MarkerMiner 1.0: A New Application for Phylogenetic Marker Development Using Angiosperm Transcriptomes

April 10th, 2015
By Gitzendanner, Matt

Chamala, S., N. García, G. T. Godden, V. Krishnakumar, I. E. Jordon-Thaden, R. D. Smet, W. B. Barbazuk, D. E. Soltis, and P. S. Soltis. 2015. MarkerMiner 1.0: A New Application for Phylogenetic Marker Development Using Angiosperm Transcriptomes. Applications in Plant Sciences 3:1400115. [View article on publisher’s site]

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Charlotte Germain-Aubry presents on Women in Science and Engineering

April 9th, 2015
By Gitzendanner, Matt

Charlotte Germain-Aubrey

iDigBio Post Doc Charlotte Germain-Aubrey recently visited Sacred Heart University to speak on iDigBio’s climate change research as well as to present on challenges facing women in science and engineering. SHU wrote up a great news article on her visit.

Charlotte presented her talk titled “Inspiring Girls in STEM (Science, Technology, Engineering & Mathematics): The Importance of Immersion and Timing” to a group of middle school science teachers.

Heather-Rose Kates’ research featured by VOA

March 11th, 2015
By Gitzendanner, Matt

Graduate student Heather-Rose Kates’ research, funded by a USDA grant she received, has been featured in an article and video produced by Voice of America:

Here’s the article.

Catching up on Awards

March 4th, 2015
By Gitzendanner, Matt

My apologies to all of these great lab members who won awards that have not been posted on the web site! Here’s the ones I dug out going back through my inbox…there may be more, so let me know. It’s great to have so many students being recognized for their great work!

NSF DDIGs:

We had several successful NSF DDIG proposals, congratulations to:

Clayton Visger for the project titled “The evolutionary significance of autopolyploidy in Tolmiea (Saxifragaceae)”!

ABSTRACT

This research will investigate the evolutionary consequences of whole-genome duplication in the flowering plant genus Tolmiea. Duplication occurs when an offspring ends up with two copies of all of the chromosomes of its parents. Genome duplications have occurred frequently within the flowering plants (300,000+ species), and likely contributed to their success. Most agricultural crops are the result of one or more recent duplication events, including wheat, cotton, corn, potato, and sugarcane. Thus, the research will be of broad importance in agriculture as well as the study of biodiversity.

Tolmiea (Saxifragaceae) contains one polyploid, T. menziesii that arose directly from the single diploid in the genus, T. diplomenziesii. Ongoing work found divergence both in abiotic niche preference and physiological water stress responses between diploid and autotetraploid Tolmiea. In concert with other ecophysiological investigations, this research will characterize the role autopolyploidy has played in the divergence of gene expression patterns using a common garden experiment consisting of multiple populations and multiple water-stress treatments. This study will: 1) provide insights into genome-wide patterns of gene expression in a natural autopolyploid compared to its diploid parent, 2) evaluate the variation and responsiveness of gene expression levels to the presence and absence of water-stress, and 3) use synthetic polyploid lines to determine whether these changes are the immediate effect of polyploidy or the result of subsequent evolution. This study will increase our understanding of gene expression changes resulting from autopolyploidy, and will provide valuable information for future breeding management and improvement of autopolyploid crops.

Richie Hodel for the project titled “Comparative phylogeography of three co-distributed Neotropical mangrove species”!

Andy Crowl in Nico’s lab for the project titled “Integrating Biogeography, Cytology, Niche Modeling and Phylogenetics to Understand the Evolutionary History of Endemic Campanula Species in the Mediterranean”!

Various UF Biology Awards:

Service Award: Richie Hodel

Davis Graduate Fellowship in Botany: Rebecca Stubbs

Michael L. May Interdisciplinary Grant: Jacob Landis

Lewis & Varina Vaughn Fellowship in Orchid Biology: Richie Hodel

From way back in October:

Congratulations to Jacob Landis on being named a recipient of the 2014 I-Cubed Graduate Student Mentoring Award!  Jacob does fantastic work mentoring undergrads in research, and he has been very active in developing and implementing modules for high school students and teachers in collaboration with the Center for Precollegiate Education and Training.

Way to go, Jacob!

 

Multiple origins and chromosomal novelty in the allotetraploid Tragopogon castellanus (Asteraceae)

January 9th, 2015
By Gitzendanner, Matt

Mavrodiev, E. V., M. Chester, V. N. Suárez-Santiago, C. J. Visger, R. Rodriguez, A. Susanna, R. M. Baldini, P. S. Soltis, and D. E. Soltis. 2015. Multiple origins and chromosomal novelty in the allotetraploid Tragopogon castellanus (Asteraceae). New Phytol doi: 10.1111/nph.13227 [Link to article on publicher’s site]

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Phylogeny, divergence times, and historical biogeography of the angiosperm family Saxifragaceae

January 9th, 2015
By Gitzendanner, Matt

Deng, J., B. T. Drew, E. V. Mavrodiev, M. A. Gitzendanner, P. S. Soltis, and D. E. Soltis. 2015. Phylogeny, divergence times, and historical biogeography of the angiosperm family Saxifragaceae. Molecular Phylogenetics and Evolution 83:86–98. [Link to article on publisher’s site]

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Phylotranscriptomic analysis of the origin and early diversification of land plants

December 12th, 2014
By Gitzendanner, Matt

Wickett, N. J., S. Mirarab, N. Nguyen, T. Warnow, E. Carpenter, N. Matasci, S. Ayyampalayam, M. S. Barker, J. G. Burleigh, M. A. Gitzendanner, B. R. Ruhfel, E. Wafula, J. P. Der, S. W. Graham, S. Mathews, M. Melkonian, D. E. Soltis, P. S. Soltis, N. W. Miles, C. J. Rothfels, L. Pokorny, A. J. Shaw, L. DeGironimo, D. W. Stevenson, B. Surek, J. C. Villarreal, B. Roure, H. Philippe, C. W. dePamphilis, T. Chen, M. K. Deyholos, R. S. Baucom, T. M. Kutchan, M. M. Augustin, J. Wang, Y. Zhang, Z. Tian, Z. Yan, X. Wu, X. Sun, G. K.-S. Wong, and J. Leebens-Mack. 2014. Phylotranscriptomic analysis of the origin and early diversification of land plants. PNAS 111:E4859–E4868. [Link to article on publisher’s site]

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Data access for the 1,000 Plants (1KP) project

December 12th, 2014
By Gitzendanner, Matt

Matasci, N., L.-H. Hung, Z. Yan, E. J. Carpenter, N. J. Wickett, S. Mirarab, N. Nguyen, T. Warnow, S. Ayyampalayam, M. Barker, J. G. Burleigh, M. A. Gitzendanner, E. Wafula, J. P. Der, C. W. dePamphilis, B. Roure, H. Philippe, B. R. Ruhfel, N. W. Miles, S. W. Graham, S. Mathews, B. Surek, M. Melkonian, D. E. Soltis, P. S. Soltis, C. Rothfels, L. Pokorny, J. A. Shaw, L. DeGironimo, D. W. Stevenson, J. C. Villarreal, T. Chen, T. M. Kutchan, M. Rolf, R. S. Baucom, M. K. Deyholos, R. Samudrala, Z. Tian, X. Wu, X. Sun, Y. Zhang, J. Wang, J. Leebens-Mack, and G. K.-S. Wong. 2014. Data access for the 1,000 Plants (1KP) project. GigaScience 3:17. [Link to article on publisher’s site]

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Between Two Fern Genomes

December 12th, 2014
By Gitzendanner, Matt

Sessa, E. B., J. A. Banks, M. S. Barker, J. P. Der, A. M. Duffy, S. W. Graham, M. Hasebe, J. Langdale, F.-W. Li, D. B. Marchant, K. M. Pryer, C. J. Rothfels, S. J. Roux, M. L. Salmi, E. M. Sigel, D. E. Soltis, P. S. Soltis, D. W. Stevenson, and P. G. Wolf. 2014. Between Two Fern Genomes. GigaScience 3:15. [Link to article on publisher’s site]

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Patterns of chromosomal variation in natural populations of the neoallotetraploid Tragopogon mirus (Asteraceae)

December 12th, 2014
By Gitzendanner, Matt

Chester, M., R. K. Riley, P. S. Soltis, and D. E. Soltis. 2014. Patterns of chromosomal variation in natural populations of the neoallotetraploid Tragopogon mirus (Asteraceae). Heredity, doi: 10.1038/hdy.2014.101. [Link to article on publisher’s site] (more…)

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