Award Abstract # 0948652
Geoinformatics: Collaborative Research: Neotoma Paleoecology Database, Pliocene-Quaternary

NSF Org: EAR
Division Of Earth Sciences
Recipient: THE PENNSYLVANIA STATE UNIVERSITY
Initial Amendment Date: August 31, 2010
Latest Amendment Date: July 28, 2017
Award Number: 0948652
Award Instrument: Continuing Grant
Program Manager: Dena Smith-Nufio
dmsmith@nsf.gov
 (703)292-7431
EAR
 Division Of Earth Sciences
GEO
 Directorate for Geosciences
Start Date: September 1, 2010
End Date: August 31, 2018 (Estimated)
Total Intended Award Amount: $1,486,857.00
Total Awarded Amount to Date: $1,486,857.00
Funds Obligated to Date: FY 2010 = $350,262.00
FY 2011 = $285,465.00

FY 2012 = $287,370.00

FY 2013 = $313,393.00

FY 2014 = $250,367.00
History of Investigator:
  • Russell Graham (Principal Investigator)
  • John Williams (Co-Principal Investigator)
  • Robert Booth (Co-Principal Investigator)
  • Allan Ashworth (Co-Principal Investigator)
  • Douglas Miller (Co-Principal Investigator)
Recipient Sponsored Research Office: Pennsylvania State Univ University Park
201 OLD MAIN
UNIVERSITY PARK
PA  US  16802-1503
(814)865-1372
Sponsor Congressional District: 15
Primary Place of Performance: Pennsylvania State Univ University Park
201 OLD MAIN
UNIVERSITY PARK
PA  US  16802-1503
Primary Place of Performance
Congressional District:
15
Unique Entity Identifier (UEI): NPM2J7MSCF61
Parent UEI:
NSF Program(s): GEOINFORMATICS
Primary Program Source: 01001314DB NSF RESEARCH & RELATED ACTIVIT
01001415DB NSF RESEARCH & RELATED ACTIVIT

01001112DB NSF RESEARCH & RELATED ACTIVIT

01001213DB NSF RESEARCH & RELATED ACTIVIT

01001011DB NSF RESEARCH & RELATED ACTIVIT
Program Reference Code(s):
Program Element Code(s): 725500
Award Agency Code: 4900
Fund Agency Code: 4900
Assistance Listing Number(s): 47.050

ABSTRACT

Neotoma is a multiproxy relational database that includes fossil data for the past 5 million years (the Pliocene and Quaternary). It is a community database that provides the underlying cyberinfrastructure for a variety of disciplinary database projects. The Neotoma project is an international collaborative effort among individuals from 23 institutions, including domain scientists representing a spectrum of Pliocene-Quaternary fossil data types, as well as experts in information technology (IT). This project builds on the initial development of the Neotoma database, which was funded in 2008 with a 2-year grant from the NSF Geoinformatics program. Neotoma involves domain scientists representing a wide spectrum of fossil groups from the Pliocene and Quaternary teamed with information technology (IT) professionals from the Center for Environmental Informatics (CEI) at Penn State, where the database is hosted. A workshop was held at the National Academy of Sciences in Washington DC on 31 January-2 February 2009 to plan for the future development of Neotoma. This project is the outgrowth of the DC workshop.

During a 2-year development project, the database structure of Neotoma was designed and implemented with the import of vertebrate faunal data from the FAUNMAP database and pollen data from the Global Pollen Database. The North American Plant Macrofossil Database was updated, and data are now ready for import. The Neotoma website was launched, and the Neotoma explorer provides a map-based interface to the data.

During the next phase ( this project) several new constituent database cooperatives from North America, Europe, Africa, and Asia will join with Neotoma, and several new data types will be ingested, including diatoms, ostracodes, insects, and testate amoebae. Neotoma will be exposed to outside developers via Application Programming Interfaces (APIs) and a Software Development Kit (SDK), whereby both desktop and webbrowser- based applications can acquire data from Neotoma over the Internet. Data-steward tools will be developed that will allow stewards to upload and update data remotely. This project establishes working groups for various database activities, including development of software tools, development of age models, integration of various fossil types from packrat middens held in different databases, and organization of a new peatlands constituent database. Two database-wide workshops will be held for coordination, planning, and conceptual development.

PUBLICATIONS PRODUCED AS A RESULT OF THIS RESEARCH

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Arroyo-Cabrales, J., E. Johnson, R. W. Graham "North American Ursid (Mammalia:Ursidae) defaunation from Pleistocene to Recent" Cranium , v.June , 2016 , p.51
Uhen, M.D., Barnosky, A.D., Bills, B., Blois, J., Carrasco, M.A., Carrano, M.T., Erickson, G.M., Eronen, J.T., Fortelius, M., Graham, R.W., Grimm, E.C., O'Leary, M.A., Mast, A., Piel, W.H., Polly, P.D., Säilä, L.K. "From card catalogs to computers: Databases in vertebrate paleontology." Journal of Vertebrate Paleontology , v.33 , 2013 , p.13
Milideo, L. E., R. W. Graham, C. R. Falk, H. A. Semken, Jr. and M. Christie "Overprinting of taphonomic and paleoecological signals across the forest-prairie environmental gradient, mid-continent of North America" Paleobiology , v.44 , 2018 , p.546
Grimm, E.C., Bradshaw, R.H.W., Brewer, S., Flantua, S., Geisecke, T., Lezine, A.-M., Takahara, H., Williams, J.W. "Databases and their applications. Encyclopedia of Quaternary Science" Encyclopedia of Quaternary Science , v.3 , 2013
Blois, J.L., Williams, J.W., Fitzpatrick, M.C., Jackson, S.T., and Ferrier, S. "Space can substitute for time in predicting climate-change effects on biodiversity. Proceedings of the National Academy of Sciences" Proceedings of the National Academy of Sciences , v.110 , 2013 , p.9374
Blois, J. L., S. Goring and A. Smith "Integrating paleoecological databases: Neotoma consortium workshop" Eos , v.92 , 2011 , p.48
Blois, J. L., J. W. Williams, E. C. Grimm, S. T. Jackson and R. W. Graham "A methodological framework for assessing and reducing temporal uncertainty in paleovegetation mapping from late-Quaternary pollen records." Quaternary Science Reviews , 2011 , p.1
Birch, S. E. P. and R. W. Graham "A stable isotope data repository as part of Neotoma, a paleoecological database." Bioscience , 2015 10.1093/biosc/biv 133

PROJECT OUTCOMES REPORT

Disclaimer

This Project Outcomes Report for the General Public is displayed verbatim as submitted by the Principal Investigator (PI) for this award. Any opinions, findings, and conclusions or recommendations expressed in this Report are those of the PI and do not necessarily reflect the views of the National Science Foundation; NSF has not approved or endorsed its content.

This grant funded work for the Neotoma Paleoecological Database which contains information on sites in North America that provide proxy data (pollen, insects, vertebrates, isotopes, etc.) for recosntructing environments and climates for the last 5 million years. The database allows for the integration of these proxies in order to create past ecosystem recontructions which show the relationships between plants, animals and climates. Thes reconstructions are critical for understanding how organisms responded to climate change in the past. Hence, they can also be useful in modeling and testing models for biotic response to future climate change. However, the graetest importance of these execises is that they allow partcipants to work with real scientific data and understand how scientists develop hypotheses and test them.

This project is interdisciplinary with a host of universites and researchers doing a variety of different tasks. The PSU component of the grant involves programming for the web page which is the primary route to the database. To facilitate use of the database by professional scientists, school groups and lay people, a search engine known as EXPLORER has been developed. Programmers at PSU have been involved in other aspects of the database, as well, including the migration of the database to a new platform.

In addition, PSU has been responsoible for developing educational materials that can be used for people interested in using the database or learning more about how climate change impacts the geographic distribution of species. To this end, scientists at PSU developed a seven module education program that is hosted on the Science Education Resource Cernter (SERC) at Carleton College (https://serc.carleton.edu/index.html). Each module is designed to stand alone and they build on each other. The first six modules introduce the viewer to ideas about climate change, ecology, paleoecology, biogeography, etc. All of these modules have exercises and test questions to make sure that the participant understands the material being presented, The last module has the participant use the Neotoma Paleoecological Database to establish hypotheses about how mammal species have responded to climate change in the past based upon the indepently derived climate reconstructions from ice cores. The partcipant then queries the database to test their hypothesis. At the end, the participant then uses the information from the past to make inferences about what will happen in the future.

The Neotoma Paleoecological Database has also been employed in classes for beginning students in science education. Lectures provided background information about climate change, paleoecology and the Neotoma Database. The students then designed a class using Neotoma that allowed students to make predictions about how specific mammal species might respond to climate change. The predictions were based upon the modern distribution of the species and its control by modern climate. These hypotheses were then tested by observing changes in species distributions through time using Neotoma. Ice core data determined climate parameters for varying times in the past. The university students then took their exercise to two fifth grade classrooms in State College and had the grade school students work through it. The experiment was a great success for both the university students as well as the fifth graders.

The Neotoma Database was the focus for a teacher's workshop at PSU. The topic of the workshop was "Biotic Response to Climate Change: Past, Present and Future." This workshop was in conjunction with the Center for Science in the Schools in the College of Education at PSU. The workshop followed a pattern similar to the ones described above and it was designed to meet specific state standards in education.

 


Last Modified: 01/18/2019
Modified by: Russell W Graham

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