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Lsu Research Fall 2014, Louisiana State University And Agricultural & Mechanical College
Lsu Research Fall 2014, Louisiana State University And Agricultural & Mechanical College
Research Magazine
LSU Research is published annually by the Office of Research & Economic Development, Louisiana State University.
Gibbon Genome And The Fast Karyotype Evolution Of Small Apes, Lucia Carbone, R. Alan Harris, Sante Gnerre, Krishna R. Veeramah, Belen Lorente-Galdos, John Huddleston, Thomas J. Meyer, Javier Herrero, Christian Roos, Bronwen Aken, Fabio Anaclerio, Nicoletta Archidiacono, Carl Baker, Daniel Barrell, Mark A. Batzer, Kathryn Beal, Antoine Blancher, Craig L. Bohrson, Markus Brameier, Michael S. Campbell, Oronzo Capozzi, Claudio Casola, Giorgia Chiatante, Andrew Cree, Annette Damert, Pieter J. De Jong, Laura Dumas, Marcos Fernandez-Callejo, Paul Flicek, Nina V. Fuchs, Ivo Gut, Marta Gut, Matthew W. Hahn, Jessica Hernandez-Rodriguez, Ladeana W. Hillier, Robert Hubley, Bianca Ianc, Zsuzsanna Izsvák, Nina G. Jablonski, Laurel M. Johnstone, Anis Karimpour-Fard, Miriam K. Konkel, Dennis Kostka, Nathan H. Lazar, Sandra L. Lee, Lora R. Lewis, Yue Liu, Devin P. Locke, Swapan Mallick, Fernando L. Mendez, Matthieu Muffato, Lynne V. Nazareth, Kimberly A. Nevonen, Majesta O'Bleness, Cornelia Ochis, Duncan T. Odom, Katherine S. Pollard, Javier Quilez, David Reich, Mariano Rocchi, Gerald G. Schumann, Stephen Searle, James M. Sikela, Gabriella Skollar, Arian Smit, Kemal Sonmez, Boudewijn Ten Hallers, Elizabeth Terhune, Gregg W. C. Thomas, Brygg Ullmer, Mario Ventura, Jerilyn A. Walker, Jeffrey D. Wall, Lutz Walter, Michelle C. Ward, Sarah J. Wheelan, Christopher W. Whelan, Simon White, Larry J. Wilhelm, August E. Woerner, Mark Yandell, Baoli Zhu, Michael F. Hammer, Tomas Marques-Bonet, Evan E. Eichler, Lucinda Fulton, Catrina Fronick, Donna M. Muzny, Wesley C. Warren, Kim C. Worley, Jeffrey Rogers, Richard K. Wilson, Richard A. Gibbs
Gibbon Genome And The Fast Karyotype Evolution Of Small Apes, Lucia Carbone, R. Alan Harris, Sante Gnerre, Krishna R. Veeramah, Belen Lorente-Galdos, John Huddleston, Thomas J. Meyer, Javier Herrero, Christian Roos, Bronwen Aken, Fabio Anaclerio, Nicoletta Archidiacono, Carl Baker, Daniel Barrell, Mark A. Batzer, Kathryn Beal, Antoine Blancher, Craig L. Bohrson, Markus Brameier, Michael S. Campbell, Oronzo Capozzi, Claudio Casola, Giorgia Chiatante, Andrew Cree, Annette Damert, Pieter J. De Jong, Laura Dumas, Marcos Fernandez-Callejo, Paul Flicek, Nina V. Fuchs, Ivo Gut, Marta Gut, Matthew W. Hahn, Jessica Hernandez-Rodriguez, Ladeana W. Hillier, Robert Hubley, Bianca Ianc, Zsuzsanna Izsvák, Nina G. Jablonski, Laurel M. Johnstone, Anis Karimpour-Fard, Miriam K. Konkel, Dennis Kostka, Nathan H. Lazar, Sandra L. Lee, Lora R. Lewis, Yue Liu, Devin P. Locke, Swapan Mallick, Fernando L. Mendez, Matthieu Muffato, Lynne V. Nazareth, Kimberly A. Nevonen, Majesta O'Bleness, Cornelia Ochis, Duncan T. Odom, Katherine S. Pollard, Javier Quilez, David Reich, Mariano Rocchi, Gerald G. Schumann, Stephen Searle, James M. Sikela, Gabriella Skollar, Arian Smit, Kemal Sonmez, Boudewijn Ten Hallers, Elizabeth Terhune, Gregg W. C. Thomas, Brygg Ullmer, Mario Ventura, Jerilyn A. Walker, Jeffrey D. Wall, Lutz Walter, Michelle C. Ward, Sarah J. Wheelan, Christopher W. Whelan, Simon White, Larry J. Wilhelm, August E. Woerner, Mark Yandell, Baoli Zhu, Michael F. Hammer, Tomas Marques-Bonet, Evan E. Eichler, Lucinda Fulton, Catrina Fronick, Donna M. Muzny, Wesley C. Warren, Kim C. Worley, Jeffrey Rogers, Richard K. Wilson, Richard A. Gibbs
Faculty Publications
©2014 Macmillan Publishers Limited. All rights reserved. Gibbons are small arboreal apes that display an accelerated rate of evolutionary chromosomal rearrangement and occupy a key node in the primate phylogeny between Old World monkeys and great apes. Here we present the assembly and analysis of a northern white-cheeked gibbon (Nomascus leucogenys) genome. We describe the propensity for a gibbon-specific retrotransposon (LAVA) to insert into chromosome segregation genes and alter transcription by providing a premature termination site, suggesting a possible molecular mechanism for the genome plasticity of the gibbon lineage. We further show that the gibbon genera (Nomascus, Hylobates, Hoolock and …
Convergent Evolution Of Aquatic Foraging In A New Genus And Species (Rodentia: Muridae) From Sulawesi Island, Indonesia, Kevin C. Rowe, Anang S. Achmadi, Jacob A. Esselstyn
Convergent Evolution Of Aquatic Foraging In A New Genus And Species (Rodentia: Muridae) From Sulawesi Island, Indonesia, Kevin C. Rowe, Anang S. Achmadi, Jacob A. Esselstyn
Faculty Publications
The island of Sulawesi, in Indonesia, lies at the crossroads of the Indo-Australian Archipelago and has remained isolated from the Asian (Sunda) and Australian (Sahul) continental shelves for at least the last 10 million years. Of the 50 native species of rodents on Sulawesi, all are endemic and represent the evolution of a variety of ecological and morphological forms within the Muridae and Sciuridae. Carnivorous rodents have evolved, perhaps independently, in Muridae from the Philippines, Sulawesi, and Sahul, but semi-aquatic murids are only known from Sahul. Here we describe a new genus and species of insectivorous water rat from Sulawesi. …
Integrating Sequence And Array Data To Create An Improved 1000 Genomes Project Haplotype Reference Panel, Olivier Delaneau, Jonathan Marchini, Gil A. Mcveanh, Peter Donnelly, Gerton Lunter, Jonathan L. Marchini, Simon Myers, Anjali Gupta-Hinch, Zamin Iqbal, Iain Mathieson, Andy Rimmer, Dionysia K. Xifara, Angeliki Kerasidou, Claire Churchhouse, David M. Altshuler, Stacey B. Gabriel, Eric S. Lander, Namrata Gupta, Mark J. Daly, Mark A. Depristo, Eric Banks, Gaurav Bhatia, Mauricio O. Carneiro, Guillermo Del Angel, Giulio Genovese, Robert E. Handsaker, Chris Hartl, Steven A. Mccarroll, James C. Nemesh, Ryan E. Poplin, Stephen F. Schaffner, Khalid Shakir, Pardis C. Sabeti, Sharon R. Grossman
Integrating Sequence And Array Data To Create An Improved 1000 Genomes Project Haplotype Reference Panel, Olivier Delaneau, Jonathan Marchini, Gil A. Mcveanh, Peter Donnelly, Gerton Lunter, Jonathan L. Marchini, Simon Myers, Anjali Gupta-Hinch, Zamin Iqbal, Iain Mathieson, Andy Rimmer, Dionysia K. Xifara, Angeliki Kerasidou, Claire Churchhouse, David M. Altshuler, Stacey B. Gabriel, Eric S. Lander, Namrata Gupta, Mark J. Daly, Mark A. Depristo, Eric Banks, Gaurav Bhatia, Mauricio O. Carneiro, Guillermo Del Angel, Giulio Genovese, Robert E. Handsaker, Chris Hartl, Steven A. Mccarroll, James C. Nemesh, Ryan E. Poplin, Stephen F. Schaffner, Khalid Shakir, Pardis C. Sabeti, Sharon R. Grossman
Faculty Publications
A major use of the 1000 Genomes Project (1000GP) data is genotype imputation in genome-wide association studies (GWAS). Here we develop a method to estimate haplotypes from low-coverage sequencing data that can take advantage of single-nucleotide polymorphism (SNP) microarray genotypes on the same samples. First the SNP array data are phased to build a backbone (or 'scaffold') of haplotypes across each chromosome. We then phase the sequence data 'onto' this haplotype scaffold. This approach can take advantage of relatedness between sequenced and non-sequenced samples to improve accuracy. We use this method to create a new 1000GP haplotype reference set for …
Iron Redemption: A Biographical Documentary With Ethnographic Elements, Natalie Domingue
Iron Redemption: A Biographical Documentary With Ethnographic Elements, Natalie Domingue
Honors Capstones
No abstract provided.
Reconstructing New World Monkey Phylogeny: Alu Elements In The Common Marmoset Genome, Catherine Fontenot
Reconstructing New World Monkey Phylogeny: Alu Elements In The Common Marmoset Genome, Catherine Fontenot
Honors Capstones
No abstract provided.
Media Framing Of Yusuf Islam’S An Other Cup: Music, Religion, And Narrative Construction, Joshua Hamburg
Media Framing Of Yusuf Islam’S An Other Cup: Music, Religion, And Narrative Construction, Joshua Hamburg
Honors Capstones
No abstract provided.
The “Arab Spring” In The Discourse Of The Western Media, Logan De La Barre-Hayes
The “Arab Spring” In The Discourse Of The Western Media, Logan De La Barre-Hayes
Honors Capstones
No abstract provided.
Shifting Stability: Identity In The World Of Louise Erdrich, Karah M. Mitchell
Shifting Stability: Identity In The World Of Louise Erdrich, Karah M. Mitchell
Honors Capstones
No abstract provided.
Lessons From 3-D Surface Scanning Of 19th Century Coffin Plates From St. Thomas Anglican Churchyard, Belleville, Ontario, Canada, Abigail Woltering
Lessons From 3-D Surface Scanning Of 19th Century Coffin Plates From St. Thomas Anglican Churchyard, Belleville, Ontario, Canada, Abigail Woltering
Honors Capstones
No abstract provided.
Faculty Senate Newsletter, April 2014, Louisiana State University And Agricultural & Mechanical College
Faculty Senate Newsletter, April 2014, Louisiana State University And Agricultural & Mechanical College
LSU Faculty Senate Publications
Message from President: If there were ever any doubt that the favorite virtue of higher education leadership is that of unanimity, skeptics would need to look no further than the apparent administrative lovefest that accompanied the announcement of the confidentlydenominated WISE plan (the “Workforce and Innovation for a Stronger Economy” blueprint), a loosely defined array of proposals and prophecies that center around the currently pending HB1033, sponsored by Lake Charles power broker Charles “Chuck” Kleckley. Wisdom might come at no charge other than that of study and experience,but the WISE plan strikes a hard bargain with academe: the ex nihilo …
Exploring The Kothi Retrotransposon Through The Common Marmoset Genome, Erika Arceneaux
Exploring The Kothi Retrotransposon Through The Common Marmoset Genome, Erika Arceneaux
Honors Capstones
No abstract provided.
Busting Myths About ‘Species’, Charles H. Pence
Busting Myths About ‘Species’, Charles H. Pence
Faculty Publications
No abstract provided.
African Arrivals And Transformations, Andrew Sluyter
African Arrivals And Transformations, Andrew Sluyter
Faculty Publications
No abstract provided.
Painting A Map Of Sixteenth-Century Mexico City: Land, Writing, And Native Rule, Andrew Sluyter
Painting A Map Of Sixteenth-Century Mexico City: Land, Writing, And Native Rule, Andrew Sluyter
Faculty Publications
No abstract provided.
Ruminant Self-Medication Against Gastrointestinal Nematodes: Evidence, Mechanism, And Origins Ẫ†, Juan J. Villalba, James Miller, Eugene D. Ungar, Serge Y. Landau, John Glendinning
Ruminant Self-Medication Against Gastrointestinal Nematodes: Evidence, Mechanism, And Origins Ẫ†, Juan J. Villalba, James Miller, Eugene D. Ungar, Serge Y. Landau, John Glendinning
Faculty Publications
Gastrointestinal helminths challenge ruminants in ways that reduce their fitness. In turn, ruminants have evolved physiological and behavioral adaptations that counteract this challenge. Ruminants display anorexia and avoidance behaviors, which tend to reduce the incidence of parasitism. In addition, ruminants appear to learn to self-medicate against gastrointestinal parasites by increasing consumption of plant secondary compounds with antiparasitic actions. This selective feeding improves health and fitness. Here, we review the evidence for self-medication in ruminants, propose a hypothesis to explain self-medicative behaviors (based on post-ingestive consequences), and discuss mechanisms (e.g., enhanced neophilia, social transmission) that may underlie the ontogeny and spread …
Components, Volume 10 (2014), Lsu Center For Computation And Technology
Components, Volume 10 (2014), Lsu Center For Computation And Technology
Components
No abstract provided.
Lsu General Catalog 2014-2015, Louisiana State University And Agricultural And Mechanical College
Lsu General Catalog 2014-2015, Louisiana State University And Agricultural And Mechanical College
LSU General Catalog
The LSU General Catalog describes all undergraduate and graduate departments and programs with degree requirements and courses offered for each one. The LSU General Catalog includes information on registration and financial aid as well as academic services offered to all students.
Sampling Locality Is More Detectable Than Taxonomy Or Ecology In The Gut Microbiota Of The Brood-Parasitic Brown-Headed Cowbird (Molothrus Ater), Sarah M. Hird, Bryan C. Carstens, Steven W. Cardiff, Donna L. Dittmann, Robb T. Brumfield
Sampling Locality Is More Detectable Than Taxonomy Or Ecology In The Gut Microbiota Of The Brood-Parasitic Brown-Headed Cowbird (Molothrus Ater), Sarah M. Hird, Bryan C. Carstens, Steven W. Cardiff, Donna L. Dittmann, Robb T. Brumfield
Faculty Publications
Brown-headed Cowbirds (Molothrus ater) are the most widespread avian brood parasite in North America, laying their eggs in the nests of approximately 250 host species that raise the cowbird nestlings as their own. It is currently unknown how these heterospecific hosts influence the cowbird gut microbiota relative to other factors, such as the local environment and genetics. We test a Nature Hypothesis (positing the importance of cowbird genetics) and a Nurture Hypothesis (where the host parents are most influential to cowbird gut microbiota) using the V6 region of 16S rRNA as a microbial fingerprint of the gut from 32 cowbird …
The Holy House Of Loreto Politics And Idolatry In The Long Eighteenth Century, Hilary Teynor Donatini
The Holy House Of Loreto Politics And Idolatry In The Long Eighteenth Century, Hilary Teynor Donatini
1650-1850: Ideas, Aesthetics, and Inquiries in the Early Modern Era
No abstract provided.
Religious Exchanges Solomon's Temple, Holy Land Travel, And A Georgics Of Sacred Space In Seventeenth- And Eighteenth-Century English Writing, Michael Rotenberg-Schwartz
Religious Exchanges Solomon's Temple, Holy Land Travel, And A Georgics Of Sacred Space In Seventeenth- And Eighteenth-Century English Writing, Michael Rotenberg-Schwartz
1650-1850: Ideas, Aesthetics, and Inquiries in the Early Modern Era
No abstract provided.
Berkeley And The Value Of The Arts, Tom Jones
Berkeley And The Value Of The Arts, Tom Jones
1650-1850: Ideas, Aesthetics, and Inquiries in the Early Modern Era
No abstract provided.
Weather, Climate, And The Economy: Explaining Risk Perceptions Of Global Warming, 2001-10, Wanyun Shao, Barry D. Keim, James C. Garand, Lawrence C. Hamilton
Weather, Climate, And The Economy: Explaining Risk Perceptions Of Global Warming, 2001-10, Wanyun Shao, Barry D. Keim, James C. Garand, Lawrence C. Hamilton
Faculty Publications
Two series of national survey datasets (2001-10), supplemented with monthly temperature and precipitation data and unemployment data, are used to examine how weather and climate, economic performance, and individuals' sociodemographic backgrounds and political orientations affect public perceptions of global warming. Consistent with previous studies, political orientations play a key rolein determining public perceptions of global warming. Democrats and liberals are more likely than Republicans and conservatives to see global warming as an immediate and serious problem. Sociodemographic characteristics are also shown to be significant factors, with young people, women, and racial minorities likely to show higher concern about global warming …
Biofrag - A New Database For Analyzing Biodiversity Responses To Forest Fragmentation, Marion Pfeifer, Veronique Lefebvre, Toby A. Gardner, Victor Arroyo-Rodriguez, Lander Baeten, Cristina Banks-Leite, Jos Barlow, Matthew G. Betts, Joerg Brunet, Alexis Cerezo, Laura M. Cisneros, Stuart Collard, Neil D'Cruze, Catarina Da Silva Motta, Stephanie Duguay, Hilde Eggermont, Felix Eigenbrod, Adam S. Hadley, Thor R. Hanson, Joseph E. Hawes, Tamara Heartsill Scalley, Brian T. Klingbeil, Annette Kolb, Urs Kormann, Sunil Kumar, Thibault Lachat, Poppy Lakeman Fraser, Victoria Lantschner, William F. Laurance, Inara R. Leal, Luc Lens, Charles J. Marsh, Guido F. Medina-Rangel
Biofrag - A New Database For Analyzing Biodiversity Responses To Forest Fragmentation, Marion Pfeifer, Veronique Lefebvre, Toby A. Gardner, Victor Arroyo-Rodriguez, Lander Baeten, Cristina Banks-Leite, Jos Barlow, Matthew G. Betts, Joerg Brunet, Alexis Cerezo, Laura M. Cisneros, Stuart Collard, Neil D'Cruze, Catarina Da Silva Motta, Stephanie Duguay, Hilde Eggermont, Felix Eigenbrod, Adam S. Hadley, Thor R. Hanson, Joseph E. Hawes, Tamara Heartsill Scalley, Brian T. Klingbeil, Annette Kolb, Urs Kormann, Sunil Kumar, Thibault Lachat, Poppy Lakeman Fraser, Victoria Lantschner, William F. Laurance, Inara R. Leal, Luc Lens, Charles J. Marsh, Guido F. Medina-Rangel
Faculty Publications
Habitat fragmentation studies have produced complex results that are challenging to synthesize. Inconsistencies among studies may result from variation in the choice of landscape metrics and response variables, which is often compounded by a lack of key statistical or methodological information. Collating primary datasets on biodiversity responses to fragmentation in a consistent and flexible database permits simple data retrieval for subsequent analyses. We present a relational database that links such field data to taxonomic nomenclature, spatial and temporal plot attributes, and environmental characteristics. Field assessments include measurements of the response(s) (e.g., presence, abundance, ground cover) of one or more species …
Expansive Notions Of Coherence And Complexity In Education, Bryant Griffith, Kim Skinner
Expansive Notions Of Coherence And Complexity In Education, Bryant Griffith, Kim Skinner
Faculty Publications
No abstract provided.
Decomposition And Entomological Associations Of Swine In Louisiana Micro-Environments, Rachael Ann Farris
Decomposition And Entomological Associations Of Swine In Louisiana Micro-Environments, Rachael Ann Farris
LSU Master's Theses
Flies are commonly used as forensic indicators of an approximate time of death. This measurement of postmortem interval is influenced by factors such as climate and the environment in which the remains are placed. Each environment has its own set of influences that can accelerate or hinder the rate of decomposition. Remains left on dry land will decompose at a faster rate than remains in water due to the accessibility of the remains to scavengers and necrophagus insects. This research serves to provide a start to research into decomposition in the swamp environment of southern Louisiana. Three fetal pigs were …
Assessment Of Age At Weaning For Post-Contact Maya Of Tipu, Belize, Using Stable Carbon, Nitrogen, And Oxygen Isotope Ratios, Chaney Hiers
Assessment Of Age At Weaning For Post-Contact Maya Of Tipu, Belize, Using Stable Carbon, Nitrogen, And Oxygen Isotope Ratios, Chaney Hiers
LSU Master's Theses
Age at weaning was assessed for a post-Spanish contact Maya population, the Tipu, by sampling 25 individuals (20 subadults less than seven years of age and five females from 18 to 45 years of age). Whole ribs, for younger subadults, and rib fragments, for older subadults and adults, were sampled for stable nitrogen, carbon, and oxygen isotope ratios. Five lines of evidence were used to assess age at weaning: stable carbon composition from collagen (δ13Ccol), stable nitrogen composition from collagen (δ15Ncol), stable carbon composition from apatite (δ13Cap), difference in collagen and apatite composition (Δ13Cap-col), and stable oxygen composition from apatite …
Quantifying The Impact Of Hurricanes, Mid-Latitude Cyclones And Other Weather And Climate Extreme Events On The Mississippi-Alabama Barrier Islands Using Remotely Sensed Data, Rebekah Danielle Jones
Quantifying The Impact Of Hurricanes, Mid-Latitude Cyclones And Other Weather And Climate Extreme Events On The Mississippi-Alabama Barrier Islands Using Remotely Sensed Data, Rebekah Danielle Jones
LSU Master's Theses
Recent high-profile hurricanes have demonstrated the destructiveness of extreme events on coastal landscapes to the world. Barrier islands across the planet are disappearing, exposing vulnerable coastal cities to the damage caused by extreme events. Growing resolve among scientists regarding climate change's connection to tropical cyclones heightens the concern around intensifying extremes and landscape dynamics. This study uses more than 600 Landsat images to examine the role of extreme events on barrier island morphology on four of the Mississippi-Alabama barrier islands from 1972-2014. Each island, West Ship Island (WSI), East Ship Island (WSI), Petit Bois Island (PBI), and Sand Island, was …
Object-Based Coastal Morphological Change Analysis Based On Lidar And Hurricane Events, Bedoor Adel Mohammad
Object-Based Coastal Morphological Change Analysis Based On Lidar And Hurricane Events, Bedoor Adel Mohammad
LSU Doctoral Dissertations
Storms are considered one of the rapid climatic events that have a dramatic impact on coastal morphology, hence they require further investigation and quantifying of coastal changes and responses. Light detection and ranging (LiDAR) is the most advanced technology to be widely used by researchers for coastal geomorphological studies. The purpose of this study is to apply an object-based approach using repeated LiDAR surveys to understand the short-term morphological changes that occurred on Santa Rosa Island, Florida after category 3 hurricanes Ivan (2004) and Dennis (2005), making it the first study to apply this method, as opposed to previous studies’ …
Climate Extremes In The Southeast United States : Variability, Spatial Classification, And Related Planning, Emily J. Powell
Climate Extremes In The Southeast United States : Variability, Spatial Classification, And Related Planning, Emily J. Powell
LSU Doctoral Dissertations
Spatial and temporal trends in temperature and precipitation extremes were investigated for the Southeast United States for the period 1948 to 2012 using 27 extreme indices developed by Working Groups headed by the World Meteorological Organization. Results show region-wide warming in extreme minimum temperatures and cooling in extreme maximum temperatures. As a result, diurnal temperature ranges are decreasing for most stations. The intensity and magnitude of extreme precipitation events appear to be rising overall, though eastern sites are experiencing increasing dryness in some indices. Seasonal trends suggest that warming in minimum temperatures is most pronounced in summer and least pronounced …