bluuebunny/crossref_metadata_2025 huggingface dataset:
Central-Station Solar Hydrogen Power Plant
Authors: Kolb Gregory J. , Diver Richard B. , Siegel Nathan
Published: April 2007

Solar power towers can be used to make hydrogen on a large scale. Electrolyzers could be used to convert solar electricity produced by the power tower to hydrogen, but this process is relatively inefficient. Rather, efficiency can be much improved if solar heat is directly converted to hydrogen via a thermochemical process. In the research summarized here, the marriage of a high-temperature (∼1000°C) power tower with a sulfuric acid∕hybrid thermochemical cycle was studied. The concept combines a solar power tower, a solid-particle receiver, a particle thermal energy storage system, and a hybrid-sulfuric-acid cycle. The cycle is “hybrid” because it produces hydrogen with a combination of thermal input and an electrolyzer. This solar thermochemical plant is predicted to produce hydrogen at a much lower cost than a solar-electrolyzer plant of similar size. To date, only small lab-scale tests have been conducted to demonstrate the feasibility of a few of the subsystems and a key immediate issue is demonstration of flow stability within the solid-particle receiver. The paper describes the systems analysis that led to the favorable economic conclusions and discusses the future development path.
Evaluation of a High-Performance Solar Home in Loveland, Colorado
Authors: Hendron Robert , Eastment Mark , Hancock Ed , Barker Greg , Reeves Paul
Published: April 2007

Building America (BA) partner McStain Neighborhoods built the Discovery House in Loveland, CO, with an extensive package of energy-efficient features, including a high-performance envelope, efficient mechanical systems, a solar water heater integrated with the space-heating system, a heat-recovery ventilator (HRV), and ENERGY STAR appliances. The National Renewable Energy Laboratory (NREL) and Building Science Consortium conducted short-term field-testing and building energy simulations to evaluate the performance of the house. These evaluations are utilized by BA to improve future prototype designs and to identify critical research needs. The Discovery House building envelope and ducts were very tight under normal operating conditions. The HRV provided fresh air at a rate of about 35L∕s(75cfm), consistent with the recommendations of ASHRAE Standard 62.2. The solar hot water system is expected to meet the bulk of the domestic hot water (DHW) load (>83%), but only about 12% of the space-heating load. DOE-2.2 simulations predict whole-house source energy savings of 54% compared to the BA Benchmark (Hendron, R., 2005 NREL Report No. 37529, NREL, Golden, CO). The largest contributors to energy savings beyond McStain’s standard practice are the solar water heater, HRV, improved air distribution, high-efficiency boiler, and compact fluorescent lighting package.
Transient Natural Convection Heat Transfer Correlations for Tube Bundles Immersed in a Thermal Storage
Authors: Su Yan , Davidson Jane H.
Published: April 2007

A scale analysis of the transient discharge of a fully mixed thermal storage vessel with an immersed single-tube heat exchanger is extended to provide a generalized expression for the transient natural convection Nusselt number for heat exchangers comprising many tubes. The transient Nusselt number is expressed in terms of the Rayleigh number at the initiation of the discharge (or charge) process and easily measured geometric parameters. Nusselt numbers measured for a 240-tube heat exchanger immersed in a fully mixed 126L storage vessel are well correlated in the proposed form. The applicability of the approach to thermally stratified storage fluids is evaluated for both a single-tube and the 240-tube bundle. For heat exchangers of practical size for solar systems, for example the 240-tube bundle, buoyancy driven flow within the storage is sufficient to mix an initially stratified fluid. In this case, Nusselt numbers during the discharge process are predicted accurately by the proposed transient formulation. However, if the storage fluid remains stratified during discharge, as is the case for an initially stratified vessel with a single-tube heat exchanger, the transient formulation is not recommended.
Sensitivity Analysis of the Operating and Technical Specifications of a Solar Chimney Power Plant
Authors: Pretorius Johannes P. , Kröger Detlev G.
Published: April 2007

This paper conducts a sensitivity analysis on the influence of the quality, thickness, reflectance, emissivity, shape, and insulation of the collector roof glass, the cross section of the collector roof supports, various ground types, ground surface roughness, absorptivity and emissivity, turbine inlet and bracing wheel loss coefficients, and the ambient pressure and lapse rate on the performance of a large-scale (reference) solar chimney power plant. Computer simulation results indicate that collector roof insulation, emissivity and reflectance, the ambient lapse rate, and ground absorptivity and emissivity all have a major effect on the power production of such a plant.
Photovoltaic-Thermal Collector System for Domestic Application
Authors: Chow T. T. , Ji J. , He W.
Published: April 2007

Photovoltaic-thermal (PV/T) systems integrate photovoltaic and solar thermal technologies into one single system with dual production of electricity and heat energy. A typical arrangement is the direct attachment of PV modules onto a solar thermal collector surface. For a given collector surface area, the overall system energy performance is expected higher than the conventional “side-by-side” PV and solar thermal systems. In the development of PV/T collector technology using water as the coolant, the most common design follows the sheet-and-tube thermal absorber concept. Fin performance of the thermal absorber has been identified as one important factor that affects much the overall energy performance of the collector. Accordingly, an aluminum-alloy flat-box type PV/T collector prototype was constructed and tested in Hong Kong. Our test results indicate that a high combined thermal and electrical efficiency can be achieved. The primary-energy-saving efficiency for daily exposure approaches 65% at zero reduced temperature operation. With a simple and handy design, the product is considered to be very suitable for domestic application.
Computational Fluid Dynamics Modeling of Gas-Particle Flow Within a Solid-Particle Solar Receiver
Authors: Chen Huajun , Chen Yitung , Hsieh Hsuan-Tsung , Siegel Nathan
Published: April 2007

A detailed three-dimensional computational fluid dynamics (CFD) analysis on gas-particle flow and heat transfer inside a solid-particle solar receiver, which utilizes free-falling particles for direct absorption of concentrated solar radiation, is presented. The two-way coupled Euler-Lagrange method is implemented and includes the exchange of heat and momentum between the gas phase and solid particles. A two-band discrete ordinate method is included to investigate radiation heat transfer within the particle cloud and between the cloud and the internal surfaces of the receiver. The direct illumination energy source that results from incident solar radiation was predicted by a solar load model using a solar ray-tracing algorithm. Two kinds of solid-particle receivers, each having a different exit condition for the solid particles, are modeled to evaluate the thermal performance of the receiver. Parametric studies, where the particle size and mass flow rate are varied, are made to determine the optimal operating conditions. The results also include detailed information for the gas velocity, temperature, particle solid volume fraction, particle outlet temperature, and cavity efficiency.
PhoU Is a Persistence Switch Involved in Persister Formation and Tolerance to Multiple Antibiotics and Stresses in
Escherichia coli
Authors: Li Yongfang , Zhang Ying
Published: April 2007

When a bactericidal antibiotic is added to a growing bacterial culture, the great majority of the bacterial population is killed but a small number of metabolically quiescent bacteria called persisters survive antibiotic treatment. The mechanism of this bacterial persistence is poorly understood. In
Escherichia coli
, we identified a new persistence gene,
phoU
, whose inactivation leads to a generalized higher susceptibility than that of the parent strain to a diverse range of antibiotics, including ampicillin, norfloxacin, and gentamicin, and stresses, such as starvation, acid pH, heat, peroxide, weak acids, and energy inhibitors, especially in stationary phase. The PhoU mutant phenotype could be complemented by a functional
phoU
gene. Mutation in PhoU leads to a metabolically hyperactive status of the cell, as shown by an increased expression of energy production genes, flagella, and chemotaxis genes and a defect in persister formation. PhoU, whose expression is regulated by environmental changes like nutrient availability and age of culture, is a global negative regulator beyond its role in phosphate metabolism and facilitates persister formation by the suppression of many important cellular metabolic processes. A new model of persister formation based on PhoU as a persister switch is proposed. PhoU may be an ideal drug target for designing new drugs that kill persister bacteria for more effective control of bacterial infections.
Tigecycline Efflux as a Mechanism for Nonsusceptibility in
Acinetobacter baumannii
Authors: Peleg Anton Y. , Adams Jennifer , Paterson David L.
Published: April 2007

Tigecycline has an extended spectrum of in vitro antimicrobial activities, including that against multidrug-resistant
Acinetobacter
. After identifying bloodstream isolates of
Acinetobacter
with reduced susceptibilities to tigecycline, we performed a study to assess tigecycline efflux mediated by the resistance-nodulation-division-type transporter AdeABC. After exposure of two tigecycline-nonsusceptible isolates to the efflux pump inhibitor phenyl-arginine-β-naphthylamide (PABN), a fourfold reduction in the tigecycline MIC was observed. Both tigecycline-susceptible and -nonsusceptible isolates were found to carry the gene coding for the transmembrane component of the AdeABC pump,
adeB
, and the two-component regulatory system comprising
adeS
and
adeR
. Previously unreported point mutations were identified in the regulatory system in tigecycline-nonsusceptible isolates. Real-time PCR identified 40-fold and 54-fold increases in
adeB
expression in the two tigecycline-nonsusceptible isolates compared to that in a tigecycline-susceptible isolate. In vitro exposure of a tigecycline-susceptible clinical strain to tigecycline caused a rapid rise in the MIC of tigecycline from 2 μg/ml to 24 μg/ml, which was reversible with PABN. A 25-fold increase in
adeB
expression was observed in a comparison between this tigecycline-susceptible isolate and its isogenic tigecycline-nonsusceptible mutant. These results indicate that an efflux-based mechanism plays a role in reduced tigecycline susceptibility in
Acinetobacter
.
Activity of T-1106 in a Hamster Model of Yellow Fever Virus Infection
Authors: Julander Justin G. , Furuta Yousuke , Shafer Kristiina , Sidwell Robert W.
Published: April 2007

Yellow fever virus (YFV) causes 30,000 deaths worldwide, despite the availability of a vaccine. There are no approved antiviral therapies for the treatment of YFV disease in humans, and, therefore, these studies were designed to investigate the anti-YFV properties of T-1106, a substituted pyrazine, in a hamster model of YFV disease. Intraperitoneal (i.p.) treatment with 100 mg/kg of body weight/day of T-1106 starting 4 h prior to virus inoculation and continuing twice daily through 7 days post-virus inoculation (dpi) resulted in significantly improved survival, alanine aminotransferase levels in the serum, weight gain, and mean day to death. Virus titer in the liver at 4 dpi was significantly reduced in treated animals, as determined by both quantitative real-time PCR and infectious cell culture assay. No toxicity (weight loss or mortality) was observed at a dose of 100 mg/kg/day in sham-infected control animals. The observed minimal effective dose of T-1106 was 32 mg/kg/day administered either by oral or i.p. treatment. Therapeutic treatment was effective in significantly improving survival when T-1106 was administered beginning as late as 4 days after virus challenge with twice-daily treatment for 8 days at a dose of 100 mg/kg/day. With favorable safety, bioavailability, and postviral challenge treatment efficacy, T-1106 was effective in the treatment of disease in hamsters infected with YFV and should be further studied for potential use as a therapy for human YFV disease.
Host-Dependent Trigger of Caspases and Apoptosis by
Legionella pneumophila
Authors: Santic Marina , Asare Rexford , Doric Miljenko , Abu Kwaik Yousef
Published: April 2007

The Dot/Icm system of
Legionella pneumophila
triggers activation of caspase-3 during early stages of infection of human macrophages, but apoptosis is delayed until late stages of infection. During early stages of infection of mouse macrophages, the organism triggers rapid caspase-1-mediated cytotoxicity, which is mediated by bacterial flagellin. However, it is not known whether caspase-1 is triggered by
L. pneumophila
in human macrophages or whether caspase-3 is activated in permissive or nonpermissive mouse macrophages. Using single-cell analyses, we show that the wild-type strain of
L. pneumophila
does not trigger caspase-1 activation throughout the intracellular infection of human monocyte-derived macrophages (hMDMs), even when the flagellated bacteria escape into the cytoplasm during late stages. Using single-cell analyses, we show that the Dot/Icm system of
L. pneumophila
triggers caspase-3 but not caspase-1 within permissive A/J mouse bone marrow-derived primary macrophages by 2 to 8 h, but apoptosis is delayed until late stages of infection. While
L. pneumophila
triggers a Dot/Icm-dependent activation of caspase-1 in nonpermissive BALB/c mouse-derived macrophages, caspase-3 is not activated at any stage of infection. We show that robust intrapulmonary replication of the wild-type strain of
L. pneumophila
in susceptible A/J mice is associated with late-stage Dot/Icm-dependent pulmonary apoptosis and alveolar inflammation. In the lungs of nonpermissive BALB/c mice,
L. pneumophila
does not replicate and does not trigger pulmonary apoptosis or alveolar inflammation. Thus, similar to hMDMs,
L. pneumophila
does not trigger caspase-1 but triggers caspase-3 activation during early and exponential replication in permissive A/J mouse-derived macrophages, and apoptosis is delayed until late stages of infection. The Dot/Icm type IV secretion system is essential for pulmonary apoptosis in the genetically susceptible A/J mice.
Identification of Midgut and Salivary Glands as Specific and Distinct Barriers to Efficient Tick-Borne Transmission ofAnaplasma marginale
Authors: Ueti Massaro W. , Reagan James O. , Knowles Donald P. , Scoles Glen A. , Shkap Varda , Palmer Guy H.
Published: April 2007

Understanding the determinants of efficient tick-borne microbial transmission is needed to better predict the emergence of highly transmissible pathogen strains and disease outbreaks. Although the basic developmental cycle ofAnaplasmaandEhrlichiaspp. within the tick has been delineated, there are marked differences in the ability of specific strains to be efficiently tick transmitted. Using the highly transmissible St. Maries strain ofAnaplasma marginaleinDermacentor andersonias a positive control and two unrelated nontransmissible strains, we identified distinct barriers to efficient transmission within the tick. The Mississippi strain was unable to establish infection at the level of the midgut epithelium despite successful ingestion of infected blood following acquisition feeding on a bacteremic animal host. This inability to colonize the midgut epithelium prevented subsequent development within the salivary glands and transmission. In contrast,A. marginalesubsp.centralecolonized the midgut and then the salivary glands, replicating to a titer indistinguishable from that of the highly transmissible St. Maries strain and at least 100 times greater than that previously associated with successful transmission. Nonetheless,A. marginalesubsp.centralewas not transmitted, even when a large number of infected ticks was used for transmission feeding. These results establish that there are at least two specific barriers to efficient tick-borne transmission, the midgut and salivary glands, and highlight the complexity of the pathogen-tick interaction.
Interleukin-8 Secretion in Response to Aferric Enterobactin Is Potentiated by Siderocalin
Authors: Nelson Aaron L. , Ratner Adam J. , Barasch Jonathan , Weiser Jeffrey N.
Published: April 2007

Siderophores are low-molecular-weight iron chelators secreted by microbes to obtain iron under deprivation. We hypothesized that the catecholate siderophore enterobactin, produced by
Enterobacteriaceae
, serves as a proinflammatory signal for respiratory epithelial cells. Respiratory tract responses were explored, since at this site siderocalin, an enterobactin-binding mammalian gene product, is expressed inducibly at high levels and enterobactin-secreting respiratory flora is rare, suggesting selection against a dependence on enterobactin. Addition of aferric, but not iron-saturated, enterobactin elicits a dose-dependent increase in secretion of the proinflammatory chemokine interleukin-8 by human respiratory epithelial cells in culture. This response to purified enterobactin is potentiated by recombinant siderocalin at physiologically relevant concentrations. Conditioned media from genetically modified
Escherichia coli
strains expressing various levels of enterobactin induce an enterobactin-mediated proinflammatory response. Siderocalin has been shown to deliver enterobactin to other mammalian cell types, exogenously supplied siderocalin can be detected within epithelial cells, and siderocalin increases delivery of enterobactin to the intracellular compartment. Although many siderophores perturb labile cellular iron pools, only enterobactin elicits interleukin-8 secretion, suggesting that iron chelation is necessary but not sufficient. Thus, aferric enterobactin may be a proinflammatory signal for respiratory epithelial cells, permitting detection of microbial communities that have disturbed local iron homeostasis, and siderocalin expression by the host amplifies this signal. This may be a novel mechanism for the mucosa to respond to metabolic signals of expanding microbial communities.
Borrelia burgdorferiBinding of Host Complement Regulator Factor H Is Not Required for Efficient Mammalian Infection
Authors: Woodman Michael E. , Cooley Anne E. , Miller Jennifer C. , Lazarus John J. , Tucker Kathryn , Bykowski Tomasz , Botto Marina , Hellwage Jens , Wooten R. Mark , Stevenson Brian
Published: April 2007

The causative agent of Lyme disease,Borrelia burgdorferi, is naturally resistant to its host's alternative pathway of complement-mediated killing. Several different borrelial outer surface proteins have been identified as being able to bind host factor H, a regulator of the alternative pathway, leading to a hypothesis that such binding is important for borrelial resistance to complement. To test this hypothesis, the development ofB. burgdorferiinfection was compared between factor H-deficient and wild-type mice. Factor B- and C3-deficient mice were also studied to determine the relative roles of the alternative and classical/lectin pathways inB. burgdorferisurvival during mammalian infection. While it was predicted thatB. burgdorferishould be impaired in its ability to infect factor H-deficient animals, quantitative analyses of bacterial loads indicated that those mice were infected at levels similar to those of wild-type and factor B- and C3-deficient mice. Ticks fed on infected factor H-deficient or wild-type mice all acquired similar numbers of bacteria. Indirect immunofluorescence analysis ofB. burgdorferiacquired by feeding ticks from the blood of infected mice indicated that none of the bacteria had detectable levels of factor H on their outer surfaces, even though such bacteria express high levels of surface proteins capable of binding factor H. These findings demonstrate that the acquisition of host factor H is not essential for mammalian infection byB. burgdorferiand indicate that additional mechanisms are employed by the Lyme disease spirochete to evade complement-mediated killing.
Functional Analysis of Antigen 43 in UropathogenicEscherichia coliReveals a Role in Long-Term Persistence in the Urinary Tract
Authors: Ulett Glen C. , Valle Jaione , Beloin Christophe , Sherlock Orla , Ghigo Jean-Marc , Schembri Mark A.
Published: April 2007

Escherichia coliis the primary cause of urinary tract infection (UTI) in the developed world. The major factors associated with the virulence of uropathogenicE. coli(UPEC) are fimbrial adhesins, which mediate specific attachment to host receptors and trigger innate host responses. Another group of adhesins is represented by the autotransporter subgroup of proteins. The best characterized of these proteins, antigen 43 (Ag43), is a self-recognizing adhesin that is associated with cell aggregation and biofilm formation inE. coliK-12. The sequenced genome of prototype UPEC strain CFT073 contains two variant Ag43-encoding genes located on pathogenicity islands. The biological significance of both of these genes and their role in UPEC pathogenesis have not been investigated previously. Here we performed a detailed molecular characterization analysis of Ag43a (c3655) and Ag43b (c1273) from UPEC CFT073. Expression of Ag43a and Ag43b in a K-12 background revealed that they possess different functional properties. Ag43a produced a strong aggregation phenotype and promoted significant biofilm growth. Deletion mutants and strains constitutively expressing Ag43a and Ag43b were also constructed using CFT073. When these mutants were analyzed in a mouse model of UTI, Ag43a (but not Ag43b) promoted long-term persistence in the urinary bladder. Our findings demonstrate that Ag43a contributes to UPEC disease pathogenesis and reveal that there are pathogenicity-adapted variants of Ag43 with distinct virulence-related functions.
Evading the Proteasome: Absence of Lysine Residues Contributes to Pertussis Toxin Activity by Evasion of Proteasome Degradation
Authors: Worthington Zoë E. V. , Carbonetti Nicholas H.
Published: April 2007

Pertussis toxin (PT) is an important virulence factor produced by
Bordetella pertussis
. PT holotoxin comprises one enzymatically active A subunit (S1), associated with a pentamer of B subunits. PT is an ADP-ribosyltransferase that modifies several mammalian heterotrimeric G proteins. Some bacterial toxins are believed to undergo retrograde intracellular transport through the Golgi apparatus to the endoplasmic reticulum (ER). The ER-associated degradation (ERAD) pathway involves the removal of misfolded proteins from the ER and degradation upon their return to the cytosol; this pathway may be exploited by PT and other toxins. In the cytosol, ERAD substrates are ubiquitinated at lysine residues, targeting them to the proteasome for degradation. We hypothesize that S1 avoids ubiquitination and proteasome degradation due to its lack of lysine residues. We predicted that the addition of lysine residues would reduce PT toxicity by allowing ubiquitination and degradation to occur. Variant forms of PT were engineered, replacing one, two, or three arginines with lysines in a variety of locations on S1. Several variants were identified with wild-type in vitro enzymatic activity but reduced cellular activity, consistent with our hypothesis. Significant recovery of the cellular activity of these variants was observed when CHO cells were pretreated with a proteasome inhibitor. We concluded that the replacement of arginine residues with lysine in the S1 subunit of PT renders the toxin subject to proteasomal degradation, suggesting that wild-type PT avoids proteasome degradation due to an absence of lysine residues.
Colocalization of a partially dominant gene for yellow seed colour with a major QTL influencing acid detergent fibre (ADF) content in different crosses of oilseed rape (Brassica napus)
Authors: Badani Ana Gloria , Snowdon Rod J. , Wittkop Benjamin , Lipsa Florin D. , Baetzel Roland , Horn Renate , De Haro Antonio , Font Rafael , Lühs Wilfred , Friedt Wolfgang
Published: April 2007

Quantitative trait loci (QTLs) contributing to yellow seed colour and acid detergent fibre (ADF) were localized and compared in 3 mapping populations developed from 2 crosses (designated ‘YE1’ and ‘YE2’) between 2 distinct sources of true-breeding yellow-seeded oilseed rape (Brassica napus) and 2 different black-seeded genotypes. A clear correlation was observed between seed colour and ADF content in both crosses. In all 3 populations, a major QTL, with a large effect on both seed colour and ADF in multiple environments, was detected at the same position on chromosome N18. In YE1, a second minor QTL, with a small effect on seed colour but not on ADF content, was localized on chromosome N1. In YE2, no QTL was observed on N1; however, 2 minor seed-colour loci were localized to N15 and N5. A second major QTL for ADF was localized in YE1 on N13; in YE2, no other QTLs for ADF were detected. Combined QTL and segregation data for seed colour and ADF content in the different populations suggest that a partially dominant B. napus gene for seed colour on N18 contributes to a reduction in fibre content in different yellow-seeded B. napus genotypes. The other QTLs that were identified appear to represent different genes in the 2 yellow-seeded rapeseed sources, which, in each case, affect only fibre content or seed colour, respectively. Potential candidate genes and implications for marker-assisted breeding of oilseed rape with reduced seed dietary fibre content are discussed.
Polytene chromosomes and phylogenetic relationships of Chironomus atrella (Diptera: Chironomidae) in North America
Authors: Martin Jon , Andreeva Eugenia N. , Kiknadze Iya I. , Wülker Wolfgang F.
Published: April 2007

The identity of Chironomus atrella Townes has been confusing because the name has been used for at least 2 quite different species. This situation is clarified karyosystematically by describing the banding patterns and chromosomal polymorphisms from a number of locations in Canada and the US. Most populations show only moderate levels of polymorphism (average heterozygosity, 0.36), although in some samples from shallow waters, the level of polymorphism is much higher (average heterozygosity, up to 0.92). The banding patterns of the polytene chromosomes are either identical or closely related to those found in Holarctic species with a northern distribution. These patterns and the distribution of inversions in the C. atrella populations are consistent with a progenitor that colonized North America across the Bering Strait and spread down the Rocky Mountain chain; at the same time, new gene combinations developed that allowed it to spread eastward over the majority of the continent.
Genetic diversity and geographical dispersal in grapevine clones revealed by microsatellite markers
Authors: Moncada Ximena , Pelsy Frédérique , Merdinoglu Didier , Hinrichsen Patricio
Published: April 2007

Intravarietal genetic diversification associated with geographical dispersal of a vegetatively propagated species was studied using grapevine Vitis vinifera L. ‘Cabernet Sauvignon’ as a model. Fifty-nine clonal samples obtained from 7 countries (France, Chile, Spain, Australia, Hungary, USA, and Italy) were analyzed using 84 microsatellite markers. Eighteen polymorphic microsatellite loci (21.4%) were detected, finding 22 different genotypes in the population analyzed with a genetic similarity of over 97%. The presence of chimeric clones was evidenced at locus VMC5g7 by means of a segregation analysis of descendants by self-pollination of a triallelic Chilean clone and by somatic embryogenesis analysis, showing a mutation in L2 cell layer. Only 2 clones (obtained from France and Australia) presented the ancestral genotype, and the most divergent genotype was exhibited by another French clone, which had accumulated 5 somatic mutations. The 2 largest populations considered (from France and Chile) showed a clear divergency in the polymorphisms detected. These antecedents enabled the tracing of geographical dispersal with a phylogenetic hypothesis supporting France as the center of origin of diversification of Cabernet Sauvignon. The results obtained could help to explain diversification processes in other grapevine cultivars. The possibility that this kind of genetic variability occurs in other vegetatively propagated species is discussed, focusing on possible fingerprinting applications.
Environmental stress and life-stage dependence on the detection of heterozygosity–fitness correlations in the European eel,Anguilla anguilla
Authors: Pujolar J.M. , Maes G.E. , Vancoillie C. , Volckaert F.A.M.
Published: April 2007

Heterozygosity–fitness correlations (HFCs) have been reported in populations of many species, although HFCs can clearly vary across species, conspecific populations, temporal samples, and sexes. We studied (i) the temporal stability of the association between genetic variation and growth rate (length and mass increase) and (ii) the influence of genetic variability on survival in the European eel ( Anguilla anguilla L). HFCs were assessed using genotypes from 10 allozyme and 6 microsatellite markers in 22-month-old experimental individuals. The results were compared with those of a previous study carried out in 12-month-old individuals, in which more heterozygous individuals showed a significantly faster growth rate. In contrast, 22-month-old individuals showed no evidence that genetic variability was correlated with growth rate. Additionally, heterozygous individuals did not show a higher survival rate compared with more homozygous individuals after either handling stress or parasite infection. The decrease in HFCs over time is consistent with the general prediction that differences in growth and survival among individuals are maximal early in life and in our case most likely due to the relaxation of environmental conditions related to population-density effects. Alternatively, the decline in HFCs could be attributed to either ontogenetic variance in gene activity between 12- and 22-month-old individuals or differential mortality leaving only the largest individuals.
Isolation and characterization of the pea cytochrome c oxidase Vb gene
Authors: Kubo Nakao , Arimura Shin-ichi , Tsutsumi Nobuhiro , Kadowaki Koh-ichi , Hirai Masashi
Published: April 2007

Three copies of the gene that encodes cytochrome c oxidase subunit Vb were isolated from the pea (PscoxVb-1, PscoxVb-2, and PscoxVb-3). Northern Blot and reverse transcriptase-PCR analyses suggest that all 3 genes are transcribed in the pea. Each pea coxVb gene has an N-terminal extended sequence that can encode a mitochondrial targeting signal, called a presequence. The localization of green fluorescent proteins fused with the presequence strongly suggests the targeting of pea COXVb proteins to mitochondria. Each pea coxVb gene has 5 intron sites within the coding region. These are similar to Arabidopsis and rice, although the intron lengths vary greatly. A phylogenetic analysis of coxVb suggests the occurrence of gene duplication events during angiosperm evolution. In particular, 2 duplication events might have occurred in legumes, grasses, and Solanaceae. A comparison of amino acid sequences in COXVb or its counterpart shows the conservation of several amino acids within a zinc finger motif. Interestingly, a homology search analysis showed that bacterial protein COG4391 and a mitochondrial complex I 13 kDa subunit also have similar amino acid compositions around this motif. Such similarity might reflect evolutionary relationships among the 3 proteins.
Loci affecting flowering time in oat under short-day conditions
Authors: Locatelli Ana B. , Federizzi Luiz C. , Milach Sandra C. K. , Wight Charlene P. , Molnar Stephen J. , Chapados Julie T. , Tinker Nicholas A.
Published: April 2007

Flowering time (or days to heading) is an important characteristic in crop plants that affects adaptation to cropping cycles and growing seasons. The objectives of this study were to identify molecular markers associated with flowering time in 3 oat populations developed from Brazilian oat varieties, and to compare their map locations with those of other loci that might influence flowering time. Flowering time was studied in recombinant inbred lines from 3 hexaploid oat populations: UFRGS 8 × Pc68/5*Starter; UFRGS 881971 × Pc68/5*Starter; and UFRGS 8 × UFRGS 930605. Bulked segregant analysis, using amplified fragment length polymorphism, was followed by selective mapping in each population and in a reference population, ‘Kanota’ × ‘Ogle’ (K×O). One quantitative trait locus (QTL) with major effects on flowering time was identified in each cross. Comparative mapping showed that a major QTL, with earliness alleles originating from UFRGS 8 and UFRGS 881971, is in a region with close homology to K×O linkage group 17 and to a locus that reportedly confers day-length insensitivity in oat (Di1). This is the first report to identify the map location of the Di1 locus, and putatively confirm the presence of Di1 alleles in new germplasm. Further comparative mapping and the alignment of mapped oat markers with the sequenced rice genome suggest that this QTL and (or) Di1 is orthologous to the Hd1 locus in rice and the CONSTANS gene in Arabidopsis and other species. A different QTL with major effects segregated in the UFRGS 8 × UFRGS 930605 cross, where the early-flowering allele for Di1 was probably fixed. Two additional QTLs with smaller effects were identified in the UFRGS 8 × Pc68/5*Starter population. These results suggest that the Brazilian oat line UFRGS 8 contains an optimal set of alleles conditioning earliness under the short-day conditions of the Brazilian winter growing season, and that molecular selection could be used to introgress these alleles into other breeding material.
A sequence related to ricePongtransposable element displays transcriptional activation by in vitro culture and reveals somaclonal variations in maize
Authors: Barret P. , Brinkman M. , Beckert M.
Published: April 2007

Miniature inverted-repeat transposable elements (MITEs) are nonautonomous elements that are abundant in plant genomes. The rice MITE mPing was shown to be mobilized by anther culture, and the associated transposon Pong was shown to transpose actively in an Oryza sativa ‘indica’ rice cell-culture line. We have identified 3 sequences in maize named ZmTPAPong-like 1, 2, and 3 that displayed homology with the transposase of Pong. Here, we show that these sequences are differentially expressed during the in vitro androgenetic process in maize. We also demonstrate that the ZmTPAPong-like 1 and 3 sequences reveal somaclonal variations among plants regenerated from the calli of a doubled haploid line. These data suggest that the ZmTPAPong-like sequences could form part of a Zea mays element related to the rice Pong element. The possible activation of this newly discovered element under stress conditions is discussed.
Genotype distribution of the prion protein gene (PRNP) promoter polymorphisms in Korean cattle
Authors: Jeong Byung-Hoon , Lee Yun-Jung , Kim Nam-Ho , Carp R.I. , Kim Yong-Sun
Published: April 2007

Recently, an association between bovine spongiform encephalopathy (BSE) and insertion/deletion (indel) polymorphisms in the bovine prion protein gene (PRNP) promoter region has been reported in German cattle. These PRNP polymorphisms cause changes in PRNP expression and are thought to play an important role in BSE susceptibility. BSE has been reported in British and Japanese Holstein cattle but has not been diagnosed in Hanwoo cattle (Bos taurus coreanae) up to now. These results prompted us to investigate the genotype distributions of these PRNP promoter polymorphisms in 107 Hanwoo cattle and 52 Holstein cattle and compare the results with those of previous studies. A significant difference (P = 0.0249) in allele frequency of the 23 bp indel polymorphism was observed between Hanwoo and the BSE-affected German cattle previously investigated. There were no significant differences in the genotype (P = 0.2095) or allele (P = 0.8875) frequencies of the 12 bp indel polymorphism between Hanwoo and BSE-affected German cattle. Interestingly, the genotype and allele frequencies of the 23 bp indel polymorphism in Korean Holsteins were very similar to those previously reported for BSE-affected German cattle and healthy US cattle sires.
Three new satellite sequences and a mobile element found inside HSP70 introns of the Mediterranean mussel (Mytilus galloprovincialis)
Authors: Kourtidis Antonis , Drosopoulou Elena , Pantzartzi Chrysoula N. , Chintiroglou Chariton C. , Scouras Zacharias G.
Published: April 2007

We report the characterization of 3 new repetitive sequences from the bivalve mollusc Mytilus galloprovincialis, designated Mg1, Mg2, and Mg3, with monomer lengths of 169, 260, and 70 bp, respectively. The 3 repeats together constitute approximately 7.8% of the M. galloprovincialis genome and were found, together with ApaI-type 2 repeats, inside the introns of 2 genes of the HSP70 family, hsc70 and hsc71. Both the monomer length and the genomic content of the repeats indicate satellite sequences. The Mg1 repetitive region and its flanking sequences exhibit significant homology to CvE, a member of the Pearl family of mobile elements found in the eastern oyster (Crassostrea virginica). Thus, the whole homologous region is designated MgE, the first putative transposable element characterized in M. galloprovincialis. The ApaI, Mg2, and Mg3 repeats are continuously arranged inside the introns of both the hsc70 and hsc71 genes. The presence of perfect inverted repeats flanking the ApaI–Mg2–Mg3 repetitive region, as well as a sequence analysis of the repeats, indicates a transposition-like insertion of this region. The genes of the HSP70 family are highly conserved, and the presence of repetitive DNA or of mobile elements inside their introns is reported here for the first time.
Construction and characterization of the first bacterial artificial chromosome library for the cotton species Gossypium barbadense L.
Authors: Wang X.F. , Ma J. , Wang W.S. , Zheng Y.M. , Zhang G.Y. , Liu C.J. , Ma Z.Y.
Published: April 2007

As the second most widely cultivated cotton, Gossypium barbadense is well known for its superior fiber properties and its high levels of resistance to Fusarium and Verticillium wilts. To enhance our ability to exploit these properties in breeding programs, we constructed the first bacterial artificial chromosome (BAC) library for this species. The library contains 167 424 clones (49 920 BamHI and 117 504 HindIII clones), with an estimated average insert size of 130 kb. About 94.0% of the clones had inserts over 100 kb, and the empty clones accounted for less than 4.0%. Contamination of the library with chloroplast clones was very low (0.2%). Screening the library with locus-specific probes showed that BAC clones represent 6.5-fold genome equivalents. This high-quality library provides an additional asset with which to exploit genetic variation for cotton improvement.
Genomic distribution of MITEs in barley determined by MITE-AFLP mapping
Authors: Takahashi H. , Akagi H. , Mori K. , Sato K. , Takeda K.
Published: April 2007

Miniature inverted-repeat transposable elements (MITEs) represent a large superfamily of transposons that are moderately to highly repetitive and frequently found near or within plant genes. To elucidate the organization of MITEs in the barley genome, MITEs were integrated into the genetic map of barley. In this report, we describe the use of MITEs in amplified fragment length polymorphism (AFLP) mapping, and demonstrate their superiority over conventional AFLP mapping. Barley MITEs include members of the Stowaway, Barfly, and Pangrangja families. By amplifying the flanking sequences of these MITEs, a total of 214 loci were mapped from a population of 93 doubled-haploid segregating individuals between Hordeum vulgare ssp. vulgare and H. vulgare ssp. spontaneum. The 214 MITE-AFLP and 40 anchor simple sequence repeat (SSR) loci were distributed on 7 linkage groups, covering a total map distance of 1 165 cM. The average marker density on each chromosome ranged between 3.4 and 9.6 cM per locus. Only 1 MITE-based locus was frequently found to be associated with MITE loci from the same family, resulting in clusters in chromosomal subregions. In barley, it will be possible to cover the entire genome with a limited set of MITE-based primers and to build highly dense maps of specific regions.
A genetic analysis of seed and berry weight in grapevine
Authors: Cabezas J.A. , Cervera M.T. , Ruiz-García L. , Carreño J. , Martínez-Zapater J.M.
Published: April 2007

Fruit size and seedlessness are highly relevant traits in many fruit crop species, and both are primary targets of breeding programs for table grapes. In this work we performed a quantitative genetic analysis of size and seedlessness in an F1segregating population derived from the cross between a classical seeded ( Vitis vinifera L. ‘Dominga’) and a newly bred seedless (‘Autumn Seedless’) cultivar. Fruit size was scored as berry weight (BW), and for seedlessness we considered both seed fresh weight (SFW) and the number of seeds and seed traces (SN) per berry. Quantitative trait loci (QTL) analysis of BW detected 3 QTLs affecting this trait and accounting for up to 67% of the total phenotypic variance. QTL analysis for seedlessness detected 3 QTLs affecting SN (explaining up to 35% of total variance) and 6 affecting SFW (explaining up to 90% of total variance). Among them, a major effect QTL explained almost half of the phenotypic variation for SFW. Comparative analysis of QTLs for these traits reduced the number of grapevine genomic regions involved, one of them being a major effect QTL for seedlessness. Association analyses showed that microsatellite locus VMC7F2, closely linked to this QTL, is a useful marker for selection of seedlessnes.
Differential responses of Coffea arabica L. leaves and roots to chemically induced systemic acquired resistance
Authors: De Nardi Barbara , Dreos René , Del Terra Lorenzo , Martellossi Chiara , Asquini Elisa , Tornincasa Patrizia , Gasperini Debora , Pacchioni Beniamina , Rathinavelu Rajkumar , Pallavicini Alberto , Graziosi Giorgio
Published: April 2007

Coffea arabica is susceptible to several pests and diseases, some of which affect the leaves and roots. Systemic acquired resistance (SAR) is the main defence mechanism activated in plants in response to pathogen attack. Here, we report the effects of benzo(1,2,3)thiadiazole-7-carbothioic acid-s-methyl ester (BTH), a SAR chemical inducer, on the expression profile of C. arabica. Two cDNA libraries were constructed from the mRNA isolated from leaves and embryonic roots to create 1587 nonredundant expressed sequence tags (ESTs). We developed a cDNA microarray containing 1506 ESTs from the leaves and embryonic roots, and 48 NBS-LRR (nucleotide-binding site leucine-rich repeat) gene fragments derived from 2 specific genomic libraries. Competitive hybridization between untreated and BTH-treated leaves resulted in 55 genes that were significantly overexpressed and 16 genes that were significantly underexpressed. In the roots, 37 and 42 genes were over and underexpressed, respectively. A general shift in metabolism from housekeeping to defence occurred in the leaves and roots after BTH treatment. We observed a systemic increase in pathogenesis-related protein synthesis, in the oxidative burst, and in the cell wall strengthening processes. Moreover, responses in the roots and leaves varied significantly.
Mapping of FHB resistance QTLs in tetraploid wheat
Authors: Somers Daryl J. , Fedak George , Clarke John , Cao Wenguang
Published: April 2007

Triticum turgidum L var. durum is known to be particularly susceptible to infection by Fusarium graminearum, the causal agent for Fusarium head blight (FHB), which results in severe yield losses and grain contaminated with mycotoxins. This research was aimed at identifying FHB resistance in tetraploid wheat and mapping the location of FHB resistance genes. A tetraploid cross of durum wheat (‘Strongfield’) × Triticum carthlicum (‘Blackbird’) was used to generate a doubled-haploid (DH) population. This population was evaluated for type II resistance to F. graminearum in replicated greenhouse trials, in which heads were innoculated and the percent of infected spikelets was determined 21 days later. The population was also genotyped with microsatellite markers to construct a map of 424 loci, covering 2 052 cM. The FHB reaction and genotypic data were used to identify FHB resistance quantitative trait loci (QTLs). It was determined that 2 intervals on chromosomes 2BL and 6BS controlled FHB resistance in this tetraploid cross. The FHB resistance allele on chromosome 2BL (r2 = 0.26, logarithm of odds (LOD) = 8.5) was derived from ‘Strongfield’, and the FHB resistance allele on chromosome 6BS (r2 = 0.23, LOD = 6.6) was derived from ‘Blackbird’. Two other loci, on chromosomes 5AS and 2AL, were shown to regulate FHB infection and to have an epistatic effect on the FHB resistance QTL on chromosome 6BS. Further, the FHB resistance QTL peak on chromosome 6BS was clearly coincident with the known FHB resistance gene Fhb2, derived from Sumai 3. The results show that FHB resistance can be expressed in durum wheat, and that T. carthlicum and Triticum aestivum likely share a common FHB resistance gene on chromosome 6BS.
UN-KLEENE BOOLEAN EQUATION SOLVING
Authors: HERLIHY BRIAN , SCHACHTE PETER , SØNDERGAARD HARALD
Published: April 2007

We present a new method for finding closed forms of recursive Boolean function definitions. Traditionally, these closed forms are found by Kleene iteration: iterative approximation until a fixed point is reached. Conceptually, our new method replaces each k-ary function by 2k Boolean constants defined by mutual recursion. The introduction of an exponential number of constants is mitigated by the simplicity of their definitions and by the use of a novel variant of ROBDDs to avoid repeated computation. Experiments suggest that this approach is significantly faster than Kleene iteration for examples that require many Kleene iteration steps.
ALGORITHMS FOR K-DISJOINT MAXIMUM SUBARRAYS
Authors: BAE SUNG EUN , TAKAOKA TADAO
Published: April 2007

The maximum subarray problem is to find the array portion that maximizes the sum of array elements in it. For K disjoint maximum subarrays, Ruzzo and Tompa gave an O(n) time solution for one-dimension. This solution is, however, difficult to extend to two-dimensions. While a trivial solution of O(Kn3) time is easily obtainable for a two-dimensional array of size n × n, little study has been undertaken to improve the time complexity. We first propose an O(n + K log K) time solution for one-dimension. This is asymptotically equivalent to Ruzzo and Tompa's when sorted order is needed. Based on this, we achieve O(n3 + Kn2 log n) time for two-dimensions. This is cubic time when K ≤ n/ log n. We also show that this upper bound does not exceed O(n3 log n) for K > n, namely O(n3 + min (K,n) · n log n).