Fluoromycobacteriophages for rapid, specific, and sensitive antibiotic susceptibility testing of Mycobacterium tuberculosis

Rapid antibiotic susceptibility testing of Mycobacterium tuberculosis is of paramount importance as multiple- and extensively- drug resistant strains of M. tuberculosis emerge and spread. We describe here a virus-based assay in which fluoromycobacteriophages are used to deliver a GFP or ZsYellow fluorescent marker gene to M. tuberculosis, which can then be monitored by fluorescent detection approaches including fluorescent microscopy and flow cytometry. Pre-clinical evaluations show that addition of either Rifampicin or Streptomycin at the time of phage addition obliterates fluorescence in susceptible cells but not in isogenic resistant bacteria enabling drug sensitivity determination in less than 24 hours. Detection requires no substrate addition, fewer than 100 cells can be identified, and resistant bacteria can be detected within mixed populations. Fluorescence withstands fixation by paraformaldehyde providing enhanced biosafety for testing MDR-TB and XDR-TB infections. © 2009 Piuri et al

Multilocus Bayesian Estimates of Intra-Oceanic Genetic Differentiation, Connectivity, and Admixture in Atlantic Swordfish (Xiphias gladius L.)

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Application of Homozygosity Haplotype Analysis to Genetic Mapping with High-Density SNP Genotype Data

BACKGROUND: In families segregating a monogenic genetic disorder with a single disease gene introduction, patients share a mutation-carrying chromosomal interval with identity-by-descent (IBD). Such a shared chromosomal interval or haplotype, surrounding the actual pathogenic mutation, is typically detected and defined by multipoint linkage and phased haplotype analysis using microsatellite or SNP genotype data. High-density SNP genotype data presents a computational challenge for conventional genetic analyses. A novel non-parametric method termed Homozygosity Haplotype (HH) was recently proposed for the genome-wide search of the autosomal segments shared among patients using high density SNP genotype data. METHODOLOGY/PRINCIPAL FINDINGS: The applicability and the effectiveness of HH in identifying the potential linkage of disease causative gene with high-density SNP genotype data were studied with a series of monogenic disorders ascertained in eastern Canadian populations. The HH approach was validated using the genotypes of patients from a family affected with a rare autosomal dominant disease Schnyder crystalline corneal dystrophy. HH accurately detected the approximately 1 Mb genomic interval encompassing the causative gene UBIAD1 using the genotypes of only four affected subjects. The successful application of HH to identify the potential linkage for a family with pericentral retinal disorder indicates that HH can be applied to perform family-based association analysis by treating affected and unaffected family members as cases and controls respectively. A new strategy for the genome-wide screening of known causative genes or loci with HH was proposed, as shown the applications to a myoclonus dystonia and a renal failure cohort. CONCLUSIONS/SIGNIFICANCE: Our study of the HH approach demonstrates that HH is very efficient and effective in identifying potential disease linked region. HH has the potential to be used as an efficient alternative approach to sequencing or microsatellite-based fine mapping for screening the known causative genes in genetic disease study

Pleosporales

One hundred and five generic types of Pleosporales are described and illustrated. A brief introduction and detailed history with short notes on morphology, molecular phylogeny as well as a general conclusion of each genus are provided. For those genera where the type or a representative specimen is unavailable, a brief note is given. Altogether 174 genera of Pleosporales are treated. Phaeotrichaceae as well as Kriegeriella, Zeuctomorpha and Muroia are excluded from Pleosporales. Based on the multigene phylogenetic analysis, the suborder Massarineae is emended to accommodate five families, viz. Lentitheciaceae, Massarinaceae, Montagnulaceae, Morosphaeriaceae and Trematosphaeriaceae

Potential climatic transitions with profound impact on Europe

We discuss potential transitions of six climatic subsystems with large-scale impact on Europe, sometimes denoted as tipping elements. These are the ice sheets on Greenland and West Antarctica, the Atlantic thermohaline circulation, Arctic sea ice, Alpine glaciers and northern hemisphere stratospheric ozone. Each system is represented by co-authors actively publishing in the corresponding field. For each subsystem we summarize the mechanism of a potential transition in a warmer climate along with its impact on Europe and assess the likelihood for such a transition based on published scientific literature. As a summary, the ‘tipping’ potential for each system is provided as a function of global mean temperature increase which required some subjective interpretation of scientific facts by the authors and should be considered as a snapshot of our current understanding. <br/

The stellar and sub-stellar IMF of simple and composite populations

The current knowledge on the stellar IMF is documented. It appears to become top-heavy when the star-formation rate density surpasses about 0.1Msun/(yr pc^3) on a pc scale and it may become increasingly bottom-heavy with increasing metallicity and in increasingly massive early-type galaxies. It declines quite steeply below about 0.07Msun with brown dwarfs (BDs) and very low mass stars having their own IMF. The most massive star of mass mmax formed in an embedded cluster with stellar mass Mecl correlates strongly with Mecl being a result of gravitation-driven but resource-limited growth and fragmentation induced starvation. There is no convincing evidence whatsoever that massive stars do form in isolation. Various methods of discretising a stellar population are introduced: optimal sampling leads to a mass distribution that perfectly represents the exact form of the desired IMF and the mmax-to-Mecl relation, while random sampling results in statistical variations of the shape of the IMF. The observed mmax-to-Mecl correlation and the small spread of IMF power-law indices together suggest that optimally sampling the IMF may be the more realistic description of star formation than random sampling from a universal IMF with a constant upper mass limit. Composite populations on galaxy scales, which are formed from many pc scale star formation events, need to be described by the integrated galactic IMF. This IGIMF varies systematically from top-light to top-heavy in dependence of galaxy type and star formation rate, with dramatic implications for theories of galaxy formation and evolution.Comment: 167 pages, 37 figures, 3 tables, published in Stellar Systems and Galactic Structure, Vol.5, Springer. This revised version is consistent with the published version and includes additional references and minor additions to the text as well as a recomputed Table 1. ISBN 978-90-481-8817-

Factors influencing citrus fruit scarring caused by Pezothrips kellyanus

[EN] Kelly s citrus thrips (KCT) Pezothrips kellyanus (Bagnall) (Thysanoptera: Thripidae) is a recently recorded cosmopolitan citrus pest, causing fruit scarring that results in downgrading of fruit. Due to the detrimental effects caused on fruits by KCT, we wanted to study some of the factors influencing fruit scarring. Specifically, the objectives were: (1) to determine the fruit development stage when citrus fruits are damaged by KCT and the population structure of KCT during this period, (2) to study the influence of temperature on intensity of damage, and finally, (3) to identify alternative host plants. KCT populations on flowers and fruitlets and alternate plant hosts were sampled in four citrus orchards from 2008 to 2010. The percentage of damaged fruits was also recorded. The exotic vine Araujia sericifera (Apocynaceae) was recorded as a new host for KCT. Thrips scarring started to increase at 350 650 degree-days (DD) above 10.2 C, coinciding with a peak abundance of the second instar larval stages over all 3 years of the study. The maximum percentage of larval stages of KCT was observed in the 3 years at about 500 DD, a period which corresponds to the end of May or early June. Variation in the severity of fruit scarring appeared to be related to air temperature. Temperature likely affects the synchronisation between the peak in abundance of KCT larvae, and the period when fruitlets are susceptible to thrips damage. Temperature can also influence the survival and development of KCT populations in citrus and other host plants in the citrus agro-ecosystem.The authors thank Alejandro Tena for his valuable suggestions and two anonymous referees for their careful review and helpful comments. We also extend our thanks to the owners of the commercial orchards for giving us permission to use their citrus orchards. The first author was awarded an FPI fellowship from the Polytechnic University of Valencia to obtain her PhD degree.Navarro Campos, C.; Pekas, A.; Aguilar Martí, MA.; Garcia Marí, F. (2013). Factors influencing citrus fruit scarring caused by Pezothrips kellyanus. Journal of Pest Science. (86):459-467. doi:10.1007/s10340-013-0489-7S45946786Baker GJ (2006) Kelly citrus thrips management. Fact sheet. Government of South Australia, primary industries and resources SA. http://www.sardi.sa.gov.au/__data/assets/pdf_file/0010/44875/kctfact_sheet.pdf . Accessed 16 July 2012Baker GJ, Jackman DJ, Keller M, MacGregor A, Purvis S (2002) Development of an integrated pest management system for thrips in Citrus. HAL Final Report CT97007. http://www.sardi.sa.gov.au/pestsdiseases/horticulture/horticultural_pests/kelly_citrus_thrips/research_report_1997-2000 . Accessed 16 July 2012Bedford ECG (1998) Thrips, wind and other blemishes. Citrus pests in the Republic of South Africa. In: Bedford ECG, van den Berg MA, de Villiers EA (eds) ARC-Institute for tropical and subtropical crops, Nelspruit, South Africa, pp 170–183Blank RH, Gill GSC (1997) Thrips (Thysanoptera: Terebrantia) on flowers and fruit of citrus in New Zealand. N Z J Crop Hortic Sci 25:319–332Chellemi D, Funderburk F, Hall D (1994) Seasonal abundance of flower-inhabiting Frankliniella species (Thysanoptera: Thripidae) on wild plant species. Environ Entomol 23:337–342Conti F, Tuminelli R, Amico C, Fisicaro R, Frittitta C, Perrotta G, Marullo R (2001) Monitoring Pezothrips kellyanus on citrus in eastern Sicily, Thrips and tospoviruses. In: Proceedings of the 7th international symposium on Thysanoptera, Reggio Calabria, 1–8 July 2001, Italy, pp 207–210Costa L, Mateus C, zurStrassen R, Franco JC (2006) Thrips (Thysanoptera) associated to lemon orchards in the Oeste region of Portugal. IOBC/WPRS Bull 29:285–291European Plant Protection Organisation Reporting Service [EPPO] (2006) Pezothrips kellyanus. http://www.eppo.org/QUARANTINE/Pest_Risk_Analysis/PRAdocs_insects/06-12760%20DS%20PEZTKE.doc. Accessed 18 June 2012European Plant ProtectionOrganisation Reporting Service [EPPO] (2005) Scirtothrips aurantii, Scirtothrips citri, Scirtothrips dorsalis. EPPO Bull 35:353–356Franco JC, Garcia-Marí F, Ramos AP, Besri M (2006) Survey on the situation of citrus pest management in Mediterranean countries. IOBC/WPRS Bull 29:335–346Froud KJ, Stevens PS, Steven D (2001) Survey of alternative host plants for Kelly’s citrus thrips (Pezothrips kellyanus) in citrus growing regions. N Z Plant Prot 54:15–20Gomez-Clemente F (1952) Un tisanóptero causante de daños en las naranjas de algunas zonas de Levante. Boletín de Patología Vegetal y Entomología Agrícola 19:135–146Grout TG, Morse JG, O’Connell NV, Flaherty DL, Goodell PB, Freeman MW, Coviello RL (1986) Citrus thrips (Thysanoptera: Thripidae) phenology and sampling in the San Joaquin Valley. J Econ Entomol 79:1516–1523Horton J (1918) The citrus thrips. US Dep Agric Bull 616:1–42Kirk WDJ (1987) A key to the larvae of some common Australian flower thrips (Insecta: Thysanoptera), with a host-plant survey. Aust J Zool 35:173–185Lacasa A, Llorens JM, Sánchez JA (1996) Un Scirtothrips (Thysanoptera: Thripidae) causa daños en los cítricos en España. Bol San Veg Plagas 22:79–95Lewis HC (1935) Factors influencing citrus thrips damage. J Econ Entomol 28:1011–1015Lewis T (1997) Distribution, abundance and population dynamics. In: Lewis T (ed) Thrips as crop pests. CAB International, Wallingford, pp 217–258Lovatt C, Streeter S, Minter T, O’connell N, Flaherty D, Freeman M, Goodell P (1984) Phenology of flowering in Citrus sinensis (L.) Osbeck, cv. Washington navel orange. Proc Int Soc Citric 1:186–190Marullo R (1998) Pezothrips kellyanus, un nuovo tripide parassita delle colture meridionali. Informatore Fitopatologico 48:72–75Milne JR, Milne M, Walter GH (1997) A key to larval thrips (Thysanoptera) from Granite Belt stonefruit trees and a first description of Pseudanaphothrips achaetus (Bagnall) larvae. Aust J Entomol 36:319–326Mound LA, Jackman DJ (1998) Thrips in the economy and ecology of Australia, In: Zalucki MP, RAI Drew RAI, White GG (eds) Pest Management: future challenges, Proceedings of the sixth Australian applied entomological research conference, University of Queensland, St. Lucia, pp 472–478Mound LA, Marullo R (1996) The thrips of Central and South America (Insecta: Thysanoptera): an introduction. Mem Entomol Int 6:1–487Mound LA, Walker AK (1982) Terebrantia (Insecta: Thysanoptera). Fauna N Z 1:1–113Navarro-Campos C, Marzal C, Aguilar A, GarciaMarí F (2010) Presencia del microlepidóptero Anatrachyntisbadia en cítricos: descripción, comportamiento y daños al fruto. Levante Agrícola 402:270–276Navarro-Campos C, Aguilar A, Garcia-Marí F (2011) Population trend and fruit damage of Pezothrips kellyanus in citrus orchards in Valencia (Spain). IOBC/WPRS Bull 62: 285–292Navarro-Campos C, Aguilar A, Garcia-Marí F (2012) Aggregation pattern, sampling plan and intervention threshold for Pezothrips kellyanus in citrus groves. Entomol Exp Appl 142:130–139Northfield TD, Paini DR, Funderburk JE, Reitz SR (2008) Annual cycles of Frankliniella spp. (Thysanoptera: Thripidae) thrips abundance on North Florida uncultivated reproductive hosts: predicting possible sources of pest outbreaks. Ann Entomol Soc Am 101:769–778Orphanides G (1997) Thrips on citrus. Annual Review for 1997. 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Environ Entomol 15:763–76

A Study of B0 -> J/psi K(*)0 pi+ pi- Decays with the Collider Detector at Fermilab

We report a study of the decays B0 -> J/psi K(*)0 pi+ pi-, which involve the creation of a u u-bar or d d-bar quark pair in addition to a b-bar -> c-bar(c s-bar) decay. The data sample consists of 110 1/pb of p p-bar collisions at sqrt{s} = 1.8 TeV collected by the CDF detector at the Fermilab Tevatron collider during 1992-1995. We measure the branching ratios to be BR(B0 -> J/psi K*0 pi+ pi-) = (8.0 +- 2.2 +- 1.5) * 10^{-4} and BR(B0 -> J/psi K0 pi+ pi-) = (1.1 +- 0.4 +- 0.2) * 10^{-3}. Contributions to these decays are seen from psi(2S) K(*)0, J/psi K0 rho0, J/psi K*+ pi-, and J/psi K1(1270)

A randomized controlled trial of a decision aid for women considering genetic testing for breast and ovarian cancer risk

PURPOSE: To measure the effectiveness of a tailored decision aid (DA) designed to help women make informed decisions about genetic testing for breast/ovarian cancer risk. METHODS: A total of 145 women were randomized to receive the DA or a control pamphlet at the end of their first genetic counseling consultation. Of these, 120 (82.8%) completed two questionnaires, 1 week and 6 months post-consultation. RESULTS: While the DA had no effect on informed choice, post-decisional regret or actual genetic testing decision, the trial showed that women who received the DA had higher knowledge levels and felt more informed about genetic testing than women who received the control pamphlet (chi(2)(2) = 6.82; P = 0.033; chi(2)(1) = 4.86; P = 0.028 respectively). The DA also helped women who did not have blood drawn at their first consultation to clarify their values with regards to genetic testing (chi(2)(1) = 5.27; P = 0.022). Women who received the DA were less likely to share the information with other family members than women in the control condition (chi(2)(1) = 8.78; P = 0.003). CONCLUSIONS: Decision aids are an effective decision-support strategy for women considering genetic testing for breast/ovarian cancer risk, and are most effective before the patient has made a decision, which is generally at the point of having blood drawn