Digital Commons Network^™

Automated Conserved Non-Coding Sequence (Cns) Discovery Reveals Differences In Gene Content And Promoter Evolution Among Grasses, Gina Marie Turco, James C. Schnable, Brent S. Pedersen, Michael Freeling

Department of Agronomy and Horticulture: Faculty Publications

Conserved non-coding sequences (CNS) are islands of non-coding sequence that, like protein coding exons, show less divergence in sequence between related species than functionless DNA. Several CNSs have been demonstrated experimentally to function as cis-regulatory regions. However, the specific functions of most CNSs remain unknown. Previous searches for CNS in plants have either anchored on exons and only identified nearby sequences or required years of painstaking manual annotation. Here we present an open source tool that can accurately identify CNSs between any two related species with sequenced genomes, including both those immediately adjacent to exons and distal sequences separated by …

Storage Technique Preserves Citrus, Kills Pathogens, Gayle Volk, Jan Suszkiw

Agricultural Research Magazine

Americans consume about 84 pounds of fresh and processed citrus per person each year, with oranges topping the list at 61 pounds annually. The availability of these favored fruits in grocery stores, fresh markets, and other consumer outlets is a testament to growers’ success in managing the ever-present threat of pests and diseases to the nation’s $3.4 billion citrus crop (2011-12), most of which is produced in Florida and California.

A major threat is citrus greening disease, also known as “Huanglongbing.” First detected in Florida in August 2005, citrus greening today is the target of a multifaceted effort by federal, …

Detecting Deadly Colonies Of E. Coli, Rosalie Marion Bliss

Agricultural Research Magazine

Shiga-toxin-producing Escherichia coli (STEC) serogroup O157:H7 has long been associated with severe forms of foodborne illnesses. But these bacterial bad guys have many cousins, and six other STEC groups have also been linked to serious illnesses and outbreaks of disease.

In 2011, the U.S. Department of Agriculture’s Food Safety and Inspection Service (FSIS) announced a regulation that, as of June 2012, certain beef products that test positive for any of these six groups, nicknamed the “Big Six,” would be banned from being sold for public consumption. As USDA’s regulatory arm, FSIS employs inspectors who collect meat samples on the front …

Current Challenges Can Help Fuel Future Opportunities, Jeffrey J. Steiner

Agricultural Research Magazine

Native juniper trees and invasive plants pose an expanding threat to the survival of the sagebrush ecosystem in arid western rangelands. As the trees mature, they compete with other native plants that are valuable food sources for wildlife and cattle. After these plants die back, the bare patches of soil that remain are vulnerable to erosion and encroachment from other species like cheatgrass, an invasive nonnative annual that fuels wildfires.

Wildfires threaten livestock ranches, are suppressed in large part by efforts funded with taxpayer dollars, and increase the probability that invasive plants will spread and thrive in the postfire landscape. …

Better French Fries: Technique Helps Lower Fat, Zhongli Pan, Marcia Wood

Agricultural Research Magazine

No doubt about it. Americans love French fries.

But fries soak up a lot of oil while they’re turning a perfect golden brown in the deep-fat fryer.

Agricultural Research Service scientist Zhongli Pan and colleagues have tackled the challenge of lowering some of the fat from this favorite side order without skimping on the fries’ delicious taste and texture or their pleasing appearance and aroma. Their idea? After potatoes are peeled and sliced into strips, and just before the raw strips are dunked in the fryer, prep them with 3 minutes of infrared (IR) heat—just like that created in home …

Fungi Can Be Friends Or Foes, Amy Rossman, Jo Anne Crouch, Shannon Dominick, Sharon Durham

Agricultural Research Magazine

Fungi are a large and diverse group of organisms. Some fungi, like mushrooms, are edible and considered crops. Others, however, can cause serious diseases of crop and forest plants, and those diseases can have negative effects on local and international economies as well as on the supply of food and other materials that agriculture provides.

The Agricultural Research Service maintains a unique resource—the U.S. National Fungus Collections—for helpful and detailed information about fungi. Accurate knowledge of fungi is critical for controlling the diseases they cause.

North America’s Largest Fungarium

In 1869, the Smithsonian Institution transferred its fungal collection to the …

Measuring The Feeding Behavior Of Livestock, T. M. Brown-Brandl, Roger A. Eigenberg, Sandra Avant

Agricultural Research Magazine

Determining how much time animals spend eating could help animal caretakers identify sick livestock, improve management, and establish genetic differences within a herd. But first, a system is needed to monitor animal feeding behavior.

Scientists at the Agricultural Research Service’s Roman L. Hruska U.S. Meat Animal Research Center in Clay Center, Nebraska, have developed a new system to monitor feeding behavior of feedlot cattle and grow-finish swine in a livestock industry setting.

The system, created by agricultural engineers Tami Brown-Brandl and Roger Eigenberg in the center’s Environmental Management Research Unit, uses standard radio-frequency identification technology designed around a commercial reader. …

Agricultural Research Magazine, July 2013

Agricultural Research Magazine

Table of Contents

4 Turning Trees Into Fighter Fuels

8 Tools for Tracking Troublesome Trees

10 Better Maps Mean Better Rangeland Management

12 New, Improved Codling Moth Lures Available

13 New Strawberry Species Found in Oregon

14 Measuring the Feeding Behavior of Livestock

15 Savvy Seed Sorter Gains New Fans

16 Fungi Can Be Friends or Foes

18 Detecting Deadly Colonies of E. coli

20 Storage Technique Preserves Citrus, Kills Pathogens

22 Better French Fries: Technique Helps Lower Fat

23 Locations Featured in This Magazine Issue

July 2013- Locations Featured In This Magazine Issue

Agricultural Research Magazine

The Agricultural Research Service has about 100 labs all over the country.

Locations Featured in This Magazine Issue

Albany, California 9 research units ■ 241 employees

Corvallis, Oregon 3 research units ■ 127 employees

Great Basin Rangelands Research Unit, Reno, Nevada 1 research unit ■ 19 employees

U.S. Salinity Laboratory, Riverside, California 2 research units ■ 39 employees

Yakima Agricultural Research Laboratory, Wapato, Washington 1 research unit ■ 57 employees

Eastern Oregon Agricultural Research Center, Burns, Oregon 1 research unit ■ 27 employees

Northwest Watershed Research Center, Boise, Idaho 1 research unit ■ 18 employees

Tucson, Arizona 2 research units …

New, Improved Codling Moth Lures Available, David Nicholson, Jan Suszkiw

Agricultural Research Magazine

New lures that entice codling moths with the scent of food and a possible mate are available for use in monitoring this orchard pest and controlling it with carefully timed applications of insecticide. The research related to the development and use of the lures involved scientists Alan Knight and Peter Landolt at the Agricultural Research Service’s Yakima Agricultural Research Laboratory in Wapato, Washington, and Douglas Light at the ARS Western Regional Research Center in Albany, California.

As larvae, codling moths are major pests of apples, pears, and walnuts. Historically, growers have sprayed their orchards with insecticide to prevent the pinkish-white, …

Better Maps Mean Better Rangeland Management, Brandon Bestelmeyer, Ann Perry

Agricultural Research Magazine

Land managers are always hoping for the next best thing to help them figure out where they should spend their time and money restoring and maintaining healthy rangelands. Now Agricultural Research Service rangeland ecologist Brandon Bestelmeyer has one of the answers—an ecological-state map that identifies where rangeland is holding its own, where it could respond to restoration efforts, or where it’s already past the point of no return.

“We wanted to find a way to turn existing field-level rangeland assessments into broader tools for comprehensively managing larger landscapes,” says Bestelmeyer, who works at the ARS Jornada Experimental Range in Las …

New Strawberry Species Found In Oregon, Kim E. Hummer, Sharon Durham

Agricultural Research Magazine

A recently discovered wild strawberry species provides new genetic material for plant research and, in the future, might also provide a new class of commercial strawberries.

Agricultural Research Service scientist Kim Hummer, with the USDA-ARS National Clonal Germplasm Repository at Corvallis, Oregon, found the new species during several plant collection expeditions in the high peaks of Oregon’s Cascade Mountains. She named it Fragaria cascadensis.

The find was reported in the Journal of the Botanical Research Institute of Texas.

The new strawberry is endemic to the Oregon Cascades, hence its specific name, F. cascadensis. It is perennial, with …

Turning Trees Into Fighter Fuels, Ann Perry

Agricultural Research Magazine

In western U.S. rangelands, native juniper and pinyon pine trees are spreading beyond their historical ecological niches and disrupting the environmental balance of their expanded range. Meanwhile, Agricultural Research Service scientists are teaming with university and industry colleagues to turn this problem into a source of fuel for U.S. Navy fighter jets.

“Juniper competes with grass and forbs for water and nutrients, and this leaves bare soil that is vulnerable to erosion,” says ARS scientist Mark Weltz, who works at the Great Basin Rangelands Research Unit in Reno, Nevada. “We have also lost habitat for sage grouse and mule deer, …

Tools For Tracking Troublesome Trees, Kirk Davies, Matt Madsen, Ann Perry

Agricultural Research Magazine

In Oregon, western juniper trees are expanding their range, pushing out other plant species, reducing sagebrush habitat and livestock forage, and at times fueling catastrophic wildfires. During some of these conflagrations, fires burn even hotter because more wood is available to feed the flames—a cause-and-effect that in turn lengthens the time that temperatures remain elevated at fire-stricken sites.

To help streamline efforts to manage invasive trees, Agricultural Research Service rangeland scientists Kirk Davies and Matt Madsen are investigating ways of combining aerial photography and computer programs to quickly identify and measure affected areas. These tools could save time and money …

Seasonal Fires, Bison Grazing, And The Tallgrass Prairie Forb Arnoglossum Plantagineum Raf., Stephen L. Winter, Karen R. Hickman, Carla L. Goad, Samuel D. Fuhlendorf, Mark S. Gregory

School of Natural Resources: Faculty Publications

Fire and grazing can interact to affect the structure and composition of vegetation communities in a manner that may differ from the effects of fire or grazing that occurs in isolation of the other. In order to better understand the effects of a fire-grazing interaction at the level of an individual plant species, we studied the response of a perennial tallgrass prairie forb, Arnoglossum plantagineum Raf., to the interaction of spring and summer fires with grazing by bison (Bison bison L.). During one field season (2006), we collected data in areas that had been treated with summer fires while …

Sfa Gardens Newsletter, Summer 2013, Sfa Gardens, Stephen F. Austin State University

SFA Gardens Newsletters

No abstract provided.

Climate Change And Plant Demography In The Sagebrush Steppe, Aldo Compagnoni

Green Canyon Environmental Research Area, Logan Utah

No abstract provided.

Nebline, July 2013

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Integrated Pest Management in Nebraska Schools: Solving Pest Problems Effectively with Fewer Pesticides

Farm Views

Urban Agriculture

Food & Fitness

Home & Family Living

Horticulture

Environmental Focus

4-H & Youth

Community Focus

Extension Calendar

Nutrition Education Program

Family and Community Education (FCE) Clubs

and other extension news and events

Savvy Seed Sorter Gains New Fans, Thomas C. Pearson, Marcia Wood

Agricultural Research Magazine

Simple, swift, and comparatively inexpensive, a color-image-based seed sorter is helping plant breeders and others separate the seeds they want from those they don’t—with an impressive degree of accuracy.

Agricultural Research Service agricultural engineer Thomas C. Pearson, based at the agency’s Center for Grain and Animal Health Research in Manhattan, Kansas, developed the sorter in collaboration with National Manufacturing in Lincoln, Nebraska. The company has marketed the device to customers in the United States and abroad since 2010.

In tests, the compact, portable sorter— a simpler and faster version of other machine-vision equipment that Pearson developed in 2009—speedily differentiated kernels …

¿Qué Es Agroforestería?

Working Trees (USDA-NAC)

¿Qué es agroforestería?

Agroforestación es mezclar intencionalmente árboles y arbustos con cultivos o sistemas de producción animal para obtener beneficios ambientales, económicos y sociales de forma ecológicamente sustentable.

Role Of Nucleation In Cortical Microtubule Array Organization: Variations On A Theme, Erica A. Fishel, Ram Dixit

Biology Faculty Research

The interphase cortical microtubules (CMTs) of plant cells form strikingly ordered arrays in the absence of a dedicated microtubule-organizing center. Considerable research effort has focused on activities such as bundling and severing that occur after CMT nucleation and are thought to be important for generating and maintaining ordered arrays. In this review, we focus on how nucleation affects CMT array organization. The bulk of CMTs are initiated from γ-tubulin-containing nucleation complexes localized to the lateral walls of pre-existing CMTs. These CMTs grow either at an acute angle or parallel to the pre-existing CMT. Although the impact of microtubule-dependent nucleation is …

Growing South Dakota (Summer 2013), College Of Agriculture &. Biological Sciences

Growing South Dakota (Publication of the College of Agriculture, Food and Environmental Sciences)

[Page] 2 Fish, Field & Forest: Natural Resource Management Research Covers the Gamut
[Page] 5 Profiles In Leadership: David Willis; Combined Department Creates Interdisciplinary Opportunities
[Page] 6 Research On the Range: Cottonwood Field Station Has Provided Research Data for 106 Years
[Page] 8 Prairie Oasis: Natural Diversity Showcased at Oak Lake Field Station
[Page] 9 Special Section: Investigating in Agriculture & Biological Sciences at SDSU: An Update On the College of Ag’s Enhanced Facilities and Continuing Efforts Important to Helping Address Future Agricultural Challenges and Opportunities.[Page] 13 South Dakota 4-H Update: Skill-a-thons, New Exhibit Hall Planned
[Page] 14 After The …

Levels And Chemodynamics Of Pesticides In Soil And Sediments At Kilombero Sugarcane Plantations And Environs, Morogoro Region, Tanzania, James T. Zacharia

Journal of Humanities and Social Sciences

metabolites in soil and sediment samples from Kilombero sugarcane plantations and environs, Morogoro Region, Tanzania. The samples were screened for 56 different pesticide residues and their metabolites using GC-ECD and GC-NPD and the results were confirmed by GC-MS. A total of 31 soil samples and 19 sediment samples were analysed in this study and a total of 16 different pesticides/metabolites were detected in soil samples; and 12 different pesticides/metabolites were detected in sediment samples. o,p’-DDT was shown to have the highest concentration of all the detected pesticides/metabolites in soil samples with a mean concentration of 21.04µg/kg d.w whereas the highest …

Scfkmd Controls Cytokinin Signaling By Regulating The Degradation Of Type-B Response Regulators, Hyo Jung Kim, Yi-Hsuan Chiang, Joseph J. Kieber, G. Eric Schaller

Dartmouth Scholarship

Cytokinins are plant hormones that play critical roles in growth and development. In Arabidopsis, the transcriptional response to cytokinin is regulated by action of type-B Arabidopsis response regulators (ARRs). Although central elements in the cytokinin signal transduction pathway have been identified, mechanisms controlling output remain to be elucidated. Here we demonstrate that a family of F-box proteins, called the kiss me deadly (KMD) family, targets type-B ARR proteins for degradation. KMD proteins form an S-phase kinase-associated PROTEIN1 (SKP1)/Cullin/F-box protein (SCF) E3 ubiquitin ligase complex and directly interact with type-B ARR proteins. Loss-of-function KMD mutants stabilize type-B ARRs and exhibit an …

Estudios Científicos En El Estado De Hidalgo Y Zonas Aledañas, Volumen Ii, Griselda Pulido-Flores, Scott Monks

Zea E-Books Collection

Los 16 capítulos que conforman este libro son una contribución al conocimiento de la biodiversidad y conservación de los recursos naturales en el estado de Hidalgo, México.

Se aborda el derecho de propiedad intelectual en la biodiversidad, citando algunos ejemplos de México. Así mismo, se presenta un estudio de la biodiversidad y distribución de la herpetofauna en cuatro tipos de vegetación. Desde el punto de vista de la helmintología se presentan dos estudios de los helmintos parásitos de vertebrados silvestres; con nuevos registros de hospederos y localidades de algunas especies de helmintos para Hidalgo. También, se aborda el uso de …

Currencies Of Mutualisms: Sources Of Alkaloid Genes In Vertically Transmitted Epichloae, Christopher L. Schardl, Carolyn A. Young, Juan Pan, Simona Florea, Johanna E. Takach, Daniel G. Panaccione, Mark L. Farman, Jennifer S. Webb, Jolanta Jaromczyk, Nikki D. Charlton, Padmaja Nagabhyru, Li Chen, Chong Shi, Adrian Leuchtmann

Plant Pathology Faculty Publications

The epichloae (Epichloë and Neotyphodium species), a monophyletic group of fungi in the family Clavicipitaceae, are systemic symbionts of cool-season grasses (Poaceae subfamily Poöideae). Most epichloae are vertically transmitted in seeds (endophytes), and most produce alkaloids that attack nervous systems of potential herbivores. These protective metabolites include ergot alkaloids and indole-diterpenes (tremorgens), which are active in vertebrate systems, and lolines and peramine, which are more specific against invertebrates. Several Epichloë species have been described which are sexual and capable of horizontal transmission, and most are vertically transmissible also. Asexual epichloae are mainly or exclusively vertically transmitted, and many are …

Lower San Luis Obispo Creek Stewardship Plan, Raven Lukehart, Daniel Bohlman

Natural Resources Management and Environmental Sciences

No abstract provided.

Preharvest Quarantine Treatments Of Chlorantraniliprole, Clothianidin, And Imidacloprid-Based Insecticides For Control Of Japanese Beetle (Coleoptera: Scarabaeidae) And Other Scarab Larvae In The Root Zone Of Field-Grown Nursery Trees, Jason B. Oliver, Christopher M. Ranger, Michael E. Reding, James J. Moyseenko, Nadeer N. Youssef, Alicia M. Bray

Agricultural and Environmental Sciences Faculty Research

Japanese beetle, Popillia japonica Newman (Coleoptera: Scarabaeidae), is an important quarantine pest of nurseries. Nursery plant movement from P. japonica-infested regions is regulated by the U.S. Domestic Japanese Beetle Harmonization Plan (DJHP), which classifies states by risk categories. Treatments for category 2 states include preharvest soil surface treatment of nursery plants grown in field soil using Discus SC, Marathon (1G or 60 WP), or Flagship (0.22G or 25 WG). In this study, Discus, Marathon 60 WP, or Flagship 0.22G DJHP standards were compared with labeled rates of non–DJHP-approved insecticides, including neonicotinoids clothianidin (Arena 50WDG), generic imidacloprid (Quali-Pro Imidacloprid 2 F …

Comparing Effects Of Insecticides On Two Green Lacewings Species, Chrysoperla Johnsoni And Chrysoperla Carnea (Neuroptera: Chrysopidae), K. G. Amarasekare, P. W. Shearer

Agricultural and Environmental Sciences Faculty Research

This study compared lethal and sublethal effects of five insecticides, chlorantraniliprole, cyantraniliprole, spinetoram, novaluron, and lambda-cyhalothrin, on adult and second instars of two green lacewing species, Chrysoperla carnea (Stephens) and Chrysoperla johnsoni Henry, Wells and Pupedis (Neuroptera: Chrysopidae) in the laboratory. Formulated pesticides were tested using concentrations equivalent to the high label rate dissolved in 378.5 liters of water. Novaluron and lambda-cyhalothrin were toxic to larvae and no treated larvae survived to the adult stage. Larva to adult survival was reduced in chlorantraniliprole, cyantraniliprole, and spinetoram treatments. Larva to adult developmental time and sex ratio were not different among the …

Nebline, June 2013

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Smart Family Finances

Farm Views

Urban Agriculture

Food & Fitness

Home & Family Living

Horticulture

Environmental Focus

4-H & Youth

Community Focus

Extension Calendar

Nutrition Education Program

Family and Community Education (FCE) Clubs

and other extension news and events