The kinetic mechanism of the unidirectional
H2-oxidizing hydrogenase from soybean nodule bacteroids has
been investigated with highly purified enzyme. Measurements
of the K, for H2 vary from 0.97 to 2.6 pM, and the K,,, for
methylene blue varies from 6 to 17 pM. With H2 and
methylene blue as substrates,...
Carbonyl sulfide (COS) has been investigated as a rapid-equilibrium inhibitor of CO oxidation
by the CO dehydrogenase purified from Rhodospirillum rubrum. The kinetic evidence suggests that the
inhibition by COS is largely competitive versus CO (Ki = 2.3 pM) and uncompetitive versus methylviologen
as electron acceptor (Ki = 15.8 pM)....
The virus-encoded proteins of tobacco etch virus (TEV), a plant potyvirus, arise by proteolytic processing of
a large polyprotein precursor. The TEV genome codes for two proteinases, a 49-kilodalton proteinase and
helper component proteinase (HC-Pro), which cleave the polyprotein at specific sites. The only known cleavage
event catalyzed by HC-Pro...
This scanned article is provided to correct an error on the publisher’s website. The online version has incorrectly given the first author name as “Listen, Aaron” rather than the correct, “Liston, Aaron.” If using this article, please cite the first author correctly.
The RNA genome of tobacco etch virus (TEV), a plant potyvirus, functions as an mRNA for synthesis of a
346-kilodalton polyprotein that undergoes extensive proteolytic processing. The RNA lacks a normal 5' cap
structure at its terminus, which suggests that the mechanism of translational initiation differs from that of a...
The effects of nitric oxide (NO) on the individual components of Azotobacter vinelandii
nitrogenase have been examined by kinetic and spectroscopic methods. Incubation of the Fe protein (Av2)
for 1 h with stoichiometries of 4- and 8-fold molar excesses of NO to Av2 dimer resulted in a complete
loss of...
Acetylene is a slow-binding inhibitor of the Ni- and Fe-containing dimeric hydrogenase isolated
from Azotobacter vinelandii. Acetylene was released from hydrogenase during the recovery from inhibition.
This indicates that no transformation of acetylene to another compound occurred as a result of the interaction
with hydrogenase. However, the release of C2H2...
A genetic complementation system was developed
in which tobacco etch virus (TEV) polymerase (NIb)-
expressing transgenic plants or protoplasts were inoculated
with NIb-defective TEV mutants. A β-glucuronidase (GUS)
reporter gene integrated into the genomes of parental and four
mutant viruses was used to assay RNA amplification. Two
mutants (termed VNN...
Tobacco etch virus (TEV) encodes three proteinases that catalyze processing of the genome-encoded polyprotein.
The P1 proteinase originates from the N terminus of the polyprotein and catalyzes proteolysis between
itself and the helper component proteinase (HC-Pro). Mutations resulting in substitution of a single amino
acid, small insertions, or deletions were...
The tobacco etch potyvirus (TEV) polyprotein is proteolytically processed by three viral proteinases (NIa,
HC-Pro, and P1). While the NIa and HC-Pro proteinases each provide multiple functions essential for viral
infectivity, the role of the P1 proteinase beyond its autoproteolytic activity is understood poorly. To determine
if P1 is necessary...
A mutational analysis was conducted to investigate the functions of the tobacco etch potyvirus VPgproteinase
(NIa) protein in vivo. The NIa N-terminal domain contains the VPg attachment site, whereas the
C-terminal domain contains a picornavirus 3C-like proteinase. Cleavage at an internal site separating the two
domains occurs in a subset...
Strobilus production, growth, and morphology of Pacific yew (Taxus brevifolia Nutt.) were examined at three sites in the Cascade Mountains and one site in the Willamette Valley of western Oregon. Strobilus production on branch segments was positively associated with overstory openness for male and female trees at all four sites...
Mapped cpDNA restriction site characters were analyzed cladistically and the resulting phylogenetic hypotheses were used to test monophyly and relationships of the infrageneric classification of Lathyrus (Fabaceae) proposed by Kupicha (1983, Notes from the Royal Botanic Garden Edinburgh 41: 209–244). The validity of previously proposed classification systems and questions presented...
The nuclear ribosomal DNA (nrDNA) internal transcribed spacer (ITS) region has been characterized in the sister genera Larix and Pseudotsuga (Pinaceae). Complete sequences were obtained for seven species of Larix from North America and Eurasia and five species of Pseudotsuga from western North America and eastern Asia. ITS region lengths...
Species of Botrychium reproduce by spores that form subterranean gametophytes and a few, like B. pumicola, also reproduce asexually with subterranean sporophytic gemmae. The goal of this study was to examine the genetic diversity of B. pumicola populations and to better understand the role of gemmae. Ninety-nine individuals from three...
Gramene (http://www.gramene.org) is a comparative genome mapping database for grasses and a community resource for rice. Rice, in addition to being an economically important crop, is also a model monocot for understanding other agronomically important grass genomes. Gramene replaces the existing AceDB database ‘RiceGenes’ with a relational database based on...
Plum pox virus (PPV) is a member of the Potyvirus genus that, in nature, infects trees of the Prunus genus.
Although PPV infects systemically several species of the Nicotiana genus, such as N. clevelandii and N.
benthamiana, and replicates in the inoculated leaves of N. tabacum, it is unable to...
Gramene (http://www.gramene.org/) is a comparative genome database for cereal crops
and a community resource for rice. We are populating and curating Gramene with
annotated rice (Oryza sativa) genomic sequence data and associated biological information
including molecular markers, mutants, phenotypes, polymorphisms and Quantitative Trait
Loci (QTL). In order to support queries...
To explore the biogeographic history of Mediterranean/arid plant disjunctions, Old and New World Senecio sect. Senecio were analyzed phylogenetically using nuclear ribosomal DNA sequences (ITS). A clade corresponding to sect. Senecio was strongly supported. Area optimization indicated this clade to be of southern African origin. The Mediterranean and southern African...
Explaining restoration failure can be as important as touting success. We used a series of studies to understand the failure of techniques commonly used to restore wetland prairies in the Willamette Valley of western Oregon. Burning, fallowing, and solarization (covering tilled plots with plastic sheeting to heat the soil) had...
Multicellular eukaryotes produce small RNA molecules (approximately 21–24 nucleotides) of two general types, microRNA (miRNA) and short interfering RNA (siRNA). They collectively function as sequence-specific guides to silence or regulate genes, transposons, and viruses and to modify chromatin and genome structure. Formation or activity of small RNAs requires factors belonging...
Astragalus oniciformis Barneby is a narrow endemic xerophyte of the upper Snake River Plain of central Idaho, USA, where it inhabits stabilized, aeolian sand deposits and previously burned, sandy sites over Quaternary basalt flows. The objective of this study was to determine the levels and distribution of genetic differentiation within...
MicroRNAs (miRNAs) are an extensive class of noncoding genes that regulate gene expression through
posttranscriptional repression. Given the potential for large viral genomes to encode these transcripts, we
examined the human cytomegalovirus AD169 genome for miRNAs using a bioinformatics approach. We
identified 406 potential stem-loops, of which 110 were conserved...
The Plant Ontology Consortium (POC) (www.plantontology.org) is a collaborative
effort among several plant databases and experts in plant systematics, botany
and genomics. A primary goal of the POC is to develop simple yet robust
and extensible controlled vocabularies that accurately reflect the biology of plant
structures and developmental stages. These...
Sequence data from nrITS and cpDNA have failed to fully resolve phylogenetic relationships among Pinus species. Four low‐copy nuclear genes, developed from the screening of 73 mapped conifer anchor loci, were sequenced from 12 species representing all subsections. Individual loci do not uniformly support either the nrITS or cpDNA hypotheses...
Rice, maize, sorghum, wheat, barley and the other
major crop grasses from the family Poaceae
(Gramineae) are mankind’s most important source
of calories and contribute tens of billions of dollars
annually to the world economy (FAO 1999, http://www.fao.org; USDA 1997, http://www.usda.gov).
Continued improvement of Poaceae crops is necessary
in order...
RNA silencing is an evolutionarily conserved system that
functions as an antiviral mechanism in higher plants and
insects. To counteract RNA silencing, viruses express
silencing suppressors that interfere with both siRNA- and
microRNA-guided silencing pathways. We used comparative
in vitro and in vivo approaches to analyse the molecular
mechanism of...
Questions: Can a statistical model be designed to represent more directly the nature of organismal response to multiple interacting factors? Can multiplicative ernel smoothers be used for this purpose? What advantages does this approach have over more traditional habitat modelling methods?
Methods: Non-parametric multiplicative regression (NPMR)was developed from the premises...
Plant growth stages are identified as distinct morphological landmarks in a continuous developmental process. The terms
describing these developmental stages record the morphological appearance of the plant at a specific point in its life cycle. The
widely differing morphology of plant species consequently gave rise to heterogeneous vocabularies describing growth...
Isolation, detection with diagnostic polymerase chain reaction (PCR), and microscopy demonstrated the presence of Phytophthora ramorum in the sapwood of mature, naturally infected tanoak (Lithocarpus densiflorus) trees. The pathogen was strongly associated with discolored sapwood (P < 0.001), and was recovered or detected from 83% of discolored sapwood tissue samples....
Formal description of plant phenotypes and standardized annotation of gene expression and protein localization data require
uniform terminology that accurately describes plant anatomy and morphology. This facilitates cross species comparative
studies and quantitative comparison of phenotypes and expression patterns. A major drawback is variable terminology that is
used to describe...
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...
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...
Gramene (www.gramene.org) is a curated resource
for genetic, genomic and comparative genomics
data for the major crop species, including rice,
maize, wheat and many other plant (mainly grass)
species. Gramene is an open-source project.
All data and software are freely downloadable
through the ftp site (ftp.gramene.org/pub/gramene)
and available for use...
Background: Large molecular sequence databases are fundamental resources for modern
bioscientists. Whether for project-specific purposes or sharing data with colleagues, it is often
advantageous to maintain smaller sequence databases. However, this is usually not an easy task for
the average bench scientist.
Results: We present the Personal Sequence Database (PSD),...
Nitrobacter hamburgensis X14 is a facultative lithoautotroph that conserves energy from the
oxidation of nitrite (NO
2 ) and fixes carbon dioxide (CO2) as its sole source of carbon. The
availability of the N. hamburgensis X14 genome sequence initiated a re-examination of its
mixotrophic and organotrophic potential, as genes encoding...
The Generation Challenge programme (GCP) is a global crop research consortium directed toward crop improvement through the
application of comparative biology and genetic resources characterization to plant breeding. A key consortium research activity
is the development of a GCP crop bioinformatics platform to support GCP research. This platform includes the...
The Plant Ontology Consortium (POC, http://www.plantontology.org) is a collaborative effort
among model plant genome databases and plant
researchers that aims to create, maintain and
facilitate the use of a controlled vocabulary
(ontology) for plants. The ontology allows users to
ascribe attributes of plant structure (anatomy and
morphology) and developmental stages...
Organellar DNA sequences are widely used in evolutionary and population genetic studies, however, the conservative nature of chloroplast gene and genome evolution often limits phylogenetic resolution and statistical power. To gain maximal access to the historical record contained within chloroplast genomes, we have adapted multiplex sequencing-by-synthesis (MSBS) to simultaneously sequence...
Plantago ovata Forssk. (Plantaginaceae) is a species that, in North America, inhabits desert and Mediterranean habitats of the southwest United States, northwest Mexico, and the Channel Islands of California and Mexico. In the Eastern Hemisphere, P. ovata inhabits desert regions ranging from the Canary Islands, across northern Africa to India....
Uncertainties in the age and phylogenetic position of Pinaceae fossils present significant obstacles to our understanding of the timing of diversification in the family. We demonstrate that simultaneous phylogenetic analyses of chloroplastDNA(matK and rbcL) and nonmolecular characters that include both extant genera and a limited number of fossil taxa provide...
Primula sect. Parryi comprises five species endemic to western North America: P. parryi, P. angustifolia, P. rusbyi, P. capillaris, and P. cusickiana with four varieties. This section, derived from a clade with representatives in Asia and Europe, exemplifies a phytogeographic pattern in which a widespread species is accompanied by multiple...
The placement of ‘Pseudomonas butanovora’ in the genus Thauera was proposed previously, based on 16S rRNA gene sequence analysis, upon further studies of taxonomical characteristics. In this study, physiological characteristics and DNA–DNA reassociation data are presented and the transfer of ‘P. butanovora’ to the genus Thauera is proposed. The original...
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...
Gramene is a comparative information resource for plants that integrates data across diverse data domains. In this article,
we describe the development of a quantitative trait loci (QTL) database and illustrate how it can be used to facilitate
both the forward and reverse genetics research. The QTL database contains the...
Soluble butane monooxygenase (sBMO), a three-component di-iron monooxygenase complex
expressed by the C2–C9 alkane-utilizing bacterium Thauera butanivorans, was kinetically
characterized by measuring substrate specificities for C1–C5 alkanes and product inhibition
profiles. sBMO has high sequence homology with soluble methane monooxygenase (sMMO) and
shares a similar substrate range, including gaseous and...
Small RNAs, including microRNAs (miRNAs), small interfering RNAs
(siRNAs), and trans-acting siRNAs (tasiRNAs), control gene expression
and epigenetic regulation. Although the roles of miRNAs and
siRNAs have been extensively studied, their expression diversity
and evolution in closely related species and interspecific hybrids
are poorly understood. Here, we show comprehensive analyses...
The Gene Ontology (GO) Consortium (http://www.geneontology.org) (GOC) continues to develop,
maintain and use a set of structured, controlled
vocabularies for the annotation of genes, gene
products and sequences. The GO ontologies
are expanding both in content and in structure.
Several new relationship types have been introduced
and used, along with...
Background: Short RNAs, and in particular microRNAs, are important regulators of gene
expression both within defined regulatory pathways and at the epigenetic scale. We investigated
the short RNA (sRNA) population (18-24 nt) of the transcriptome of green leaves from the
sequenced Populus trichocarpa using a concatenation strategy in combination with...
Questions: Are traits related to the performance of plant species in restoration? Are the relationships between traits and performance consistent across the functional groups of annual forbs, perennial forbs, and grasses? Do the relationships between traits and performance depend on neighboring functional groups? Location: A former agricultural field, being restored...
Thiamine diphosphate (vitamin B1) plays a fundamental role as an enzymatic cofactor in universal metabolic pathways including glycolysis, the pentose phosphate pathway, and the tricarboxylic acid cycle. In addition, thiamine diphosphate has recently been shown to have functions other than as a cofactor in response to abiotic and biotic stress...
Transacting siRNA (tasiRNA) biogenesis in Arabidopsis is initiated
by microRNA (miRNA) –guided cleavage of primary transcripts. In
the case of TAS3 tasiRNA formation, ARGONAUTE7 (AGO7)–
miR390 complexes interact with primary transcripts at two sites,
resulting in recruitment of RNA-DEPENDENT RNA POLYMERASE6
for dsRNA biosynthesis. An extensive screen for Arabidopsis mutants...
Flowering is the primary trait affected by ambient
temperature changes. Plant microRNAs
(miRNAs) are small non-coding RNAs playing an
important regulatory role in plant development. In
this study, to elucidate the mechanism of
flowering-time regulation by small RNAs, we
identified six ambient temperature-responsive
miRNAs (miR156, miR163, miR169, miR172, miR398
and...
The Critical Depth Hypothesis formalized by Sverdrup in 1953 posits that
vernal phytoplankton blooms occur when surface mixing shoals to a depth shallower than a
critical depth horizon defining the point where phytoplankton growth exceeds losses. This
hypothesis has since served as a cornerstone in plankton ecology and reflects the...
Intercellular transport of viruses through cytoplasmic connections, termed plasmodesmata (PD), is essential for systemic infection in plants by viruses. Previous genetic and ultrastructural data revealed that the potyvirus cyclindrical inclusion (CI) protein is directly involved in cell-to-cell movement, likely through the formation of conical structures anchored to and extended through...
Restriction of long-distance movement of several potyviruses in Arabidopsis (Arabidopsis thaliana) is controlled by at least three
dominant restricted TEV movement (RTM) genes, named RTM1, RTM2, and RTM3. RTM1 encodes a protein belonging to the
jacalin family, and RTM2 encodes a protein that has similarities to small heat shock proteins....
Endogenous small RNAs (endo-siRNAs) interact with Argonaute (AGO) proteins to mediate
sequence-specific regulation of diverse biological processes. Here, we combine deep-sequencing and
genetic approaches to explore the biogenesis and function of endo-siRNAs in C. elegans. We describe
conditional alleles of the dicer-related helicase, drh-3, that abrogate both RNA interference and...
Now in its 10th year, the Gramene database (http://www.gramene.org) has grown from its primary focus on rice, the first fully-sequenced grass genome, to become a resource for major model and crop plants including Arabidopsis, Brachypodium, maize, sorghum, poplar and grape in addition to several species of rice. Gramene began with...
Hypogymnia imshaugii is one of the most common, conspicuous and morphologically variable epiphytic lichens of the Pacific coastal states and provinces. The species varies greatly in morphology and chemistry, suggesting multiple closely related species or one or more phenotypically plastic species. We sought to determine whether additional ecologically meaningful species...
Biofortification of staple crops like potato via breeding is an attractive strategy to reduce human micronutrient deficiencies. A prerequisite is metabolic phenotyping of genetically diverse material which can potentially be used as parents in breeding programs. Thus, the natural genetic diversity of thiamine and folate contents was investigated in indigenous...
Thiamine pyrophosphate (vitamin B1) is an essential nutrient in the human diet, and is often referred as the energy vitamin. Potato contains modest amounts of thiamine. However, the genetic variation of thiamine concentrations in potato has never been investigated. In this study, we determined thiamine concentrations in freshly-harvested unpeeled tubers...
Trichodesmium, a major colonial cyanobacterial nitrogen fixer, forms large blooms in NO₃-depleted tropical oceans and enhances CO₂ sequestration by the ocean due to its ability to fix dissolved dinitrogen. Thus, its importance in C and N cycles requires better estimates of its distribution at basin to global scales. However, existing...
Plants possess two myosin classes, VIII and XI. The myosins XI are implicated in organelle transport, filamentous actin
organization, and cell and plant growth. Due to the large size of myosin gene families, knowledge of these molecular motors
remains patchy. Using deep transcriptome sequencing and bioinformatics, we systematically investigated myosin...
Although Oregon white oak (Quercus garryana) woodlands are a characteristic landscape component in southwestern Oregon, little is known about their current or historical stand structures. Meanwhile, fuel reduction thinning treatments that change stand structures in non-coniferous communities are ongoing and widespread on public lands in this region; some of these...
BACKGROUND: Circadian clocks provide an adaptive advantage through anticipation of daily and seasonal environmental
changes. In plants, the central clock oscillator is regulated by several interlocking feedback loops. It was shown that a
substantial proportion of the Arabidopsis genome cycles with phases of peak expression covering the entire day.
Synchronized...
The QlicRice database is designed to host publicly accessible, abiotic stress responsive quantitative trait loci (QTLs) in rice (Oryza sativa) and their corresponding sequenced gene loci. It provides a platform for the data mining of abiotic stress responsive QTLs, as well as browsing and annotating associated traits, their location on...
Laboratory-based methods to test egg viability include staining with Meldola's Blue and/or juvenile (J2) hatching assays using potato root diffusate (PRD). These two methods have not been tested under identical conditions to directly compare their assessments of Globodera egg viability. Using two bioassay strategies, cysts from a Glabodera sp. population...
A new Phytophthora species was detected (i) in the USA, infecting foliage of Kalmia latifolia, (ii) in substrate underneath Pieris, and (iii) in Germany in soil samples underneath Aesculus hippocastanum showing disease symptoms. The new species Phytophthora obscura sp. nov. is formally named based on phylogenetic analysis, host range, Kochs...
Endogenous small interfering RNAs (siRNAs) are a class of naturally occuring regulatory RNAs found in fungi, plants, and animals. Some endogenous siRNAs are required to silence transposons or function in chromosome segregation; however, the specific roles of most endogenous siRNAs are unclear. The helicase gene eri-6/7 was identified in the...
The diurnal fluctuations in solar irradiance impose a fundamental frequency on ocean biogeochemistry. Observations of the ocean carbon cycle at these frequencies are rare, but could be considerably expanded by measuring and interpreting the inherent optical properties. A method is presented to analyze diel cycles in particulate beam-attenuation coefficient (c[subscript...
The binary power law (BPL) has been successfully used to characterize heterogeneity (overdispersion or small-scale aggregation) of disease incidence for many plant pathosystems. With the BPL, the log of the observed variance is a linear function of the log of the theoretical variance for a binomial distribution over the range...
Biofortification of staple crops like potato via breeding is an attractive strategy to reduce human micronutrient deficiencies. A prerequisite is metabolic phenotyping of genetically diverse material which can potentially be used as parents in breeding programs. Thus, the natural genetic diversity of thiamin and folate contents was investigated in indigenous...
Question: Most results of restoration efforts are species-specific and/or site-specific and therefore are not general enough to be easily applied to other species and other sites. Our research addresses the issue of species-specific results by investigating the feasibility of using plant traits instead of taxonomic species to characterize species responses...
SEE ARTICLE FOR ABSTRACT IN SPANISH. English Abstract: In order to study the quantitative relationship between tuber yield of two potato (Solanum tuberosum L.) cultivars (‘Alpha’, susceptible, and ‘Zafiro’, moderately resistant to late blight), and severity of the pathogen in Toluca, México, managed by weekly foliar sprays of 0.575 kg...
Deep sequencing analysis of an asymptomatic grapevine revealed a virome containing five RNA viruses and a viroid. Of these, Grapevine leafroll-associated virus 7 (GLRaV-7), an unassigned closterovirus, was by far the most prominently represented sequence in the analysis. Graft-inoculation of the infection to another grape variety confirmed the lack of...
Studies of mosquito preferences for avian hosts have found that some bird species are at greater risk than others of being fed upon by mosquitoes. The ecological factors that determine this interspecific variation in avian host use by mosquitoes have been little studied, despite the possibility that such variation may...
A wealth of information on plant anatomy and morphology is available in the current and historical literature, and molecular biologists are producing massive amounts of transcriptome and genome data that can be used to gain better insights into the development, evolution, ecology, and physiological function of plant anatomical attributes. Integrating...
A stand of ponderosa pine (Pinus ponderosa) severely affected by Armillaria root disease was treated with five different levels of sanitation by root removal to reduce root disease losses in the regenerating stand. Treatments included the following: (1) all trees pushed over by machine, maximum removal of roots by machine...
Two TaqMan-based real-time One-Step RT-PCR assays were developed for the rapid and efficient detection
of Raspberry bushy dwarf virus (RBDV) and Raspberry leaf mottle virus (RLMV), two of the most common
raspberry viruses in North America and Europe. The primers and probes were designed from conserved
fragments of the polymerase...
• Premise of the study: The dramatic advances offered by modern DNA sequencers continue to redefine the limits of what can be accomplished in comparative plant biology. Even with recent achievements, however, plant genomes present obstacles that can make it difficult to execute large-scale population and phylogenetic studies on next-generation...
Russet Burbank, Russet Norkotah, and Shepody tubers infected with Potato virus Y strains (PVYO, PVYN:O, PVYNTN) were tested from storage at 4A degrees C at the initiation of sprouting and then the same tubers were tested again from storage at 4A degrees C seventy eight days later. Samples were taken...
The fluorescence signal emitted from phytoplankton exposed to natural sunlight has been considered a potentially useful tool to examine phytoplankton physiology from in situ radiometers and satellites, but variability in the fluorescence signal is confounded by non-photochemical quenching (NPQ). This pathway dissipates excitation energy as heat rather than fluorescence. It...
Des séquences entières ou partielles de génomes deviennent de plus en plus accessibles. En ce qui concerne plusieurs systèmes plante-agent
pathogène, nous abordons l’ère du recéquençage du génome. Les premiers génomes de Phytophthora, P. ramorum et P. sojae, ont été
disponibles à partir de 2004, suivis de près par celui...
Fusarium crown rot (FCR), caused by and , reduces wheat ( L.) yields in the Pacific Northwest (PNW) of the US by as much as 35%. Resistance to FCR has not yet been discovered in currently grown PNW wheat cultivars. Several significant quantitative trait loci (QTL) for FCR resistance have...
Background: Since whole genome sequences of rice were made publically accessible, the number of articles on new rice genes has increased remarkably. The Committee on Gene Symbolization, Nomenclature and Linkage (CGSNL) of the Rice Genetics Cooperative published the gene nomenclature system for rice and encouraged researchers to follow the rules...
• Premise of the study: Seed longevity and persistence in soil seed banks may be especially important for population persistence in ecosystems where opportunities for seedling establishment and disturbance are unpredictable. The fire regime, an important driver of population dynamics in sagebrush steppe ecosystems, has been altered by exotic annual...
Premise of study: This research seeks to advance understanding of conditions allowing movement of fungal pathogens among hosts. The family Clavicipitaceae contains fungal pathogens exploiting hosts across three kingdoms of life in a pattern that features multiple interkingdom host shifts among plants, animals, and fungi. The tribe Ustilaginoideae potentially represents...
Wallemia (Wallemiales, Wallemiomycetes) is a genus of xerophilic Fungi of uncertain phylogenetic position within Basidiomycota. Most commonly found as food contaminants, species of Wallemia have also been isolated from hypersaline environments. The ability to tolerate environments with reduced water activity is rare in Basidiomycota. We sequenced the genome of W....
Molecular phylogenctic analyses indicate that the monophyletic classes Orbiliomycetes and Pezizomycetes are among the earliest diverging branches of Pezizomycotina, the largest subphylum of the Ascomycota. Although Orbiliomycetes is resolved as the most basal lineage in some analyses, molecular support for the node resolving the relationships between the two classes is...
Ethylene regulates multiple developmental processes during a plant life cycle, but the effect of ethylene on the upregulation of senescence-, stress-, and post-harvest-related genes in forage grasses is poorly understood. In this work, we used quantitative PCR to determine whether ethylene application affected the expression of selected cell-wall degradation related...
Trade in live plants has been recognized worldwide as an important invasion pathway for non-native plant pests. Such pests can have severe economic and ecological consequences. Nearly 70% of damaging forest insects and pathogens established in the US between 1860 and 2006 most likely entered on imported live plants. The...
Antibiotics are essential for control of bacterial diseases of plants, especially fire blight of pear and apple and bacterial spot of peach. Streptomycin is used in several countries; the use of oxytetracycline, oxolinic acid and gentamicin is limited to only a few countries. Springtime antibiotic sprays suppress pathogen growth on...
In June 2009, wilted hop bines were observed in a yard in Marion County, OR. The wilt was associated with a stem rot that occurred ∽1 m from the ground near the point where bines are tied together for horticultural purposes. Samples of affected stems were submitted to the Oregon...
Numerous studies have examined the evolution of sexual systems in angiosperms, but few explore the
interaction between these and the evolution of pollination mode. Wind pollination is often associated
with unisexual flowers, but which evolved first and played a causative role in the evolution of the other
is unclear. Thalictrum,...
Premise of the study: Pinaceae and nonpinoid species are sister groups within the conifer clade as inferred from molecular systematic comparisons of living species and therefore should have comparable geological ages. However, the fossil record for the nonpinoid lineage of extant conifer families is Triassic, nearly 100 million years older...
Correction
21 Jun 2012: Verde I, Bassil N, Scalabrin S, Gilmore B, Lawley CT, et al. (2012) Correction: Development and Evaluation of a 9K SNP Array for Peach by Internationally Coordinated SNP Detection and Validation in Breeding Germplasm. PLOS ONE 7(6): 10.1371/annotation/33f1ba92-c304-4757-91aa-555de64a0768.
Limnanthes floccosa ssp. floccosa and L. floccosa ssp. grandiflora are two of five subspecies within Limnanthes floccosa endemic to vernal pools in southern Oregon and northern California. Three seasons of monitoring natural populations have quantified that L. floccosa ssp. grandiflora is always found growing sympatrically with L. floccosa ssp. floccosa...
Cenococcum is a genus of ectomycorrhizal Ascomycota that has a broad host range and geographic distribution. It is not known to produce either meiotic or mitotic spores and is known to exist only in the form of hyphae, sclerotia and host-colonized ectomycorrhizal root tips. Due to its lack of sexual...
Raspberry latent virus (RpLV) is a newly characterized reovirus found in commercial raspberry fields in the Pacific Northwest (PNW). Thus far, all members of the plant reoviruses are transmitted in a replicative, persistent manner by several species of leafhoppers or planthoppers. After several failed attempts to transmit RpLV using leafhoppers,...
Many plant disease epidemic models, and the disease management decision aids developed from them, are created based on temperature or other weather conditions measured in or above the crop canopy at intervals of 15 or 30 min. Disease management decision aids, however, commonly are implemented based on hourly weather measurements...