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- Creator:
- Louie, Michael J., Shelby, Patrick M., Smesrud, Jason S., Gatchell, Lance O., and Selker, John S.
- Abstract:
- Passive capillary samplers (PCAPS), which sample water from the vadose zone via a hanging water column in a fiberglass wick, have shown potential to provide superior estimates of soil water flux compared to alternative methods. The objectives of this study were to evaluate the performance of PCAPS under natural rain-fed...
- Resource Type:
- Article
- Full Text:
- , • Patrick M. Shelby, 2 Jason S. Smesrud, 3 Lance O. Gatcheil, 4 and John S. Selker s Abstract. Passive
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- Creator:
- Smesrud, Jason K.
- Abstract:
- The agricultural production of peppermint has been shown to contribute significant quantities of nitrate-nitrogen to groundwater recharge. In an effort to provide new tools for increasing nitrogen efficiency within peppermint production, three research questions were proposed: i) How should plant tissue samples be collected to achieve the greatest precision when...
- Resource Type:
- Masters Thesis
- Full Text:
- Considerations for the Stem Nitrate Test in Peppermint Jason K. Smesrud and John S. Selker Submitted to
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- Creator:
- Adams, Jason S.
- Abstract:
- The purpose of this project was to investigate play and our cultural assumptions as to its usefulness or lack there of. The concepts of hard work versus hard play were explored in order to discover when human beings are operating at their best. In terms of innovation and productivity in...
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- excellence. It is difficult for many adults to say, “I get paid to play for a living,” when s/he is
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- Creator:
- Adams, Jason S.
- Abstract:
- The purpose of this project was to investigate play and our cultural assumptions as to its usefulness or lack there of. The concepts of hard work versus hard play were explored in order to discover when human beings are operating at their best. In terms of innovation and productivity in...
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- Jason S. Adams for the degree of Honors Baccalaureate of Science in Business Administration presented
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- Creator:
- Cumbie, Jason S.
- Abstract:
- Oomycetes are some of the most devastating pathogens, causing upwards of billions of dollars of damage each year to plants. They also diminish ecological diversity and health through the destruction of trees and shrubs. The genome sequence of Pseudoperonospora cubensis, an obligate plant pathogen and causative agent of downy mildew...
- Resource Type:
- Dissertation
- Full Text:
- AN ABSTRACT OF THE DISSERTATION OF Jason S. Cumbie for the degree of Doctor of Philosophy in
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- Creator:
- Wood, Jason S.
- Abstract:
- Fundraising in the 21st century is becoming an increasingly important component of rural community colleges' (RCCs) overall funding strategies. Alumni represent a significant population of potential college supporters. The problem facing rural community colleges involves fiscal viability through developing innovative fundraising practices and identifying emerging sources of additional revenue. The...
- Resource Type:
- Dissertation
- Full Text:
- AN ABSTACT OF THE DISSERTATION OF Jason S. Wood
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- Creator:
- Lusk, Jason S.
- Abstract:
- Part 1: A Diels-Alder Approach to the Synthesis of Novel Analogues of the Natural Product Siamenol Due to the prevalence of biaryl motifs in natural product synthesis, the Carter research group has been exploring the utility of a Diels-Alder approach to biaryl synthesis. The Diels-Alder approach involves a [4+2] cycloaddition...
- Resource Type:
- Honors College Thesis
- Full Text:
- THESIS OF Jason S. Lusk for the degree of Honors Baccalaureate of Science in Chemistry presented on
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- Creator:
- Adams, Jason S.
- Abstract:
- The purpose of this project was to investigate play and our cultural assumptions as to its usefulness or lack there of. The concepts of hard work versus hard play were explored in order to discover when human beings are operating at their best. In terms of innovation and productivity in...
- Resource Type:
- Honors College Thesis
- Full Text:
- get paid to play for a living,” when s/he is captivated by their vocation. As noted earlier in our
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- Creator:
- Cumbie, Jason S., Filichkin, Sergei A., and Megraw, Molly
- Abstract:
- Background: Identifying cis-regulatory elements is critical in understanding the direct and indirect regulatory mechanisms of gene expression. Current approaches include DNase-seq, a technique that combines sensitivity to the nonspecific endonuclease DNase I with high throughput sequencing to identify regions of regulatory DNA on a genome-wide scale. While this method was...
- Resource Type:
- Article
- Full Text:
- facilitates high resolution mapping of DNase I hypersensitive sites in roots in Arabidopsis thaliana Jason S
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- Creator:
- Hibbett, David S., Stajich, Jason E., and Spatafora, Joseph W.
- Abstract:
- Genome-enabled mycology is a rapidly expanding field that is characterized by the pervasive use of genome-scale data and associated computational tools in all aspects of fungal biology. Genome-enabled mycology is integrative and often requires teams of researchers with diverse skills in organismal mycology, bioinformatics and molecular biology. This issue of...
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- Article
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- mycology David S. Hibbett1 Biology Department, Clark University, Worcester, Massachusetts 01610 Jason E
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- Creator:
- Doherty, Kevin E., Tack, Jason D., Evans, Jeffrey S., and Naugle, David E.
- Abstract:
- A major goal in greater sage-grouse (Centrocercus urophasianus, hereafter ‘sage-grouse’) conservation is to spend limited resources efficiently by conserving large and functioning populations. We used maximum count data from leks (n = 4,885) to delineate high abundance population centers that contain 25, 50, 75, and 100% of the known breeding...
- Resource Type:
- Technical Report
- Full Text:
- : Interagency Agreement # L10PG00911 By Kevin E. Doherty1, Jason D. Tack2, Jeffrey S. Evans3, and David E
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- Creator:
- Burkhardt, Alyssa, Buchanan, Alex, Cumbie, Jason S., Savory, Elizabeth, A., Chang, Jeff H., and Day, Brad
- Abstract:
- We re-sequenced the Pseudoperonospora cubensis transcriptome to provide the first extensive transcriptome-wide survey of alternative splicing in an obligate biotrophic pathogen during host infection. The libraries from biological replicates of cucumber leaves infected with Ps. cubensis for 2, 3, 4, and 8 days post inoculation (dpi) were re-sequenced using 100-mer...
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- Creator:
- Burkhardt, Alyssa, Buchanan, Alex, Cumbie, Jason S., Savory, Elizabeth, A., Chang, Jeff H., and Day, Brad
- Abstract:
- We re-sequenced the Pseudoperonospora cubensis transcriptome to provide the first extensive transcriptome-wide survey of alternative splicing in an obligate biotrophic pathogen during host infection. The libraries from biological replicates of cucumber leaves infected with Ps. cubensis for 2, 3, 4, and 8 days post inoculation (dpi) were re-sequenced using 100-mer...
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- Creator:
- Burkhardt, Alyssa, Buchanan, Alex, Cumbie, Jason S., Savory, Elizabeth, A., Chang, Jeff H., and Day, Brad
- Abstract:
- We re-sequenced the Pseudoperonospora cubensis transcriptome to provide the first extensive transcriptome-wide survey of alternative splicing in an obligate biotrophic pathogen during host infection. The libraries from biological replicates of cucumber leaves infected with Ps. cubensis for 2, 3, 4, and 8 days post inoculation (dpi) were re-sequenced using 100-mer...
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- Creator:
- Inglis, Diane O., Skrzypek, Marek S., Liaw, Edward, Moktali, Venkatesh, Sherlock, Gavin, and Stajich, Jason E.
- Abstract:
- Cryptococcus, a major cause of disseminated infections in immunocompromised patients, kills over 600,000 people per year worldwide. Genes involved in the virulence of the meningitis-causing fungus are being characterized at an increasing rate, and to date, at least 648 Cryptococcus gene names have been published. However, these data are scattered...
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- related to (and behaves more like) the CTR2 from S. cereivisiae than does the gene with the standard name
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- Creator:
- Inglis, Diane O., Skrzypek, Marek S., Liaw, Edward, Moktali, Venkatesh, Sherlock, Gavin, and Stajich, Jason E.
- Abstract:
- Cryptococcus, a major cause of disseminated infections in immunocompromised patients, kills over 600,000 people per year worldwide. Genes involved in the virulence of the meningitis-causing fungus are being characterized at an increasing rate, and to date, at least 648 Cryptococcus gene names have been published. However, these data are scattered...
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- Cryptococcus Inglis, D. O., Skrzypek, M. S., Liaw, E., Moktali, V., Sherlock, G., & Stajich, J. E. (2014
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- Creator:
- Scott, Jason B., Gent, David H., Hay, Frank S., and Pethybridge, Sarah J.
- Abstract:
- Flower number is the primary determinant of yield in pyrethrum (Tanacetum cineariifolium). Traditional estimates of flower numbers use physical harvesting of flowers, which is time consuming, destructive, and complicated. The precision of flower number estimates may be highly influenced by spatial heterogeneity of plant density and vigor. Here, we examined...
- Resource Type:
- Article
- Full Text:
- Using Digital Imagery Jason B. Scott1,4, David H. Gent2, Frank S. Hay3, and Sarah J. Pethybridge3
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- Creator:
- Burkhardt, Alyssa, Buchanan, Alex, Cumbie, Jason S., Savory, Elizabeth A., Chang, Jeff H., and Day, Brad
- Abstract:
- Pseudoperonospora cubensis is an obligate pathogen and causative agent of cucurbit downy mildew. To help advance our understanding of the pathogenicity of P. cubensis, we used RNA-Seq to improve the quality of its reference genome sequence. We also characterized the RNA-Seq dataset to inventory transcript isoforms and infer alternative splicing...
- Resource Type:
- Article
- Full Text:
- Oomycete Pathogen Pseudoperonospora cubensis Alyssa Burkhardt,1 Alex Buchanan,2 Jason S. Cumbie,2,3
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- Creator:
- Inglis, Diane O., Skrzypek, Marek S., Liaw, Edward, Moktali, Venkatesh, Sherlock, Gavin, and Stajich, Jason E.
- Abstract:
- Cryptococcus, a major cause of disseminated infections in immunocompromised patients, kills over 600,000 people per year worldwide. Genes involved in the virulence of the meningitis-causing fungus are being characterized at an increasing rate, and to date, at least 648 Cryptococcus gene names have been published. However, these data are scattered...
- Resource Type:
- Article
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- Creator:
- Burkhardt, Alyssa, Buchanan, Alex, Cumbie, Jason S., Savory, Elizabeth A., Chang, Jeff H., and Day, Brad
- Abstract:
- We re-sequenced the Pseudoperonospora cubensis transcriptome to provide the first extensive transcriptome-wide survey of alternative splicing in an obligate biotrophic pathogen during host infection. The libraries from biological replicates of cucumber leaves infected with Ps. cubensis for 2, 3, 4, and 8 days post inoculation (dpi) were re-sequenced using 100-mer...
- Resource Type:
- Dataset
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- Creator:
- Scott, Jason B., Gent, David H., Pethybridge, Sarah J., and Hay, Frank S.
- Abstract:
- Sclerotinia crown rot, caused by Sclerotinia minor and S. sclerotiorum, is a disease of pyrethrum in Australia that may cause substantial decline in plant density. The spatiotemporal characteristics of the disease were quantified in 14 fields during three growing seasons. Fitting the binary power law to disease incidence provided slope...
- Resource Type:
- Article
- Full Text:
- Crown Rot Epidemics in Pyrethrum Jason B. Scott, Tasmanian Institute of Agriculture (TIA), University
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- Creator:
- Mi, Gu, Di, Yanming, Emerson, Sarah, Cumbie, Jason S., and Chang, Jeff H.
- Abstract:
- When assessing differential gene expression from RNA sequencing data, commonly used statistical tests tend to have greater power to detect differential expression of genes encoding longer transcripts. This phenomenon, called "length bias", will influence subsequent analyses such as Gene Ontology enrichment analysis. In the presence of length bias, Gene Ontology...
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- Article
- Full Text:
- Enrichment Analysis Using Logistic Regression Gu Mi1*, Yanming Di1,2, Sarah Emerson1, Jason S. Cumbie2,3
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- Creator:
- McMillan, John R., Dunham, Jason B., Reeves, Gordon H., Mills, Justin S., and Jordan, Chris E.
- Abstract:
- Alternative male phenotypes in salmonine fishes arise from individuals that mature as larger and older anadromous marine-migrants or as smaller and younger freshwater residents. To better understand the processes influencing the expression of these phenotypes we examined the influences of growth in length (fork length) and whole body lipid content...
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- Article
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- maturation of rainbow and steelhead trout, Oncorhynchus mykiss John R. McMillan & Jason B. Dunham & Gordon H
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- Creator:
- O'Malley, Thomas B., Hay, Frank S., Scott, Jason B., Gent, David H., Shivas, Roger G., and Pethybridge, Sarah J.
- Abstract:
- Carpogenic germination of sclerotia and infection of flowers by ascospores of Sclerotinia minor is rare and seldom documented in most hosts. During 2007–2009, S. minor isolates were obtained from surface-sterilized pyrethrum flowers collected from fields in Australia. The isolation frequency of S. minor from flowers in 2007, 2008 and 2009...
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- phylogenetic analysis of S. minor isolates obtained from pyrethrum flowers in Australia. Species Isolate
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- Creator:
- O'Malley, Thomas B., Hay, Frank S., Scott, Jason B., Gent, David H., Shivas, Roger G., and Pethybridge, Sarah J.
- Abstract:
- Carpogenic germination of sclerotia and infection of flowers by ascospores of Sclerotinia minor is rare and seldom documented in most hosts. During 2007–2009, S. minor isolates were obtained from surface-sterilized pyrethrum flowers collected from fields in Australia. The isolation frequency of S. minor from flowers in 2007, 2008 and 2009...
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- THOMAS B. O’MALLEY1, FRANK S. HAY1, JASON B. SCOTT1, DAVID H. GENT2, ROGER G. SHIVAS3 AND SARAH J
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- Creator:
- Hay, Frank S., Gent, David H., Pilkington, Stacey J., Pearce, Tamieka L., Scott, Jason B., and Pethybridge, Sarah J.
- Abstract:
- In Australia, pyrethrum (Tanacetum cinerariifolium) is affected by a foliar disease complex that can substantially reduce green leaf area and yield. Historically, the most important foliar disease of pyrethrum in Australia has been ray blight, caused by Stagonosporopsis tanaceti, and other fungi generally of minor importance. Temporal fluctuations in the...
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- Article
- Full Text:
- Fungi Associated With a Foliar Disease Complex of Pyrethrum in Australia Hay, F. S., Gent, D. H
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- Creator:
- O'Malley, Thomas B., Hay, Frank S., Scott, Jason B., Gent, David H., Shivas, Roger G., and Pethybridge, Sarah J.
- Abstract:
- Carpogenic germination of sclerotia and infection of flowers by ascospores of Sclerotinia minor is rare and seldom documented in most hosts. During 2007–2009, S. minor isolates were obtained from surface-sterilized pyrethrum flowers collected from fields in Australia. The isolation frequency of S. minor from flowers in 2007, 2008 and 2009...
- Resource Type:
- Article
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- Creator:
- Addison, Jason A., Finney, Bruce P., Jaeger, John M., Stoner, Joseph S., Norris, Richard D., and Hangsterfer, Alexandra
- Abstract:
- Assessments of climate change over time scales that exceed the last 100 years require robust integration of high-quality instrument records with high-resolution paleoclimate proxy data. In this study, we show that the recent biogenic sediments accumulating in two temperate ice-free fjords in Southeast Alaska preserve evidence of North Pacific Ocean...
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- Article
- Full Text:
- Jason A. Addison,1 Bruce P. Finney,2 John M. Jaeger,3 Joseph S. Stoner,4 Richard D. Norris,5 and
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- Creator:
- Mills, Justin S., Dunham, Jason B., Reeves, Gordon H., McMillan, John R., Zimmerman, Christian E., and Jordan, Chris E.
- Abstract:
- We described and predicted spatial variation in marine migration (anadromy) of female Oncorhynchus mykiss in the John Day River watershed, Oregon. We collected 149 juvenile O. mykiss across 72 sites and identified locations used by anadromous females by assigning maternal origin (anadromous versus non-anadromous) to each juvenile. These assignments used...
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- Article
- Full Text:
- mykiss within a river network Justin S. Mills & Jason B. Dunham & Gordon H. Reeves & John R. McMillan
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- Creator:
- Kasschau, Kristin D., Fahlgren, Noah, Chapman, Elisabeth J., Sullivan, Christopher M., Cumbie, Jason S., Givan, Scott A., and Carrington, James C.
- Abstract:
- Eukaryotes contain a diversified set of small RNA-guided pathways that control genes, repeated sequences, and viruses at the transcriptional and posttranscriptional levels. Genome-wide profiles and analyses of small RNAs, particularly the large class of 24-nucleotide (nt) short interfering RNAs (siRNAs), were done for wild-type Arabidopsis thaliana and silencing pathway mutants...
- Resource Type:
- Article
- Full Text:
- . Sullivan 1,2 , Jason S. Cumbie 1,2 , Scott A. Givan 1,2 , James C. Carrington 1,2* 1 Center for Genome
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- Creator:
- Risch, Denise, Gales, Nicholas J., Gedamke, Jason, Kindermann, Lars, Nowacek, Douglas P., Read, Andrew J., Siebert, Ursula, Van Opzeeland, Ilse C., Van Parijs, Sofie M., and Friedlaender, Ari S.
- Abstract:
- For decades, the bio-duck sound has been recorded in the Southern Ocean, but the animal producing it has remained a mystery. Heard mainly during austral winter in the Southern Ocean, this ubiquitous sound has been recorded in Antarctic waters and contemporaneously off the Australian west coast. Here, we present conclusive...
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- ., ... & Friedlaender, A. S. (2014). Mysterious bio-duck sound attributed to the Antarctic minke whale (Balaenoptera
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- Creator:
- Risch, Denise, Gales, Nicholas J., Gedamke, Jason, Kindermann, Lars, Nowacek, Douglas P., Read, Andrew J., Siebert, Ursula, Van Opzeeland, Ilse C., Van Parijs, Sofie M., and Friedlaender, Ari S.
- Abstract:
- For decades, the bio-duck sound has been recorded in the Southern Ocean, but the animal producing it has remained a mystery. Heard mainly during austral winter in the Southern Ocean, this ubiquitous sound has been recorded in Antarctic waters and contemporaneously off the Australian west coast. Here, we present conclusive...
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- Creator:
- Risch, Denise, Gales, Nicholas J., Gedamke, Jason, Kindermann, Lars, Nowacek, Douglas P., Read, Andrew J., Siebert, Ursula, Van Opzeeland, Ilse C., Van Parijs, Sofie M., and Friedlaender, Ari S.
- Abstract:
- For decades, the bio-duck sound has been recorded in the Southern Ocean, but the animal producing it has remained a mystery. Heard mainly during austral winter in the Southern Ocean, this ubiquitous sound has been recorded in Antarctic waters and contemporaneously off the Australian west coast. Here, we present conclusive...
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- Creator:
- Risch, Denise, Gales, Nicholas J., Gedamke, Jason, Kindermann, Lars, Nowacek, Douglas P., Read, Andrew J., Siebert, Ursula, Van Opzeeland, Ilse C., Van Parijs, Sofie M., and Friedlaender, Ari S.
- Abstract:
- For decades, the bio-duck sound has been recorded in the Southern Ocean, but the animal producing it has remained a mystery. Heard mainly during austral winter in the Southern Ocean, this ubiquitous sound has been recorded in Antarctic waters and contemporaneously off the Australian west coast. Here, we present conclusive...
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- Creator:
- Risch, Denise, Gales, Nicholas J., Gedamke, Jason, Kindermann, Lars, Nowacek, Douglas P., Read, Andrew J., Siebert, Ursula, Van Opzeeland, Ilse C., Van Parijs, Sofie M., and Friedlaender, Ari S.
- Abstract:
- For decades, the bio-duck sound has been recorded in the Southern Ocean, but the animal producing it has remained a mystery. Heard mainly during austral winter in the Southern Ocean, this ubiquitous sound has been recorded in Antarctic waters and contemporaneously off the Australian west coast. Here, we present conclusive...
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- Creator:
- Risch, Denise, Gales, Nicholas J., Gedamke, Jason, Kindermann, Lars, Nowacek, Douglas P., Read, Andrew J., Siebert, Ursula, Van Opzeeland, Ilse C., Van Parijs, Sofie M., and Friedlaender, Ari S.
- Abstract:
- For decades, the bio-duck sound has been recorded in the Southern Ocean, but the animal producing it has remained a mystery. Heard mainly during austral winter in the Southern Ocean, this ubiquitous sound has been recorded in Antarctic waters and contemporaneously off the Australian west coast. Here, we present conclusive...
- Full Text:
- bonaerensis) Authors: Denise Risch, Nicholas J. Gales, Jason Gedamke, Lars Kindermann, Douglas P. Nowacek
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- Creator:
- Risch, Denise, Gales, Nicholas J., Gedamke, Jason, Kindermann, Lars, Nowacek, Douglas P., Read, Andrew J., Siebert, Ursula, Van Opzeeland, Ilse C., Van Parijs, Sofie M., and Friedlaender, Ari S.
- Abstract:
- For decades, the bio-duck sound has been recorded in the Southern Ocean, but the animal producing it has remained a mystery. Heard mainly during austral winter in the Southern Ocean, this ubiquitous sound has been recorded in Antarctic waters and contemporaneously off the Australian west coast. Here, we present conclusive...
- Resource Type:
- Article
-
- Creator:
- Addison, Jason A., Finney, Bruce P., Dean, Walter E., Davies, Maureen H., Mix, Alan C., Stoner, Joseph S., and Jaeger, John M.
- Abstract:
- Biogenic opal, organic carbon, organic matter stable isotope, and trace metal data from a well-dated, high-resolution jumbo piston core (EW0408–85JC; 59° 33.3′N, 144° 9.21′W, 682 m water depth) recovered from the northern Gulf of Alaska continental slope reveal changes in productivity and nutrient utilization over the last 17,000 years. Maximum...
- Resource Type:
- Article
- Full Text:
- continental slope Jason A. Addison,1,2 Bruce P. Finney,3 Walter E. Dean,4 Maureen H. Davies,5 Alan C. Mix,5
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- Creator:
- Melnychuk, Michael C., Essington, Timothy E., Branch, Trevor A., Heppell, Selina S., Jensen, Olaf P., Link, Jason S., Martell, Steven J. D., Parma, Ana M., and Smith, Anthony D. M.
- Abstract:
- Individual quota (IQ) management systems in commercial marine fisheries are highly diverse, differing in the security, durability and exclusivity of the harvesting privilege and the transferability of quota units. This diversity in the degree of harvest rights may influence the effectiveness of IQ fisheries to meet management objectives. We conducted...
- Full Text:
- and Ftarget, and/or of B and Btarget, were drawn from assessments. ‘S’ indicates that reference
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- Creator:
- Melnychuk, Michael C., Essington, Timothy E., Branch, Trevor A., Heppell, Selina S., Jensen, Olaf P., Link, Jason S., Martell, Steven J. D., Parma, Ana M., and Smith, Anthony D. M.
- Abstract:
- Individual quota (IQ) management systems in commercial marine fisheries are highly diverse, differing in the security, durability and exclusivity of the harvesting privilege and the transferability of quota units. This diversity in the degree of harvest rights may influence the effectiveness of IQ fisheries to meet management objectives. We conducted...
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- Creator:
- Melnychuk, Michael C., Essington, Timothy E., Branch, Trevor A., Heppell, Selina S., Jensen, Olaf P., Link, Jason S., Martell, Steven J. D., Parma, Ana M., and Smith, Anthony D. M.
- Abstract:
- Individual quota (IQ) management systems in commercial marine fisheries are highly diverse, differing in the security, durability and exclusivity of the harvesting privilege and the transferability of quota units. This diversity in the degree of harvest rights may influence the effectiveness of IQ fisheries to meet management objectives. We conducted...
- Full Text:
- ,†, Olaf P Jensen3,†, Jason S Link4,†, Steven J D Martell5,†, Ana M Parma6,† & Anthony D M Smith7
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- Creator:
- Mucyn, Tatiana S., Yourstone, Scott, Lind, Abigail L., Biswas, Surojit, Nishimura, Marc T., Baltrus, David A., Cumbie, Jason S., Chang, Jeff H., Jones, Corbin D., Dangl, Jeffery L., and Grant, Sarah R.
- Abstract:
- Pseudomonas syringae is a phylogenetically diverse species of Gram-negative bacterial plant pathogens responsible for crop diseases around the world. The HrpL sigma factor drives expression of the major P. syringae virulence regulon. HrpL controls expression of the genes encoding the structural and functional components of the type III secretion system...
- Full Text:
- . Baltrus3, Jason S. Cumbie4,5, Jeff H. Chang4,5,6, Corbin D. Jones1,2,7,8,9, Jeffery L. Dangl1,2,7,9,10,11
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- Creator:
- Mucyn, Tatiana S., Yourstone, Scott, Lind, Abigail L., Biswas, Surojit, Nishimura, Marc T., Baltrus, David A., Cumbie, Jason S., Chang, Jeff H., Jones, Corbin D., Dangl, Jeffery L., and Grant, Sarah R.
- Abstract:
- Pseudomonas syringae is a phylogenetically diverse species of Gram-negative bacterial plant pathogens responsible for crop diseases around the world. The HrpL sigma factor drives expression of the major P. syringae virulence regulon. HrpL controls expression of the genes encoding the structural and functional components of the type III secretion system...
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- Creator:
- Melnychuk, Michael C., Essington, Timothy E., Branch, Trevor A., Heppell, Selina S., Jensen, Olaf P., Link, Jason S., Martell, Steven J. D., Parma, Ana M., and Smith, Anthony D. M.
- Abstract:
- Individual quota (IQ) management systems in commercial marine fisheries are highly diverse, differing in the security, durability and exclusivity of the harvesting privilege and the transferability of quota units. This diversity in the degree of harvest rights may influence the effectiveness of IQ fisheries to meet management objectives. We conducted...
- Resource Type:
- Article
-
- Creator:
- Mucyn, Tatiana S., Yourstone, Scott, Lind, Abigail L., Biswas, Surojit, Nishimura, Marc T., Baltrus, David A., Cumbie, Jason S., Chang, Jeff H., Jones, Corbin D., Dangl, Jeffery L., and Grant, Sarah R.
- Abstract:
- Pseudomonas syringae is a phylogenetically diverse species of Gram-negative bacterial plant pathogens responsible for crop diseases around the world. The HrpL sigma factor drives expression of the major P. syringae virulence regulon. HrpL controls expression of the genes encoding the structural and functional components of the type III secretion system...
- Resource Type:
- Article
-
- Creator:
- Melnychuk, Michael C., Essington, Timothy E., Branch, Trevor A., Heppell, Selina S., Jensen, Olaf P., Link, Jason S., Martell, Steven J. D., Parma, Ana M., Pope, John G., and Smith, Anthony D. M.
- Abstract:
- Fisheries management based on catch shares – divisions of annual fleet-wide quotas among individuals or groups – has been strongly supported for their economic benefits, but biological consequences have not been rigorously quantified. We used a global meta-analysis of 345 stocks to assess whether fisheries under catch shares were more...
- Resource Type:
- Article
- Full Text:
- ,*, Olaf P Jensen3,*, Jason S Link4*, Steven J D Martell5,*, Ana M Parma6,*, John G Pope7,* & Anthony D M
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- Creator:
- Essington, Timothy E., Melnychuk, Michael C., Branch, Trevor A., Heppell, Selina S., Jensen, Olaf P., Link, Jason S., Martell, Steven J. D., Parma, Ana M., Pope, John G., and Smith, Anthony D. M.
- Abstract:
- Rights-based approaches are potentially promising tools to meet conservation objectives in natural resource management. Here, we evaluated how population status and fishery production respond to catch shares, a rights-based policy instrument in fisheries whereby participants are granted a right to harvest a fraction of the allowable catch. By analyzing time...
- Resource Type:
- Article
- Full Text:
- . Jensen3, Jason S. Link4, Steven J. D. Martell5, Ana M. Parma6, John G. Pope7, & Anthony D. M. Smith8
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- Creator:
- Orcutt, Beth N., LaRowe, Douglas E., Biddle, Jennifer F., Colwell, Frederick S., Glazer, Brian T., Reese, Brandi Kiel, Kirkpatrick, John B., Lapham, Laura L., Mills, Heath J., Sylvan, Jason B., Wankel, Scott D., and Wheat, C. Geoff
- Abstract:
- The vast marine deep biosphere consists of microbial habitats within sediment, pore waters, upper basaltic crust and the fluids that circulate throughout it. A wide range of temperature, pressure, pH, and electron donor and acceptor conditions exists—all of which can combine to affect carbon and nutrient cycling and result in...
- Resource Type:
- Article
- Full Text:
- . N., LaRowe, D. E., Biddle, J. F., Colwell, F. S., Glazer, B. T., Reese, B. K., ... & Wheat, C. G
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- Creator:
- Bushley, Kathryn E., Raja, Rajani, Jaiswal, Pankaj, Cumbie, Jason S., Nonogaki, Mariko, Boyd, Alexander E., Owensby, C. Alisha, Knaus, Brian J., Elser, Justin, Miller, Daniel, Di, Yanming, McPhail, Kerry L., and Spatafora, Joseph W.
- Abstract:
- The ascomycete fungus Tolypocladium inflatum, a pathogen of beetle larvae, is best known as the producer of the immunosuppressant drug cyclosporin. The draft genome of T. inflatum strain NRRL 8044 (ATCC 34921), the isolate from which cyclosporin was first isolated, is presented along with comparative analyses of the biosynthesis of...
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- Article
- Full Text:
- *, Rajani Raja1, Pankaj Jaiswal1, Jason S. Cumbie1, Mariko Nonogaki2, Alexander E. Boyd3, C. Alisha
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- Creator:
- Fahlgren, Noah, Howell, Miya D., Kasschau, Kristin D., Sullivan, Christopher M., Cumbie, Jason S., Givan, Scott A., Law, Theresa F., Grant, Sarah R., Dangl, Jeffrey L., and Carrington, James C.
- Abstract:
- In plants, microRNAs (miRNAs) comprise one of two classes of small RNAs that function primarily as negative regulators at the posttranscriptional level. Several MIRNA genes in the plant kingdom are ancient, with conservation extending between angiosperms and the mosses, whereas many others are more recently evolved. Here, we use deep...
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- . Kasschau1, Elisabeth J. Chapman1,2, Christopher M. Sullivan1, Jason S. Cumbie1, Scott A. Givan1, Theresa F
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- Creator:
- Fahlgren, Noah, Sullivan, Christopher M., Kasschau, Krisitin D., Chapman, Elisabeth J., Cumbie, Jason S., Montgomery, Taiowa A., Gilbert, Sunny D., Dasenko, Mark, Backman, Tyler W. H., Givan, Scott A., and Carrington, James C.
- Abstract:
- The advent of high-throughput sequencing (HTS) methods has enabled direct approaches to quantitatively profile small RNA populations. However, these methods have been limited by several factors, including representational artifacts and lack of established statistical methods of analysis. Furthermore, massive HTS data sets present new problems related to data processing and...
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- ,1,2 KRISTIN D. KASSCHAU,1,2 ELISABETH J. CHAPMAN,1,2,3 JASON S. CUMBIE,1,2 TAIOWA A. MONTGOMERY,1,2
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- Creator:
- Maxwell, Sara M., Hazen, Elliott L., Bograd, Steven J., Halpern, Benjamin S., Breed, Greg A., Nickel, Barry, Teutschel, Nicole M., Crowder, Larry B., Benson, Scott, Dutton, Peter H., Bailey, Helen, Kappes, Michelle A., Kuhn, Carey E., Weise, Michael J., Mate, Bruce, Shaffer, Scott A., Hassrick, Jason L., Henry, Robert W., Irvine, Ladd, McDonald, Birgitte I., Robinson, Patrick W., Block, Barbara A., and Costa, Daniel P.
- Abstract:
- Stressors associated with human activities interact in complex ways to affect marine ecosystems, yet we lack spatially explicit assessments of cumulative impacts on ecologically and economically key components such as marine predators. Here we develop a metric of cumulative utilization and impact (CUI) on marine predators by combining electronic tracking...
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- marine predators S. M. Maxwell, et al. Nature Communications. Supplementary Figure S1.Climate
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- Creator:
- Maxwell, Sara M., Hazen, Elliott L., Bograd, Steven J., Halpern, Benjamin S., Breed, Greg A., Nickel, Barry, Teutschel, Nicole M., Crowder, Larry B., Benson, Scott, Dutton, Peter H., Bailey, Helen, Kappes, Michelle A., Kuhn, Carey E., Weise, Michael J., Mate, Bruce, Shaffer, Scott A., Hassrick, Jason L., Henry, Robert W., Irvine, Ladd, McDonald, Birgitte I., Robinson, Patrick W., Block, Barbara A., and Costa, Daniel P.
- Abstract:
- Stressors associated with human activities interact in complex ways to affect marine ecosystems, yet we lack spatially explicit assessments of cumulative impacts on ecologically and economically key components such as marine predators. Here we develop a metric of cumulative utilization and impact (CUI) on marine predators by combining electronic tracking...
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- , Steven J. Bograd5, Benjamin S. Halpern7,8, Greg A. Breed9, Barry Nickel10, Nicole M. Teutschel11, Larry
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- Creator:
- Greaver, Tara L., Sullivan, Timothy J., Herrick, Jeffrey D., Barber, Mary C., Baron, Jill S., Cosby, Bernard J., Deerhake, Marion E., Dennis, Robin L., Dubois, Jean-Jacques B., Goodale, Christine L., Herlihy, Alan T., Lawrence, Gregory B., Liu, Lingli, Lynch, Jason A., and Novak, Kristopher J.
- Abstract:
- Four decades after the passage of the US Clean Air Act, air-quality standards are set to protect ecosystems from damage caused by gas-phase nitrogen (N) and sulfur (S) compounds, but not from the deposition of these air pollutants to land and water. Here, we synthesize recent scientific literature on the...
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- ) under grant agreement number PERG08-GA-2010-276969. Blanchet S, Grenouillet G, Beauchard O, et al. 2010
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- Creator:
- Greaver, Tara L., Sullivan, Timothy J., Herrick, Jeffrey D., Barber, Mary C., Baron, Jill S., Cosby, Bernard J., Deerhake, Marion E., Dennis, Robin L., Dubois, Jean-Jacques B., Goodale, Christine L., Herlihy, Alan T., Lawrence, Gregory B., Liu, Lingli, Lynch, Jason A., and Novak, Kristopher J.
- Abstract:
- Four decades after the passage of the US Clean Air Act, air-quality standards are set to protect ecosystems from damage caused by gas-phase nitrogen (N) and sulfur (S) compounds, but not from the deposition of these air pollutants to land and water. Here, we synthesize recent scientific literature on the...
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- www.frontiersinecology.org Oxidized chemical forms of nitrogen (N) and sulfur(S) in the gas phase (NOx and SOx, respectively
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- Di Lorenzo, Emanuele, Combes, Vincent, Keister, Julie E., Strub, P. Ted, Thomas, Andrew C., Franks, Peter J. S., Ohman, Mark D., Furtado, Jason C., Bracco, Annalisa, Bograd, Steven J., Peterson, William T., Schwing, Franklin B., Chiba, Sanae, Taguchi, Bunmei, Hormazabal, Samuel, and Parada, Carolina
- Abstract:
- The goal of the Pacific Ocean Boundary Ecosystem and Climate Study (POBEX) was to diagnose the large-scale climate controls on regional transport dynamics and lower trophic marine ecosystem variability in Pacific Ocean boundary systems. An international team of collaborators shared observational and eddy-resolving modeling data sets collected in the Northeast...
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- . Peterson, F.B. Schwing, S. Chiba, B. Taguchi, S. Hormazabal, and C. Parada. 2013. Synthesis of Pacific
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- Creator:
- Maxwell, Sara M., Hazen, Elliott L., Bograd, Steven J., Halpern, Benjamin S., Breed, Greg A., Nickel, Barry, Teutschel, Nicole M., Crowder, Larry B., Benson, Scott, Dutton, Peter H., Bailey, Helen, Kappes, Michelle A., Kuhn, Carey E., Weise, Michael J., Mate, Bruce, Shaffer, Scott A., Hassrick, Jason L., Henry, Robert W., Irvine, Ladd, McDonald, Birgitte I., Robinson, Patrick W., Block, Barbara A., and Costa, Daniel P.
- Abstract:
- Stressors associated with human activities interact in complex ways to affect marine ecosystems, yet we lack spatially explicit assessments of cumulative impacts on ecologically and economically key components such as marine predators. Here we develop a metric of cumulative utilization and impact (CUI) on marine predators by combining electronic tracking...
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- Article
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- Creator:
- Greaver, Tara L., Sullivan, Timothy J., Herrick, Jeffrey D., Barber, Mary C., Baron, Jill S., Cosby, Bernard J., Deerhake, Marion E., Dennis, Robin L., Dubois, Jean-Jacques B., Goodale, Christine L., Herlihy, Alan T., Lawrence, Gregory B., Liu, Lingli, Lynch, Jason A., and Novak, Kristopher J.
- Abstract:
- Four decades after the passage of the US Clean Air Act, air-quality standards are set to protect ecosystems from damage caused by gas-phase nitrogen (N) and sulfur (S) compounds, but not from the deposition of these air pollutants to land and water. Here, we synthesize recent scientific literature on the...
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- Article
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- Creator:
- Hunsicker, Mary E., Ciannelli, Lorenzo, Bailey, Kevin Mclean, Buckel, Jeffrey A., White, J. Wilson, Link, Jason S., Essington, Timothy E., Gaichas, Sarah, Anderson, Todd W., Brodeur, Richard D., Chan, Kung-Sik, Chen, Kun, Englund, Goran, Frank, Kenneth T., Freitas, Vania, Hixon, Mark A., Hurst, Thomas, Johnson, Darren W., Kitchell, James F., Reese, Doug, Rose, George A., Sjodin, Henrik, Sydeman, William J., van der Veer, Henk W., Vollset, Knut, and Zador, Stephani
- Abstract:
- Predatorprey interactions are a primary structuring force vital to the resilience of marine communities and sustainability of the worlds oceans. Human influences on marine ecosystems mediate changes in species interactions. This generality is evinced by the cascading effects of overharvesting top predators on the structure and function of marine ecosystems....
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- ,4 Jason S. Link,5 Timothy E. Essington,6 Sarah Gaichas,2 Todd W. Anderson,7 Richard D. Brodeur,8
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- Creator:
- Floudas, Dimitrios, Binder, Manfred, Riley, Robert, Barry, Kerrie, Blanchette, Robert A., Henrissat, Bernard, Martínez, Angel T., Otillar, Robert, Spatafora, Joseph W., Yadav, Jagjit S., Aerts, Andrea, Benoit, Isabelle, Boyd, Alex, Carlson, Alexis, Copeland, Alex, Coutinho, Pedro M., de Vries, Ronald P., Ferreira, Patricia, Findley, Keisha, Foster, Brian, Gaskell, Jill, Glotzer, Dylan, Gorecki, Pawel, Heitman, Joseph, Hesse, Cedar, Hori, Chiaki, Igarashi, Kiyohiko, Jurgens, Joel A., Kallen, Nathan, Kersten, Phil, Kohler, Annegret, Kues, Ursula, Kumar, T. K. Arun, Kuo, Alan, LaButti, Kurt, Larrondo, Luis F., Lindquist, Erika, Ling, Albee, Lombard, Vincent, Lucas, Susan, Lundell, Taina, Martin, Rachael, McLaughlin, David J., Morgenstern, Ingo, Morin, Emanuelle, Murat, Claude, Nagy, Laszlo G., Nolan, Matt, Ohm, Robin A., Patyshakuliyeva, Aleksandrina, Rokas, Antonis, Ruiz-Duenas, Francisco J., Sabat, Grzegorz, Salamov, Asaf, Samejima, Masahiro, Schmutz, Jeremy, Slot, Jason C., St. John, Franz, Stenlid, Jan, Sun, Hui, Sun, Sheng, Syed, Khajamohiddin, Tsang, Adrian, Wiebenga, Ad, Young, Darcy, Pisabarro, Antonio, Eastwood, Daniel C., Martin, Francis, Cullen, Dan, Grigoriev, Igor V., and Hibbett, David S.
- Abstract:
- Wood is a major pool of organic carbon that is highly resistant to decay, owing largely to the presence of lignin. The only organisms capable of substantial lignin decay are white rot fungi in the Agaricomycetes, which also contains non–lignin-degrading brown rot and ectomycorrhizal species. Comparative analyses of 31 fungal...
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- , Joseph W. Spatafora, Jagjit S. Yadav, Andrea Aerts, Isabelle Benoit, Alex Boyd, Alexis Carlson, Alex
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- Creator:
- Floudas, Dimitrios, Binder, Manfred, Riley, Robert, Barry, Kerrie, Blanchette, Robert A., Henrissat, Bernard, Martínez, Angel T., Otillar, Robert, Spatafora, Joseph W., Yadav, Jagjit S., Aerts, Andrea, Benoit, Isabelle, Boyd, Alex, Carlson, Alexis, Copeland, Alex, Coutinho, Pedro M., de Vries, Ronald P., Ferreira, Patricia, Findley, Keisha, Foster, Brian, Gaskell, Jill, Glotzer, Dylan, Gorecki, Pawel, Heitman, Joseph, Hesse, Cedar, Hori, Chiaki, Igarashi, Kiyohiko, Jurgens, Joel A., Kallen, Nathan, Kersten, Phil, Kohler, Annegret, Kues, Ursula, Kumar, T. K. Arun, Kuo, Alan, LaButti, Kurt, Larrondo, Luis F., Lindquist, Erika, Ling, Albee, Lombard, Vincent, Lucas, Susan, Lundell, Taina, Martin, Rachael, McLaughlin, David J., Morgenstern, Ingo, Morin, Emanuelle, Murat, Claude, Nagy, Laszlo G., Nolan, Matt, Ohm, Robin A., Patyshakuliyeva, Aleksandrina, Rokas, Antonis, Ruiz-Duenas, Francisco J., Sabat, Grzegorz, Salamov, Asaf, Samejima, Masahiro, Schmutz, Jeremy, Slot, Jason C., St. John, Franz, Stenlid, Jan, Sun, Hui, Sun, Sheng, Syed, Khajamohiddin, Tsang, Adrian, Wiebenga, Ad, Young, Darcy, Pisabarro, Antonio, Eastwood, Daniel C., Martin, Francis, Cullen, Dan, Grigoriev, Igor V., and Hibbett, David S.
- Abstract:
- Wood is a major pool of organic carbon that is highly resistant to decay, owing largely to the presence of lignin. The only organisms capable of substantial lignin decay are white rot fungi in the Agaricomycetes, which also contains non–lignin-degrading brown rot and ectomycorrhizal species. Comparative analyses of 31 fungal...
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- . Butler, J. Hered. 43, 25 (1952). 2. A. F. Yeager, Proc. Am. Soc. Hort. Sci. 33, 512 (1935). 3. S. M
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- Creator:
- Floudas, Dimitrios, Yadav, Jagjit S., Aerts, Andrea, Benoit, Isabelle, Boyd, Alex, Carlson, Alexis, Copeland, Alex, Coutinho, Pedro M., de Vries, Ronald P., Ferreira, Patricia, Findley, Keisha, Binder, Manfred, Foster, Brian, Gaskell, Jill, Glotzer, Dylan, Gorecki, Pawel, Heitman, Joseph, Hesse, Cedar, Hori, Chiaki, Igarashi, Kiyohiko, Jurgens, Joel A., Kallen, Nathan, Riley, Robert, Kersten, Phil, Kohler, Annegret, Kues, Ursula, Kumar, T. K. Arun, Kuo, Alan, LaButti, Kurt, Larrondo, Luis F., Lindquist, Erika, Ling, Albee, Lombard, Vincent, Barry, Kerrie, Lucas, Susan, Lundell, Taina, Martin, Rachael, McLaughlin, David J., Morgenstern, Ingo, Morin, Emanuelle, Murat, Claude, Nagy, Laszlo G., Nolan, Matt, Ohm, Robin A., Blanchette, Robert A., Patyshakuliyeva, Aleksandrina, Rokas, Antonis, Ruiz-Duenas, Francisco J., Sabat, Grzegorz, Salamov, Asaf, Samejima, Masahiro, Schmutz, Jeremy, Slot, Jason C., St. John, Franz, Stenlid, Jan, Henrissat, Bernard, Sun, Hui, Sun, Sheng, Syed, Khajamohiddin, Tsang, Adrian, Wiebenga, Ad, Young, Darcy, Pisabarro, Antonio, Eastwood, Daniel C., Martin, Francis, Cullen, Dan, Martínez, Angel T., Grigoriev, Igor V., Hibbett, David S., Otillar, Robert, and Spatafora, Joseph W.
- Abstract:
- Wood is a major pool of organic carbon that is highly resistant to decay, owing largely to the presence of lignin. The only organisms capable of substantial lignin decay are white rot fungi in the Agaricomycetes, which also contains non–lignin-degrading brown rot and ectomycorrhizal species. Comparative analyses of 31 fungal...
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AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
- Creator:
- Harper, Lisa, Campbell, Jacqueline, Cannon, Steve, Carson, James, Condon, Bradford, Cooper, Laurel, Dunn, Nathan, Elsik, Christine G., Farmer, Andrew, Ficklin, Stephen P., Grant, David, Grau, Emily, Cannon, Ethalinda K. S., Herndon, Nic, Hu, Zhi-Liang, Humann, Jodi, Jaiswal, Pankaj, Jonquet, Clement, Laporte, Marie-Angelique, Larmande, Pierre, Lazo, Gerard, McCarthy, Fiona, Menda, Naama, Jung, Sook, Mungall, Christopher J., Munoz-Torres, Monica C., Naithani, Sushma, Nelson, Rex, Nesdill, Daureen, Park, Carissa, Reecy, James, Reiser, Leonore, Sanderson, Lacey-Anne, Sen, Taner Z., Poelchau, Monica, Staton, Margaret, Subramaniam, Sabarinath, Tello-Ruiz, Marcela Karey, Unda, Victor, Unni, Deepak, Wang, Liya, Ware, Doreen, Wegrzyn, Jill, Williams, Jason, Woodhouse, Margaret, Walls, Ramona, Yu, Jing, Main, Doreen, Andorf, Carson, Arnaud, Elizabeth, Berardini, Tanya Z., and Birkett, Clayton
- Abstract:
- The future of agricultural research depends on data. The sheer volume of agricultural biological data being produced today makes excellent data management essential. Governmental agencies, publishers and science funders require datamanagement plans for publicly funded research. Furthermore, the value of data increases exponentially when they are properly stored, described, integrated...
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- © The Author(s) 2018. Published by Oxford University Press
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- Pfeifer, Marion, Lefebvre, Veronique, Gardner, Toby A., Arroyo‐Rodriguez, Victor, Baeten, Lander, Banks‐Leite, Cristina, Barlow, Jos, Betts, Matthew G., Brunet, Joerg, Cerezo, Alexis, Cisneros, Laura M., Collard, Stuart, D'Cruze, Neil, da Silva Motta, Catarina, Duguay, Stephanie, Eggermont, Hilde, Eigenbrod, Felix, Hadley, Adam S., Hanson, Thor R., Hawes, Joseph E., Heartsill Scalley, Tamara, Klingbeil, Brian T., Kolb, Annette, Kormann, Urs, Kumar, Sunil, Lachat, Thibault, Lakeman Fraser, Poppy, Lantschner, Victoria, Laurance, William F., Leal, Inara R., Lens, Luc, Marsh, Charles J., Medina‐Rangel, Guido F., Melles, Stephanie, Mezger, Dirk, Oldekop, Johan A., Overal, William L., Owen, Charlotte, Peres, Carlos A., Phalan, Ben, Pidgeon, Anna M., Pilia, Oriana, Possingham, Hugh P., Possingham, Max L., Raheem, Dinarzarde C., Ribeiro, Danilo B., Ribeiro Neto, Jose D., Robinson, W. Douglas, Robinson, Richard, Rytwinski, Trina, Scherber, Christoph, Slade, Eleanor M., Somarriba, Eduardo, Stouffer, Philip C., Struebig, Matthew J., Tylianakis, Jason M., Tscharntke, Teja, Tyre, Andrew J., Urbina Cardona, Jose N., Vasconcelos, Heraldo L., Wearn, Oliver, Wells, Konstans, Willig, Michael R., Wood, Eric, Young, Richard P., Bradley, Andrew V., and Ewers, Robert M.
- Abstract:
- 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...
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- , Catarina da Silva Motta13,†, Stephanie Duguay14, Hilde Eggermont15, Felix Eigenbrod16, Adam S. Hadley6