Life Sciences Commons^™

Genome Sequencing And Analysis Of The Model Grass Brachypodium Distachyon, John Vogel, David Garvin, Todd C. Mockler, Jeremy Schmutz, Dan Rokhsar, Michael Bevan

Publications from USDA-ARS / UNL Faculty

Three subfamilies of grasses, the Ehrhartoideae, Panicoideae and Pooideae, provide the bulk of human nutrition and are poised to become major sources of renewable energy. Here we describe the genome sequence of the wild grass Brachypodium distachyon (Brachypodium), which is, to our knowledge, the first member of the Pooideae subfamily to be sequenced. Comparison of the Brachypodium, rice and sorghum genomes shows a precise history of genome evolution across a broad diversity of the grasses, and establishes a template for analysis of the large genomes of economically important pooid grasses such as wheat. The high-quality genome sequence, coupled …

Very-Long-Chain Fatty Acids Are Involved In Polar Auxin Transport And Developmental Patterning In Arabidopsis, Françoise Roudier, Lionel Gissot, Frédéric Beaudoin, Richard Haslam, Louise V. Michaelson, Jessica Marion, Diana Molino, Amparo Lima, Liên Bach, Halima Morin, Frédérique Tellier, Jean-Christophe Palauqui, Yannick Bellec, Charlotte Renne, Martine Miquel, Marco Dacosta, Julien Vignard, Christine Rochat, Jennifer E. Markham, Patrick Moreau, Jonathan Napier, Jean-Denis Faure

Biochemistry -- Faculty Publications

Very-long-chain fatty acids (VLCFAs) are essential for many aspects of plant development and necessary for the synthesis of seed storage triacylglycerols, epicuticular waxes, and sphingolipids. Identification of the acetyl-CoA carboxylase PASTICCINO3 and the 3-hydroxy acyl-CoA dehydratase PASTICCINO2 revealed that VLCFAs are important for cell proliferation and tissue patterning. Here, we show that the immunophilin PASTICCINO1 (PAS1) is also required for VLCFA synthesis. Impairment of PAS1 function results in reduction of VLCFA levels that particularly affects the composition of sphingolipids, known to be important for cell polarity in animals. Moreover, PAS1 associates with several enzymes of …

Cytotoxicity Of Bacterial-Derived Toxins To Immortal Lung Epithelial And Macrophage Cells, Dianne E. Peterson, Jayne M. Collier, Matthew E. Katterman, Rachel A. Turner, Mark R. Riley

Biological Systems Engineering: Papers and Publications

Health risks associated with inhalation and deposition of biological materials have been a topic of great concern due to highly publicized cases of inhalation anthrax, of new regulations on the release of particulate matter, and to increased concerns on the hazards of indoor air pollution. Here, we present an evaluation of the sensitivity of two immortal cell lines (A549, human lung carcinoma epithelia) and NR8383 (rat alveolar macrophages) to a variety of bacterial-derived inhalation hazards and simulants including etoposide, gliotoxin, streptolysin O, and warfarin. The cell response is evaluated through quantification of changes in mitochondrial succinate dehydrogenase activity, release of …

Toward Increased Utilization Of Historical Hurricane Chronologies, Kelsey N. Scheitlin, James B. Elsner, J. C. Malmstadt, R. E. Hodges, T. H. Jagger

Biology & Environmental Sciences Faculty Publications

The record of past tropical cyclones provides an important means to evaluate the hurricane hazard. Historical chronologies are a source of information about tropical cyclones prior to the modern era. Chenoweth (2006) describes an archive of 383 tropical cyclones occurring during the eighteenth and nineteenth centuries, largely before the official hurricane record. The present study demonstrates a novel way this archive can be used to articulate historical tropical cyclone activity across space. First, an event in the archive is assigned a series of latitude/longitude coordinates approximating the descriptive locations of the cyclone’s affect. Second, tropical cyclones from the modern record …

A Framework For Automated Enrichment Of Functionally Significant Inverted Repeats In Whole Genomes, Cyriac Kandoth, Fikret ErçAl, Ronald L. Frank

Computer Science Faculty Research & Creative Works

Background: RNA transcripts from genomic sequences showing dyad symmetry typically adopt hairpin-like, cloverleaf, or similar structures that act as recognition sites for proteins. Such structures often are the precursors of non-coding RNA (ncRNA) sequences like microRNA (miRNA) and small-interfering RNA (siRNA) that have recently garnered more functional significance than in the past. Genomic DNA contains hundreds of thousands of such inverted repeats (IRs) with varying degrees of symmetry. But by collecting statistically significant information from a known set of ncRNA, we can sort these IRs into those that are likely to be functional.

Results: A novel method was developed to …

Annual Report To The Governer And General Assembly Of Virginia: Virginia Fishery Resource Grant Program 2009, Virginia Sea Grant

Reports

No abstract provided.

Arkansas Cotton Variety Test 2009, Fred M. Bourland, A. B. Beach, D. P. Roberts Jr.

Arkansas Agricultural Experiment Station Research Series

The primary goal of the Arkansas Cotton Variety Test is to provide unbiased data regarding the agronomic performance of cotton varieties and advanced breeding lines in the major cotton-growing areas of Arkansas. This information helps seed companies establish marketing strategies and assists producers in choosing varieties to plant.

A New Species Of Trichostrongyloid In African Buffalo (Syncerus Caffer) (Artiodactyla: Bovinae) From Uganda, Eric P. Hoberg, Arthur Abrams, Patricia A. Pilitt

Faculty Publications from the Harold W. Manter Laboratory of Parasitology

Africanastrongylus giganticus n. sp. is described based on large ostertagiine nematodes occurring in the abomasum of African buffalo, Syncerus caffer, from Uganda; this represents the second species recognized in the genus. Specimens of A. giganticus are characterized by large size (15-19 mm in total length), a strongly tapering synlophe in the cervical region, and a great number of ridges at all levels of the body (maximum 72 attained in the third quarter); numbers of ridges exceed that reported among any known genera and species of the Ostertagiinae. We refer A. giganticus to this genus based on a strongly tapering …

Genome Sequence Of The Pea Aphid Acyrthosiphon Pisum, Jennifer A. Brisson, Stephen Richards, International Aphid Genomics Consortium

Faculty Publications in the Biological Sciences

Aphids are important agricultural pests and also biological models for studies of insect-plant interactions, symbiosis, virus vectoring, and the developmental causes of extreme phenotypic plasticity. Here we present the 464 Mb draft genome assembly of the pea aphid Acyrthosiphon pisum. This first published whole genome sequence of a basal hemimetabolous insect provides an outgroup to the multiple published genomes of holometabolous insects. Pea aphids are host-plant specialists, they can reproduce both sexually and asexually, and they have coevolved with an obligate bacterial symbiont. Here we highlight findings from whole genome analysis that may be related to these unusual biological …

Genetically Modified Canola Trials In 2009, Department Of Agriculture And Food, Western Australia

Research Reports

During 2009, just over 860 hectares of Roundup Ready® canola were grown in Western Australia enabled by an exemption order under the Genetically Modified Crops Free Areas Act 2003. The aim of the trials was to establish whether GM canola could be segregated from non-GM canola along the WA supply chain, and whether GM canola was agronomically viable for WA farming systems. This was the first time genetically modified canola had been grown on a commercial scale in WA - earlier exemptions for smaller trials had been for variety testing and scientific purposes.

Modelling The Impacts Of A Mixed Forestry Plantation On Groundwater Resources In The Beaufort River Area, Western Australia, Paul Raper, Richard J. George Dr

Resource management technical reports

No abstract provided.

Water Management Plan For The Town Of Pingelly, Mark Pridham

Resource management technical reports

No abstract provided.

Gender Moderates The Association Between 5-Httlpr And Decision-Making Under Ambiguity But Not Under Risk, Scott F. Stoltenberg, Joanna M. Vandever

Faculty Publications, Department of Psychology

Decisions made under ambiguity may involve a different genetic architecture than those made under risk. Because gender moderates the effect of genetic polymorphisms on serotonin function and because there are gender differences in decision-making, the present study examined potential gender moderation of associations between polymorphisms in important serotonin system candidate genes (serotonin transporter [SLC6A4] and tryptophan hydroxylase-2 [TPH2]) and performance on a decision-making task (Iowa Gambling Task, IGT) in healthy, adults (N = 188; 62% women). Subjects were genotyped for the well-studied SLC6A4 promoter variant 5-HTTLPR and a TPH2 single nucleotide polymorphism in intron-8 (rs1386438). Genotype at rs1386438was not …

Selection Ratios On Community Aggregated Traits To Estimate Ecological Filters Imposed On Species By Sites, Nathanael I. Lichti, Michael T. Murphy

Biology Faculty Publications and Presentations

Variation in community structure is mediated by interactions between species traits and a site's environmental characteristics. Previously, data on community composition at sites has been employed to correlate trait and environmental variables (e.g., RLQ analysis) and to predict community-level expression of quantitative traits (i.e., community aggregated traits). Here, we demonstrate that the selection ratio, a method originating in animal resource selection studies, can estimate the ecological filters that site conditions impose on species traits by combining observed community aggregated traits with null models of species availability. This flexible, nonparametric approach expresses the filter at each site as a probability density …

Chlamydomonas Mutants Display Reversible Deficiencies In Flagellar Beating And Axonemal Assembly, Mei Wei, Priyanka Sivadas, Heather A. Owen, David R. Mitchell, Pinfen Yang

Biological Sciences Faculty Research and Publications

Axonemal complexes in flagella are largely prepackaged in the cell body. As such, one mutation often results in the absence of the co-assembled components and permanent motility deficiencies. For example, a Chlamydomonas mutant defective in RSP4 in the radial spoke (RS), which is critical for bend propagation, has paralyzed flagella that also lack the paralogue RSP6 and three additional RS proteins. Intriguingly, recent studies showed that several mutant strains contain a mixed population of swimmers and paralyzed cells despite their identical genetic background. Here we report a cause underlying these variations. Two new mutants lacking RSP6 swim processively and other …

Genetic Basis For Rhizobium Etli Ce3 O-Antigen O-Methylated Residues That Vary According To Growth Conditions, Kristylea J. Ojeda, Jodie M. Box, K. Dale Noel

Biological Sciences Faculty Research and Publications

The Rhizobium etli CE3 O antigen is a fixed-length heteropolymer with O methylation being the predominant type of sugar modification. There are two O-methylated residues that occur, on average, once per complete O antigen: a multiply O-methylated terminal fucose and 2-O methylation of a fucose residue within a repeating unit. The amount of the methylated terminal fucose decreases and the amount of 2-O-methylfucose increases when bacteria are grown in the presence of the host plant, Phaseolus vulgaris, or its seed exudates. Insertion mutagenesis was used to identify open reading frames required for the presence of these O-methylated …

Lilac-Ash Borer, Ryan S. Davis, Taun Beddes, Jay B. Karren

All Current Publications

The lilac-ash borer (Podosesia syringae), belongs to a group of insects known as the clear-winged moths. The wings of most sesiid moths in have at least partially transparent wings (devoid of the colored scales that coat most moth and butterfly wings).

The Presence Of Micropterus Salmoides (Largemouth Bass) Influences The Populations Of Rana Draytonii (California Red-Legged Frog) And Pseudacris Regilla (Pacific Treefrog) In Two Ponds In Santa Barbara County, California, Kenneth Lee Gilliland

Master's Theses

Alien fish have been implicated in the decline of Rana draytonii (California red-legged frog) and Pseudacris regilla (Pacific treefrog) populations. Micropterus salmoides (largemouth bass) is a common sport fish that has been introduced into the sympatric range of these two anuran species; however, no studies have investigated the individual influence that this alien fish has on these two species. I conducted M. salmoides control or eradication experiments during a four year study in two ponds within the Transverse Mountain Range of Santa Barbara County, California. Changes in the densities of all life stages of R. draytonii and P. regilla were …

A Remote Markerless Human Gait Tracking For E-Healthcare Based On Content-Aware Wireless Multimedia Communications, Haiyan Luo, Song Ci, Dalei Wu, Nikolaos Stergiou, Ka-Chun Siu

Journal Articles

Remote human motion tracking and gait analysis over wireless networks can be used for various e-healthcare systems for fast medical prognosis and diagnosis. However, most existing gait tracking systems rely on expensive equipment and take lengthy processes to collect gait data in a dedicated biomechanical environment, limiting their accessibility to small clinics located in remote areas. In this work we propose a new accurate and cost-effective e­ healthcare system for fast human gait tracking over wireless networks, where gait data can be collected by using advanced video content analysis techniques with low-cost cameras in a general clinic environment. Furthermore, based …

Ecologically Significant Invasive Species, A Monitoring Framework For Natural Resource Management Groups In Western Australia, Jan-Willem De Miliano, Andrew Woolnough, Andrew Reeves, Damian Shepherd

Bulletins 4000 -

This publication is the result of the project titled 'Resource Condition Monitoring for Ecologically Significant Species. The project identified and addressed key weaknesses in the State's capacity to monitor threat posed by ecologically significant species. The invasive species monitoring framework for Western Australia developed through this project, along with the rationales underpinning the deign, are presented in this report.