum Vitae]] | ||
== Publications == | == Publications == | ||
| - | Amanda Garris, Lindsay Clark, Chris Owens, Steven McKay, James Luby, Kathy Mathiason, and Anne Fennell (2009) "Mapping of Photoperiod-Induced Growth Cessation in the Wild Grape Vitis riparia Michx." Journal of the American Society for Horticultural Science | + | * Lindsay V. Clark and Marie Jasieniuk (2011) "POLYSAT: an R package for polyploid microsatellite analysis." Molecular Ecology Resources 11(3):562-566. [[doi:10.1111/j.1755-0998.2011.02985.x]] |
| + | * Lindsay V. Clark and Marie Jasieniuk (2012) "Spontaneous hybrids between native and exotic ''Rubus'' in the Western United States produce offspring both by apomixis and by sexual recombination." Heredity 109(5):320-328. [[doi:10.1038/hdy.2012.45]] | ||
| + | * Lindsay V. Clark, Katherine J. Evans, and Marie Jasieniuk "Origins and distribution of invasive ''Rubus fruticosus'' L. agg. (Rosaceae) clones in the Western United States." Biological Invasions (in press). [[doi:10.1007/s10530-012-0369-8]] | ||
| + | *Amanda Garris, Lindsay Clark, Chris Owens, Steven McKay, James Luby, Kathy Mathiason, and Anne Fennell (2009) [http://journal.ashspublications.org/cgi/content/abstract/134/2/261 "Mapping of Photoperiod-Induced Growth Cessation in the Wild Grape ''Vitis riparia'' Michx."] Journal of the American Society for Horticultural Science 134:261-272. | ||
| - | == | + | == Software == |
| - | + | [[polysat]]: tools for polyploid microsatellite analysis | |
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==Presentations== | ==Presentations== | ||
| - | “Hybridization of native and invasive blackberries in California” at UC Davis Weed Day, July 17, 2008 | + | *"Using molecular markers to investigate invasive ''Rubus'' and genetic diversity of ''Miscanthus''". Invited seminar speaker, Western Kentucky University Biology Department, September 7, 2012. |
| + | *[http://conferences.igb.illinois.edu/panamerican/sites/conferences.igb.illinois.edu.panamerican/files/u4/Clark_%20Bioenergy%20Congress%20presentation%202012.pdf "Genetic diversity and population structure of ''Miscanthus'' in Japan"] at the 3rd Pan American Congress on Plants and Bioenergy, Champaign, Illinois, June 17, 2012. | ||
| + | *"Polyploid data analysis, and how to gently transition from software user to software developer" for UC Davis Ecological Genetics grad course, February 28, 2011 [[Media:LVC_PHR242_110228.pdf | PDF]] | ||
| + | *“Hybridization of native and invasive blackberries in California” at UC Davis Weed Day, July 17, 2008. | ||
==Posters== | ==Posters== | ||
| - | “Hybridization between invasive and native blackberries (Rubus) in California” at California Invasive Plant Council Symposium, October 2-4, 2008. | + | *[http://www.intl-pag.org/19/abstracts/P03b_PAGXIX_149.html "Microsatellites distinguish sexual vs. apomictic reproduction in spontaneous ''Rubus'' hybrids"] at Plant and Animal Genome XIX, January 15-19, 2011. [[Media:LVCpag2011.pdf | PDF]] |
| + | *[http://www.intl-pag.org/18/abstracts/P03a_PAGXVIII_125.html "Hybridization Between Native And Introduced ''Rubus'' In California And The Pacific Northwest"] at Plant and Animal Genome XVIII, January 9-13, 2010. [[Media:LVCpag2010.pdf | PDF]] | ||
| + | *[http://www.cal-ipc.org/symposia/archive/pdf/2008/posterClark.pdf “Hybridization between invasive and native blackberries (''Rubus'') in California”] at California Invasive Plant Council Symposium, October 2-4, 2008. | ||
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| + | ==Awards== | ||
| + | *Plant Sciences Departmental Research Assistantship | ||
| + | *Jastro-Shields Research Grant | ||
| + | *Department of Plant Sciences Graduate Student Travel Award | ||
| + | *California Weed Science Society Scholarship | ||
==Teaching experience== | ==Teaching experience== | ||
| + | *Associate Instructor, Plant Genetics and Biotechnology Laboratory, UC Davis Department of Plant Sciences, Summer 2009 | ||
| + | *Guest lecturer, Ecological Genetics, UC Davis Ecology Graduate Group, Winter 2011 | ||
| + | *Teaching assistant, Principles of Genetics Laboratory, UC Davis Department of Molecular and Cellular Biology, Winter 2010 | ||
| + | *Teaching assistant, Genes and Gene Expression, UC Davis Department of Molecular and Cellular Biology, Fall 2009, Winter 2011 | ||
*Teaching assistant, Human Heredity, UC Davis Department of Molecular and Cellular Biology, Spring 2007, Spring 2009 | *Teaching assistant, Human Heredity, UC Davis Department of Molecular and Cellular Biology, Spring 2007, Spring 2009 | ||
*Teaching assistant, Plant Genetics and Biotechnology Laboratory, UC Davis Department of Plant Sciences, Winter 2009 | *Teaching assistant, Plant Genetics and Biotechnology Laboratory, UC Davis Department of Plant Sciences, Winter 2009 | ||
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==Protocols== | ==Protocols== | ||
| - | [[Jasieniuk:Converting_codominant_to_dominant_data]] | + | *[[Sacks:RAD-seq]] |
| + | *[[Jasieniuk:Converting_codominant_to_dominant_data]] | ||
| + | *[[Jasieniuk:Implementation_of_a_method_to_calculate_microsatellite_genotype_distance_in_polyploids]] | ||
Revision as of 14:40, 27 November 2012
Postdoctoral Research Associate, Plant Population Genetics
Energy Biosciences Institute
University of Illinois, Urbana-Champaign
Contents |
Research and Personal Info
I am a postdoc studying the genetic diversity and population structure of Miscanthus, a perennial grass being developed as a bioenergy crop, under Dr. Erik Sacks at the University of Illinois, Urbana-Champaign.
I recently finished my Ph.D. (September 2011) in the Genetics Graduate Group at UC Davis as a member of the Jasieniuk lab in the Department of Plant Sciences. My dissertation research was on the evolution of invasiveness in blackberry (Rubus), particularly relating to hybridization and asexual reproduction. I have also written software in R for the analysis of polyploid data.
I graduated from Dartmouth College in 2004, having majored in Genetics, Cell & Developmental Biology and minored in Chemistry. From June 2002 to June 2004 I did my undergraduate thesis research in Thomas Jack's lab, where I worked on developing knockout mutants for a gene family putatively involved in floral development in Arabidopsis.
From November 2004 - July 2006 I worked at the Grape Genetics Research Unit in Geneva, NY. Under the direction of Amanda Garris, I worked on gene cloning and QTL mapping towards an understanding of light detection and winter dormancy in grapevine.
Contact: email
Publications
- Lindsay V. Clark and Marie Jasieniuk (2011) "POLYSAT: an R package for polyploid microsatellite analysis." Molecular Ecology Resources 11(3):562-566. doi:10.1111/j.1755-0998.2011.02985.x
- Lindsay V. Clark and Marie Jasieniuk (2012) "Spontaneous hybrids between native and exotic Rubus in the Western United States produce offspring both by apomixis and by sexual recombination." Heredity 109(5):320-328. doi:10.1038/hdy.2012.45
- Lindsay V. Clark, Katherine J. Evans, and Marie Jasieniuk "Origins and distribution of invasive Rubus fruticosus L. agg. (Rosaceae) clones in the Western United States." Biological Invasions (in press). doi:10.1007/s10530-012-0369-8
- Amanda Garris, Lindsay Clark, Chris Owens, Steven McKay, James Luby, Kathy Mathiason, and Anne Fennell (2009) "Mapping of Photoperiod-Induced Growth Cessation in the Wild Grape Vitis riparia Michx." Journal of the American Society for Horticultural Science 134:261-272.
Software
polysat: tools for polyploid microsatellite analysis
Presentations
- "Using molecular markers to investigate invasive Rubus and genetic diversity of Miscanthus". Invited seminar speaker, Western Kentucky University Biology Department, September 7, 2012.
- "Genetic diversity and population structure of Miscanthus in Japan" at the 3rd Pan American Congress on Plants and Bioenergy, Champaign, Illinois, June 17, 2012.
- "Polyploid data analysis, and how to gently transition from software user to software developer" for UC Davis Ecological Genetics grad course, February 28, 2011 PDF
- “Hybridization of native and invasive blackberries in California” at UC Davis Weed Day, July 17, 2008.
Posters
- "Microsatellites distinguish sexual vs. apomictic reproduction in spontaneous Rubus hybrids" at Plant and Animal Genome XIX, January 15-19, 2011. PDF
- "Hybridization Between Native And Introduced Rubus In California And The Pacific Northwest" at Plant and Animal Genome XVIII, January 9-13, 2010. PDF
- “Hybridization between invasive and native blackberries (Rubus) in California” at California Invasive Plant Council Symposium, October 2-4, 2008.
Awards
- Plant Sciences Departmental Research Assistantship
- Jastro-Shields Research Grant
- Department of Plant Sciences Graduate Student Travel Award
- California Weed Science Society Scholarship
Teaching experience
- Associate Instructor, Plant Genetics and Biotechnology Laboratory, UC Davis Department of Plant Sciences, Summer 2009
- Guest lecturer, Ecological Genetics, UC Davis Ecology Graduate Group, Winter 2011
- Teaching assistant, Principles of Genetics Laboratory, UC Davis Department of Molecular and Cellular Biology, Winter 2010
- Teaching assistant, Genes and Gene Expression, UC Davis Department of Molecular and Cellular Biology, Fall 2009, Winter 2011
- Teaching assistant, Human Heredity, UC Davis Department of Molecular and Cellular Biology, Spring 2007, Spring 2009
- Teaching assistant, Plant Genetics and Biotechnology Laboratory, UC Davis Department of Plant Sciences, Winter 2009
- Undergraduate teaching assistant, Molecular Biology Lab, Dartmouth College Department of Biological Sciences, Summer 2003
