David Lowry: Difference between revisions

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[[Image:Mee.jpg|thumb|right|On the Road]]
Michigan State University: Assistant Professor                        2014-Present


<h3>About Me</h3>
California State University, Monterey Bay: Assistant Professor          2014
I am a third year graduate student in the [http://upg.duke.edu/ University Program in Genetics and Genomics], who hails from the redwood empire and wine country of Northern California.  I spent 4.5 years of long latte-drinking nights at UC Berkeley during the exuberant boom and sizzling crash of the dot-com era.  After college, I set out to explore the finer delights of world cultures and wildlife before joining the grind of graduate school.  Alas, my time at [http://www.duke.edu Duke] has been good to me thanks to many fantastic people and my recklessly optimistic leader/advisor, [http://www.biology.duke.edu/willislab/ Dr. Johh Willis]. 


The focus of my research can be catch phrased as the genetics of adaptation and speciation.  In order to address this topic, I have chosen to study how divergent adaptation of the yellow monkey flower (Mimulus guttatus), to the coast versus inland habitat, contributes to reproductive isolation.  I am using a combination of QTL mapping, candidate gene strategies, and microarrays (yes, we will get there) to determine the genetic mechanisms that underlie the divergence of morphological and life-history traits between coast and inland Mimulus.  Further, I have carried out reciprocal transplant experiments and population genetic analysis to demonstrate that coast and inland Mimulus are locally adapted and reproductively isolated.  In the future, I plan on creating near isogenic lines, with QTLs of large effect, for field experiments to test hypotheses of adaptation and ecogeographic reproductive isolation.
The University of Texas at Austin: USDA NIFA Postdoctoral Fellow,     2010-2013


Check out my poster from the genetics of speciation conference: [[:Image:Poster_Speciation.pdf|Poster from Genetics of Speciation Conference]]
Duke University:                         PhD,                        2004-2010


[[Image:Poster.jpg|thumb|right|Poster for Genetics of Speciation Conference]]
The University of California, Berkeley:   BS,                        1997-2001


Also, check out the [[Mimulus Community]].
==Research Interests==


==Bioinformatic Software and Resources==
[[Image:Perdenales.jpg|thumb|left|Switchgrass in its native riparian habitat in central Texas]]
*[http://www.fruitfly.org/annot/apollo/ Apollo]
[[Image:Lowry_field_2.JPG|thumb|right|Field experiment with ''Mimulus guttatus'']]
*[http://globin.cse.psu.edu/html/docs/sim4.html sim4]
*[http://genome.ucsc.edu/ BLAT]
*[http://www.ncbi.nlm.nih.gov/blast/mmtrace.shtml NCBI Trace Archives]
*[http://www.ebi.ac.uk/clustalw/ ClustalW]
*[http://frodo.wi.mit.edu/cgi-bin/primer3/primer3_www.cgi Primer 3]


==Population Genetic Software==
'''The genetics of adaptation and speciation'''
*[http://www2.unil.ch/popgen/softwares/fstat.htm FSTAT]
*[http://www.maizegenetics.net/index.php?page=bioinformatics/tassel/index.html Tassel]
*[http://anthro.unige.ch/arlequin/ Arlequin]
*[http://pritch.bsd.uchicago.edu/structure.html Structure]
*[http://www.rubic.rdg.ac.uk/~mab/home.html Mark Beaumont]
*[http://wbiomed.curtin.edu.au/genepop/ Genepop (web)]
*[http://dyerlab.bio.vcu.edu/wiki/index.php/Software Dyerlab (Population Graphs)]
*[http://phage.sdsu.edu/~jensen/ Isolation by Distance]
*[http://hydrodictyon.eeb.uconn.edu/people/plewis/software.php Genetic Data Analysis]
*[http://www.biology.lsu.edu/general/software.html Software for Populaiton Genetic Analysis]
*[http://www.mas.ncl.ac.uk/~nijw/ Ian Wilson (Batwing)]
*[http://lifesci.rutgers.edu/~heylab/HeylabSoftware.htm Jody Hey (SITES)]
*[http://www.structurama.org/index.html Structurama]
*[http://www.ub.es/dnasp/ DNASP]
*[http://www.cals.ncsu.edu/plantpath/people/faculty/carbone/workbench.html SNAP]


==Field Sites==
Adaptation is the most fundamental way that the environment can change the phenotypes of organisms.  Adaptations can also lead to the formation of reproductive isolating barriers, which are the building blocks of new species.  I am very interested in understanding the genetic underpinnings of reproductive isolation at various stages in the speciation process.


===United States===
Understanding adaptation is also crucial to predicting how organisms will respond to future global change and will help inform management decisions as well as guide future agricultural breeding.
*[http://www.parks.ca.gov/default.asp?page_id=592 Copperopolis]
*[http://www.parks.ca.gov/default.asp?page_id=592 Montana de Oro State Park]
*[http://www.redshift.com/~bigcreek/ Big Creek Reserve]
*[http://www-bml.ucdavis.edu/ Bodega Marine Lab]
*[http://nrs.ucop.edu/Reserves/Angelo/Angelolinkingpage.html Angelo Reserve]
*[http://www.nps.gov/redw/ Redwood National Park]
*[http://www.oregonstateparks.org/park_197.php Saddle Mountain]


===Canada===
'''Landscape evolutionary genomics'''
*[http://www.portrenfrew.com/botbeach.htm Botanical Beach]
*[http://www.pc.gc.ca/pn-np/bc/gwaiihaanas/index_e.asp Gwaii Haanas]
*[http://www.bms.bc.ca/ Bamfield Marine Science Center]
*[http://www.pc.gc.ca/pn-np/bc/pacificrim/index_e.asp Pacific Rim National Park]


==Friends==
One of the core goals of my research program is to understand how the natural landscape molds the genomes of organisms through adaptation.  To that end, I am using a combination of genetic mapping and genome sequencing approaches to identify genes involved with adaptation to the heterogeneity of the natural landscape.  During my dissertation, I focused on how adaptive alleles in ''Mimulus guttatus'' are spread across the landscape and what phenotypic effects they have in different environments across western North America.  Currently, I am developing ''Panicum'' grasses as a model system to understand adaptation along a longitudinal soil moisture cline across Southwestern United States and a latitudinal temperature cline across the Great Plains. Our lab recently [http://www.utexas.edu/news/2012/08/02/biologist-grant-study-potential-biofuel-crops/ received funding from the Department of Energy] to develop ''Panicum hallii'' as a model system for local adaptation and bioenergy research. 


[[Sri Kosuri|Sri Kosuri]]
[[Image:Diversity.JPG|thumb|left|Phenotypic diversity of Switchgrass, ''Panicum virgatum'']]
[[Image:Field_2012.JPG|thumb|right|Field experiment with ''Panicum hallii'']]


==Dispersal in Mimulus==
'''Using evolutionary biology to improve bioenergy crops'''
[[:Image:Vickery_Deer.pdf|By Deer]]


==Quotes==
Civilization is built on a foundation of domesticated grasses.  Without those grasses (corn, wheat, rice, oats, barley, sorghum) there would be no ballet and human beings would never of landed on the moon.  Plant breeders have quietly worked in the shadows to increase the yield of crops and in turn maintain our modern world.
"There is keen delight in the quick experience, of knowing that no harm comes of a wetting at high canon wall, slips up behind the ridge to cross it by some windy broad-leaved hellebore, and beat down the mimulus beside the brook." -Mary Austin
 
Now, there may actually be potential to domesticate a new set of grass species to use to help combat the growing energy problem.  My research is focused understanding the factors involved in local adaptation in the bioenergy crop switchgrass (''Panicum virgatum'').  Loci involved in local adaptation are likely to be of high value to crop breeders interested in improving drought, heat, cold, herbivore, and disease tolerance.
 
==Publications==
 
'''PDFs for publications available through my''' [http://davidbryantlowry.wordpress.com/publications/ '''website''']
 
==Important Things==
 
*[http://davidbryantlowry.wordpress.com/ My website]
 
*[http://lowrylab.wordpress.com/david-lowry-cv/ David Lowry CV]
 
*[http://scholar.google.com/citations?view_op=list_works&hl=en&user=yp5xdBEAAAAJ&gmla=AJsN-F6DFaPZ9A0TNBwOFnsWZf9Y9S7rGntDIzs1ZOqg52GhHzGJ090M-xxUubHEHF3dyXE6XlN-jmJ1uYNJiAULSHsEkKAaqniu606ZwKxaDjIwB3wfiIkspwU-gntSRaYs7bNl5Mmy Google Scholar Citations ]
 
*[https://github.com/davidbryantlowry Programming Scripts on Github]
 
*'''Contact Info:''' You can contact me at davidbryantlowry@gmail.com.
 
*Make sure to check out the [[Mimulus Community]] and the [[Texas Switchgrass Collaborative]].

Latest revision as of 07:10, 16 November 2014

Michigan State University: Assistant Professor 2014-Present

California State University, Monterey Bay: Assistant Professor 2014

The University of Texas at Austin: USDA NIFA Postdoctoral Fellow, 2010-2013

Duke University: PhD, 2004-2010

The University of California, Berkeley: BS, 1997-2001

Research Interests

Switchgrass in its native riparian habitat in central Texas
Field experiment with Mimulus guttatus

The genetics of adaptation and speciation

Adaptation is the most fundamental way that the environment can change the phenotypes of organisms. Adaptations can also lead to the formation of reproductive isolating barriers, which are the building blocks of new species. I am very interested in understanding the genetic underpinnings of reproductive isolation at various stages in the speciation process.

Understanding adaptation is also crucial to predicting how organisms will respond to future global change and will help inform management decisions as well as guide future agricultural breeding.

Landscape evolutionary genomics

One of the core goals of my research program is to understand how the natural landscape molds the genomes of organisms through adaptation. To that end, I am using a combination of genetic mapping and genome sequencing approaches to identify genes involved with adaptation to the heterogeneity of the natural landscape. During my dissertation, I focused on how adaptive alleles in Mimulus guttatus are spread across the landscape and what phenotypic effects they have in different environments across western North America. Currently, I am developing Panicum grasses as a model system to understand adaptation along a longitudinal soil moisture cline across Southwestern United States and a latitudinal temperature cline across the Great Plains. Our lab recently received funding from the Department of Energy to develop Panicum hallii as a model system for local adaptation and bioenergy research.

Phenotypic diversity of Switchgrass, Panicum virgatum
Field experiment with Panicum hallii

Using evolutionary biology to improve bioenergy crops

Civilization is built on a foundation of domesticated grasses. Without those grasses (corn, wheat, rice, oats, barley, sorghum) there would be no ballet and human beings would never of landed on the moon. Plant breeders have quietly worked in the shadows to increase the yield of crops and in turn maintain our modern world.

Now, there may actually be potential to domesticate a new set of grass species to use to help combat the growing energy problem. My research is focused understanding the factors involved in local adaptation in the bioenergy crop switchgrass (Panicum virgatum). Loci involved in local adaptation are likely to be of high value to crop breeders interested in improving drought, heat, cold, herbivore, and disease tolerance.

Publications

PDFs for publications available through my website

Important Things

  • Contact Info: You can contact me at davidbryantlowry@gmail.com.