Bird Study Highlighted in Nature

Jeremy Beaulieu

NIMBioS postdoctoral fellow Jeremy Beaulieu’s recent work in a study of evolution in pigeon and doves garnered a mention in Nature last week.

“Behavioural changes and the adaptive diversification of pigeons and doves,” published in Proceedings of the Royal Society B, posits that changes in behavior can cause changes in the physical shape of pigeons and doves.

As fourth author on the paper, Beaulieu lent his statistical expertise to the study, which analyzes the links between changes in behavior and physical characteristics in 156 species of dove and pigeon. The models found that when some birds changed from terrestrial to arboreal foraging behavior,  this hastened the evolution of shorter tarsi and longer tails.

At NIMBioS, Beaulieu, who recently completed his Ph.D.  in ecology and evolutionary biology at Yale University, is developing a new set of ancestral state reconstruction methods, which make more realistic assumptions about how characters evolve across large phylogenies.

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Happy Birthday, Darwin! NIMBioS Celebrates Evolution Science

You never know who you might run into when visiting NIMBioS ... NIMBioS Working Group Biotic Interactions pose with Wallace and Darwin on Market Square in downtown Knoxville, TN. The group met for the first time last week.

You never know who you might run into when visiting NIMBioS! NIMBioS Working on Group Biotic Interactions pose with puppets Wallace and Darwin on Market Square in downtown Knoxville, TN. The puppets were part of the University of Tennessee’s Darwin Day activities.

Around the world people are celebrating Darwin’s birthday this week and the science of evolution, and at the University of Tennessee, NIMBioS has been joining in the fun. Darwin Day Tennessee, a campus organization run by students in the Ecology and Evolutionary Biology (EEB) Department planned a series of events, co-sponsored by NIMBioS.  Highlights included a featured talk by Nobel Peace Prize winner Camille Parmesan and a bassoon sextet concert featuring a composition about Darwin’s voyage.

The week kicked off with a Teaching Evolution Workshop, organized by Sharon Clemmensen, graduate student in EEB; Kelly Sturner, NIMBioS Education & Outreach Coordinator; and Beth Adler, science teacher at Oak Ridge High School. About a dozen area middle and high school science teachers attended a night of sharing science curriculum and discussing current issues in evolution education in Tennessee.

Sharon Clemmenson, UTK graduate student in Ecology & Evolutionary Biology, welcomes teachers to the Teaching Evolution Workshop

Sharon Clemmensen, UTK graduate student in Ecology & Evolutionary Biology, welcomes teachers to the Teaching Evolution Workshop

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New Research Opportunities for Grad Students at NIMBioS

grads_webversion (small)NIMBioS is excited to unveil its newest research and educational opportunity: the Visiting Graduate Student Fellowship. The fellowship supports visits for up to several months and is designed to facilitate graduate student training while fostering research at the interface of mathematics and biology.

Graduate students at the beginning stages of linking theory and data are strongly encouraged to apply. Office space and a workstation with access to all NIMBioS computational resources will be provided. Financial support for travel and housing expenses as well as a per diem to cover other incidental expenses (e.g. meals) will also be provided.

“NIMBioS is excited to launch the new fellowship, which allows graduate students to extend their learning and research through short-term residencies of several weeks or months at a national institute. In addition to interacting with NIMBioS senior personnel, postdoctoral fellows and other visiting scientists, participating students will be encouraged to engage in numerous NIMBioS-related activities during their stay. We hope to provide participants with a rich, productive environment from which to learn,” said Alison Buchan, NIMBioS associate director for graduate education and UTK associate professor of microbiology.

Applications are accepted and considered year-round. Notifications will typically be made within two months of application receipt. For more information about how to apply, click here.

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The Sound of Fear, Right at Your Desktop!

Dr. Dan Blumstein from UCLA's Ecology & Evolutionary Biology, discusses the sound of marmot fear, mathetically of course.

Dr. Dan Blumstein from UCLA’s Ecology & Evolutionary Biology discusses the sound of marmot fear, mathematically of course.

We are pleased to begin offering the audio and video recording of NIMBioS’ Interdisciplinary Seminars, beginning with Dan Blumstein’s talk about marmot vocalizations. If you missed “The sound of fear: A journey from marmot meadows to Hollywood” on Jan. 17, which was somewhat disrupted by the freak Knoxville snowstorm that afternoon, it can be viewed in its entirety on NIMBioS’ YouTube channel here.

More details about the seminar, including the abstract, can be found here.

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NIMBioS Postdoc’s Innovative Modeling Wins First Prize

Jiang JiangNIMBioS Postdoctoral Fellow

Jiang Jiang
NIMBioS Postdoctoral Fellow

Congratulations to NIMBioS Postdoctoral Fellow Jiang Jiang for winning first prize in the MCED Award for Innovative Contributions to Ecological Modelling competition for his mathematical model used to understand coastal vegetation changes in storm surges.

MCED, which stands for Modelling Complex Ecological Dynamics, is a textbook presenting an overview in approaches and applications in ecological modeling. The textbook editors organize the annual award as a part of the Ecological Society of Germany, Austria and Switzerland (GfÖ)  awards. The intention of the MCED award, which is given to young modelers who have finished their degree within the last three years, is to foster the development and application of modern ecological modeling methods that can help to expand the understanding of complex ecological dynamics.

According to the MCED web site, the competition drew “a high number of excellent applications from all from over the world. The jury consisting of the book editors, representatives of the Young Modellers and the President of the Ecological Society of Germany, Austria and Switzerland (GfÖ)  had a hard time evaluating the applications according to novelty of the approach, contribution to ecology and ecological theory and bridging the gap between science and application.”

For Jiang’s winning project, “Modelling the emergence of self-stabilising sharp boundaries in ecotones of coastal marshland communities,” Jiang developed a model that coupled vegetation dynamics with hydrology and salinity to study factors that might affect vegetation in low-lying coastal areas.

Work related to his award-winning entry has appeared in two of Jiang’s published papers —

  • Jiang J, DeAngelis DL, Smith TJ, Teh SY, Koh HL. 2012.  Spatial pattern formation of coastal vegetation in response to hydrodynamics of soil pore water salinity:  A model study. Landscape Ecology 27:109-119. [Online]
  • Jiang J, Gao D, DeAngelis DL. 2012. Towards a theory of ecotone resilience:  Coastal vegetation on a salinity gradient.  Theoretical Population Biology 82:29-37. [Online]

 

 

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New K-12 Forestry Math Activities for Biology in a Box

Photo of “Kids in Trees” by Eric Schumuttenmaer via Flickr

A newly revised activity book with K-12 math activities for the forestry-themed Biology in a Box is now available on the NIMBioS web site. NIMBioS’ Education and Outreach team collaborated with the University of Tennessee’s Biology in a Box program to revise the 10 units of the Biology in a Box curriculum enrichment program with additional activities emphasizing quantitative skills. The latest effort, Box 9: Forestry, introduces many ways to measure and quantify trees and forests including diameter at breast height, basal area, stand density, and using a clinometer and trigonometry to measure tree height. Former NIMBioS postdoctoral fellow Emily Moran contributed to the revisions.

The effort to add mathematics to the Biology in a Box program is particularly relevant in light of the Next Generation Science Standards initiative, which promises to promote more connections between math and science in state K-12 curriculum standards. These new science standards, slated to come out in March 2013, will be based largely on a National Research Council’s A Framework for K-12 Science Education. The NRC report calls for standards that emphasize scientific and engineering practice skills at every grade level, and notably at least three of the eight skills that  the report defined have mathematical implications — developing and using models, analyzing and interpreting data, using mathematics and computational thinking. The activities found in the revised Biology in a Box could be very helpful to teachers looking to add more quantitative practices to science lessons. In addition, the activities could add value to math class, giving real-world relevancy to math concepts.

Biology in a Box sets are currently in more than 90 school systems in the state of Tennessee, and also in a few surrounding states. “Box keepers” at each school system loan out the units to teachers. Box keepers can request the revised version of the box from Production Manager J.R. Jones at jjone110@utk.edu. If Biology in a Box is not available at your school, you can still download the activity booklets for free as long as they are used with attribution and not for profit. More information about the Biology in a Box program can be found at their website.

Improvements continue for Biology in a Box. Revisions on the final existing unit Box 10: Behavior are nearly complete. A brand new box on biomechanics, which includes elements of engineering, is nearly ready to launch, and another new box, “Cells and Cell Processes,” is currently under development.

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New Web Interface for Species Distribution Modeling Unveiled

The enhanced species distribution modeling web interface

With the help of NIMBioS, UT’s Remote Data Analysis and Visualization Center (RDAV) has improved the efficiency and usability of the web interface used for species distribution modeling.

Using the Nautilus supercomputer managed by the National Institute for Computational Sciences and scaling the software MaxEnt, the RDAV team created models using the All Taxa Biodiversity Inventory (ATBI) from the Great Smoky Mountains National Park. The ATBI is an extensive data set containing 8,000 species.

With the enhanced web interface, researchers can now interact with sophisticated data about locations and relationships of life species across geographical areas. Enhancements include a streamlined design, a more robust set of tools for analysis of data on species occurrences, and a feature that will facilitate collaboration.

Former NIMBioS postdoctoral fellow Will Godsoe was involved in the project, performing species distribution modeling using the ATBI.

You can read more about the newly enhanced web interface at the RDAV website here.

To visit the enhanced interface, click here.

 

 

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Undergrads Present Research at Fourth Annual Conference

More than 100 students from 44 different institutions in 19 U.S. states, Washington D.C., and two Canadian provinces converged on Knoxville on Nov. 17-18 to present their research at the fourth annual Undergraduate Research Conference at the Interface of Mathematics and Biology, hosted by NIMBioS.

Keynote speaker was Dr. Christine Heitsch, an associate professor in mathematical biology at Georgia Tech and former NIMBioS advisory board member, who spoke about the combinatorics of RNA viruses.

A lively stream of “tweets” took place on Twitter with the hashtag #urc12. All tweets from the conference are curated on NIMBioS’ Storify page. A full set of photos from the conference can be viewed here.

 

 

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Triangle Fun: NIMBioS Assists With Gadget Girls

NIMBioS Education and Outreach Coordinator Kelly Sturner (far left) and postdoctoral fellow Maud Lélu (far right) help the “Gadget Girls.”

Fiber optics, plant tissue science, solar energy, and of course, mathematics were among the topics explored by middle school girls on Saturday as a part of the second annual “Gadget Girl Adventures in STEM” program held at the University of Tennessee.

NIMBioS postdoc Julia Earl assists.

Success!

At NIMBioS, the girls built colorful three-dimensional solids using plastic triangles while learning the math behind the variety of shapes that are possible. They were also challenged to learn the mathematical concepts associated with building tetrahedrons using origami paper.

Helping with the NIMBioS activity were NIMBioS Associate Director for Education and Outreach Suzanne Lenhart; NIMBioS Education and Outreach Coordinator Kelly Sturner; NIMBioS Evaluation Manager Pam Bishop; NIMBioS postdocs J.J. Chai, Julia Earl and Maud Lélu; UT math graduate student Ashley Rand; and Judy Day and Angela Reynolds, members of the NIMBioS Working Group on Modeling Anthrax Exposure.

The program was sponsored by the Girl Scout Council of the Southern Appalachians (GSCSA) in collaboration with UT Knoxville. About 60 girls from East Tennessee schools participated. NIMBioS also hosted activities last year.

The full set of Gadget Girls’ photos can be found on NIMBioS’ Flickr page.

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NIMBioS Inspires Science Rap on New EP

A new branch of the hip-hop family tree has emerged with the release of Baba Brinkman’s new Infomatic EP, which takes its inspiration from Brinkman’s 2012 songwriting residency at NIMBioS.

The Canadian rap artist, who spent April and May as Songwriter-in-Residence at NIMBioS, describes the new EP as “a scientifically literate collection of upbeat hip-hop tracks that explore the shifting role of scientific knowledge in modern society and human relationships.”

Tracks on the EP include Mr. Infomatic, Mad Scientist (Talkin’ Nerdy), Get It From Reading, Climate Skeptic, and Naturalizm (Featuring Syqnys). The EP is available for downloading on iTunes and at http://bababrinkman.bandcamp.com/album/the-infomatic-ep

The tracks were produced by British DJ Jamie Simmons, who performed with Brinkman at the University of Tennessee during Brinkman’s residency.

Brinkman is best known for his award-winning shows The Rap Canterbury Tales and The Rap Guide to Evolution, which interpret the works of Chaucer and Darwin for a modern audience. In May, Brinkman was nominated for a Drama Desk Award for Outstanding Solo Performer for The Rap Guide to Evolution.

More information about the NIMBioS Songwriter-in-Residence Program can be found at https://legacy.nimbios.org/songwriter

More information about Brinkman can be found at http://www.bababrinkman.com/

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