User:Lindsay V. Clark

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[[Image:LindsayClarkface.jpg|thumb|left|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'''
== Research and Personal Info ==
== Research and Personal Info ==
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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 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.
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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 some software in R for the analysis of polyploid data.
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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.
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[[Image:Prickleyfoe.JPG|400 px|right|Surrounded by my prickly nemesis.]]
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[[Image:plantintube.JPG|200 px|right]]
Contact: [[Special:Emailuser/Lindsay_V._Clark|email]]
Contact: [[Special:Emailuser/Lindsay_V._Clark|email]]
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== Publications ==
== Publications ==
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* Lindsay V. Clark and Marie Jasieniuk (2011) "POLYSAT: an R package for polyploid microsatellite analysis."  Molecular Ecology Resources 11(3):562-566.  DOI: [[doi:10.1111/j.1755-0998.2011.02985.x | 10.1111/j.1755-0998.2011.02985.x]]
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* 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]]
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* Lindsay V. Clark and Marie Jasieniuk "Spontaneous hybrids between native and exotic ''Rubus'' in the Western United States produce offspring both by apomixis and by sexual recombination."  Heredity (accepted).
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* 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]]
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* 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.
*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 ==
== Software ==
[[polysat]]: tools for polyploid microsatellite analysis
[[polysat]]: tools for polyploid microsatellite analysis
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==Awards==
 
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*Plant Sciences Departmental Research Assistantship
 
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*Jastro-Shields Research Grant
 
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*Department of Plant Sciences Graduate Student Travel Award
 
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*California Weed Science Society Scholarship
 
==Presentations==
==Presentations==
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*"Using molecular markers to investigate invasive ''Rubus'' and genetic diversity of ''Miscanthus''".  Invited seminar speaker, Western Kentucky University Biology Department, September 7, 2012.
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*[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]]
*"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]]
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*“Hybridization of native and invasive blackberries in California” at UC Davis Weed Day, July 17, 2008
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*“Hybridization of native and invasive blackberries in California” at UC Davis Weed Day, July 17, 2008.
==Posters==
==Posters==
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*[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.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.
*[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==
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*Plant Sciences Departmental Research Assistantship
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*Jastro-Shields Research Grant
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*Department of Plant Sciences Graduate Student Travel Award
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*California Weed Science Society Scholarship
==Teaching experience==
==Teaching experience==
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==Protocols==
==Protocols==
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*[[Sacks:RAD-seq]]
*[[Jasieniuk:Converting_codominant_to_dominant_data]]
*[[Jasieniuk:Converting_codominant_to_dominant_data]]
*[[Jasieniuk:Implementation_of_a_method_to_calculate_microsatellite_genotype_distance_in_polyploids]]
*[[Jasieniuk:Implementation_of_a_method_to_calculate_microsatellite_genotype_distance_in_polyploids]]

Revision as of 13:40, 27 November 2012

Lindsay V. Clark
Lindsay V. Clark

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

ResearcherID

Academia.edu profile

Curriculum Vitae

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

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

Protocols

Personal tools