Diversity of 'Candidatus Liberibacter asiaticus' Strains in Texas Revealed by Prophage Sequence Analyses.

Prophages/phages are important components of the genome of 'Candidatus Liberibacter asiaticus' (CLas), an unculturable alphaproteobacterium associated with citrus huanglongbing (HLB) disease. Phage variations have significant contributions to CLas strain diversity research, which provide critical information for HLB management. In this study, prophage variations among selected CLas strains from southern Texas were studied. The CLas strains were collected from three different CLas inhabitant environments: citrus leaf, citrus root, and Asian citrus psyllid (ACP), the vector of CLas. Regardless of the different habitats and time span, more than 80% of CLas strains consistently had both Type 1 and Type 2 prophages, the same prophage type profile as in CLas strains from Florida but different to those reported in California and China. Further studies were performed on prophage type diversity. Analyses on Type 1-specific PCR amplicon sequences (encoding an endolysin protein) revealed the presence of two groups: Type 1-A, clustered around prophage SC1 originating from Florida, and Type 1-B, clustered with prophage P-SGCA5-1 originating in California. Type 1-B strains were mostly from ACP of nearby citrus orchards. On the other hand, analyses on Type 2-specific PCR amplicon sequences (encoding a putative hypothetical protein) showed a single group clustering around prophage SC2 originated from Florida, although a different Type 2 prophage has been reported in California. The presence of two distinct Type 1 prophage groups suggested the possibility of two different CLas introductions in southern Texas. The results from this study provide an initial baseline of information on genomic and population diversity of CLas in Texas.

A Field Deployable Real-Time Loop-Mediated Isothermal Amplification Targeting Five Copy nrdB Gene for the Detection of 'Candidatus Liberibacter asiaticus' in Citrus.

Huanglongbing (HLB) is one of the most destructive diseases in citrus, which imperils the sustainability of citriculture worldwide. The presumed causal agent of HLB, 'Candidatus Liberibacter asiaticus' (CLas) is a non-culturable phloem-limited α-proteobacterium transmitted by Asian citrus psyllids (ACP, Diaphorina citri Kuwayama). A widely adopted method for HLB diagnosis is based on quantitative real-time polymerase chain reaction (qPCR). Although HLB diagnostic qPCR provides high sensitivity and good reproducibility, it is limited by time-consuming DNA preparation from plant tissue or ACP and the requirement of proper lab instruments including a thermal cycler to conduct qPCR. In an attempt to develop a quick assay that can be deployed in the field for CLas detection, we developed a real-time loop-mediated isothermal amplification (rt-LAMP) assay by targeting the CLas five copy nrdB gene. The rt-LAMP assay using various plant sample types and psyllids successfully detected the nrdB target as low as ~2.6 Log10 copies. Although the rt-LAMP assay was less sensitive than laboratory-based qPCR (detection limit ~10 copies), the data obtained with citrus leaf and bark and ACP showed that the rt-LAMP assay has >96% CLas detection rate, compared to that of laboratory-based qPCR. However, the CLas detection rate in fibrous roots was significantly decreased compared to qPCR due to low CLas titer in some root DNA sample. We also demonstrated that the rt-LAMP assay can be used with a crude leaf DNA extract which is fully deployable in the field for quick and reliable HLB screening.

Root samples provide early and improved detection of Candidatus Liberibacter asiaticus in Citrus.

Huanglongbing (HLB), or Citrus Greening, is one of the most devastating diseases affecting agriculture today. Widespread throughout Citrus growing regions of the world, it has had severe economic consequences in all areas it has invaded. With no treatment available, management strategies focus on suppression and containment. Effective use of these costly control strategies relies on rapid and accurate identification of infected plants. Unfortunately, symptoms of the disease are slow to develop and indistinct from symptoms of other biotic/abiotic stressors. As a result, diagnosticians have focused on detecting the pathogen, Candidatus Liberibacter asiaticus, by DNA-based detection strategies utilizing leaf midribs for sampling. Recent work has shown that fibrous root decline occurs in HLB-affected trees before symptom development among leaves. Moreover, the pathogen, Ca. Liberibacter asiaticus, has been shown to be more evenly distributed within roots than within the canopy. Motivated by these observations, a longitudinal study of young asymptomatic trees was established to observe the spread of disease through time and test the relative effectiveness of leaf- and root-based detection strategies. Detection of the pathogen occurred earlier, more consistently, and more often in root samples than in leaf samples. Moreover, little influence of geography or host variety was found on the probability of detection.

Distribution of 'Candidatus Liberibacter asiaticus' Above and Below Ground in Texas Citrus.

Detection of 'Candidatus Liberibacter asiaticus' represents one of the most difficult, yet critical, steps of controlling Huanglongbing disease. Efficient detection relies on understanding the underlying distribution of bacteria within trees. To that end, we studied the distribution of 'Ca. L. asiaticus' in leaves of 'Rio Red' grapefruit trees and in roots of 'Valencia' sweet orange trees grafted onto sour orange rootstock. We performed two sets of leaf collection on grapefruit trees; the first a selective sampling targeting symptomatic leaves and their neighbors and the second a systematic collection disregarding symptomology. From uprooted orange trees, we exhaustively sampled fibrous roots. In this study, the presence of 'Ca. L. asiaticus' was detected in leaves using real-time polymerase chain reaction (PCR) targeting the 16S ribosomal gene and in roots using the rpIJ/rpIL ribosomal protein genes and was confirmed with conventional PCR and sequencing of the rpIJ/rpIL gene in both tissues. Among randomly collected leaves, 'Ca. L. asiaticus' was distributed in a patchy fashion. Detection of 'Ca. L. asiaticus' varied with leaf symptomology with symptomatic leaves showing the highest frequency (74%) followed by their neighboring asymptomatic leaves (30%), while randomly distributed asymptomatic leaves had the lowest frequency (20%). Among symptomatic leaves, we found statistically significant differences in mean number of bacterial cells with respect to both increasing distance of the leaf from the trunk and cardinal direction. The titer of 'Ca. L. asiaticus' cells was significantly greater on the north side of trees than on the south and west sides. Moreover, these directions showed different spatial distributions of 'Ca. L. asiaticus' with higher titers near the trunk on the south and west sides as opposed to further from the trunk on the north side. Similarly, we found spatial variation in 'Ca. L. asiaticus' distribution among root samples. 'Ca. L. asiaticus' was detected more frequently and bacterial abundances were higher among horizontally growing roots just under the soil surface (96%) than among deeper vertically growing roots (78%). Bacterial abundance declined slightly with distance from the trunk. These results point to paths of research that will likely prove useful to combating this devastating disease.

Stable mitotic inheritance of rice minichromosomes in cell suspension cultures.

KEY MESSAGE: Suspension cell cultures of rice minichromosomes were established. The minichromosomes in suspension cultured cells were mitotically stable and had active gene expression, thus have the potential to be used as gene expression vectors to produce valuable bioactive products. The plant artificial chromosome (PAC) is a novel vector for plant genetic engineering to produce genetically modified crops with multiple transgenes, or to produce valuable bioactive products through the expression of multiple genes or biochemical pathways as a bioreactor. PAC is mainly constructed by engineered minichromosomes through telomere-mediated chromosome truncations. We have constructed rice minichromosomes in a previous study. Thus, the understanding of rice minichromosome inheritance under different culture conditions has potential importance for their utility in future studies and applications. In this study, we performed suspension cultures of three rice minichromosome-containing cell lines, 1004-111, 1008-100 and 1004-011. Two cell lines, 1004-111 and 1008-100, showed typical S growth pattern consisting of a lag phase, an active growing exponential phase and a stationary phase, whereas cell line 1004-011 grew very slowly and eventually died. Both 1004-111 and 1008-100 minichromosomes were stably transmitted in cell suspension cultures without any abnormality. Foreign gene expression was verified from 1004-111 and 1008-100 minichromosomes in suspension cultures. The stable mitotic inheritance of minichromosomes and gene expression from them indicated that rice minichromosomes could be maintained and propagated in cell suspension cultures. This study tested key parameters for suspension cultures of rice cell lines with minichromosomes, and proved in concept the potential for industrial use of PAC vectors as bioreactors.

A full Stokes vector ellipsometry measurement system for in situ diagnostics in dynamic experiments.

A fast ellipsometry system with a resolution of only a few nanoseconds that can simultaneously measure all four Stokes parameters was developed for use in dynamic experiments. Due to its fine temporal resolution, the system is useful for a wide variety of dynamic setups, two of which are presented, fast foil heating and shock compression. As a test case the optical properties of nickel were measured in a fast foil heating setup. The complex index of refraction and emissivity at 532 nm and in the range of 1000-1900 K are presented. It was found that the emissivity monotonously increases below and above the melting point while an abrupt increase of about 2% was observed at the phase transition. These results are in accordance with the literature. Shock compression experiments included sample-free surface measurements. Samples of 1020 steel were shocked up to 25 GPa on the Hugoniot curve. The measured optical properties under these conditions showed a significant change; the value of the emissivity was doubled.

High pressure ellipsometry: a novel method for measuring the optical properties and electronic structure of materials in diamond anvil cells.

High pressure ellipsometry (HPE) method was developed for determining the index of refraction of opaque materials in a diamond anvil cell (DAC). A main difficulty in DAC-based HPE, namely, the pressure-induced birefringence developed in the diamond, was overcome enabling the extraction of the ellipsometric parameters of the sample. The method used was based on the fact that an unpolarized light is unaffected by a retarding optical element and thus reduces the number of unknown parameters in the problem. Because of technical difficulties in using unpolarized light, a linear combination of orthogonal polarizations was applied. In the experimental procedure, multiangle measurements of the ellipsometric parameter ψ are collected at each pressure and the data is fitted together with a measurement of the near normal reflectivity, in order to extract the complex index of refraction. As a test case, this procedure was used to measure the high pressure index of refraction of iron up to 30 GPa for light with wavelengths of 532 and 633 nm. From the index of refraction as a function of pressure the diamond-iron interface emissivity for different pressures was derived and from which the phase transition α → ε could be identified and characterized. The emissivity increases with pressure both at the α (0-9 GPa) and the ε phase (21-30 GPa) however decreases at the mixed α - ε (9-21 GPa) range. From the imaginary part of the index of refraction the pressure dependence of the energy skin depth of iron was extracted. It was found that the energy skin depth increases by an order of magnitude at 30 GPa relative to ambient conditions.

Experimental evidence of impact ignition: 100-fold increase of neutron yield by impactor collision.

We performed integrated experiments on impact ignition, in which a portion of a deuterated polystyrene (CD) shell was accelerated to about 600 km/s and was collided with precompressed CD fuel. The kinetic energy of the impactor was efficiently converted into thermal energy generating a temperature of about 1.6 keV. We achieved a two-order-of-magnitude increase in the neutron yield by optimizing the timing of the impact collision, demonstrating the high potential of impact ignition for fusion energy production.

Decreased level of the cell cycle regulator p27 and increased level of its ubiquitin ligase Skp2 in endometrial carcinoma but not in normal secretory or in hyperstimulated endometrium.

p27 is a cyclin-dependent kinase (CDK) inhibitor whose specific late G(1) destruction allows progression of the cell across the G(1)/S boundary. The protein is ubiquitinated by S-phase kinase-interacting protein-2 (Skp2) following its specific phosphorylation, and is subsequently degraded by the 26s proteasome. There is a direct relationship between low level of p27 and rapid proliferation occurring in several benign states and in many malignancies. In the glandular cells of the normal endometrium, the level of p27 is exceedingly low during the proliferative phase, whereas it is markedly increased during the secretory phase. The expression of p27 in endometrial carcinoma is very low but has been found to increase following treatment with progesterone. However, estrogen exposure is considered as a major risk factor in developing endometrial cancer. The implications of the high dose of estrogen and progesterone induced during IVF treatment are still unknown. We have examined the expression of p27 and Skp2 as well as of Ki67 proliferation marker by using endometrial extracts and cells from normal endometrium, from ovarian hyperstimulated patients, and from endometrial carcinoma patients. The expression of p27, Skp2 and Ki67 was found to be similar in both normal secretory endometrium and endometrium from ovarian hyperstimulated patients. In striking contrast, p27 is significantly lower while Skp2 and Ki67 are significantly higher in the endometrial carcinoma and in endometrium from the proliferative phase compared with their normal secretory counterpart tissue.

Expression of HER2 and C-KIT in nasopharyngeal carcinoma: implications for a new therapeutic approach.

We sought to determine the expression and prognostic significance of HER2 and c-KIT proteins in nasopharyngeal carcinoma (NPC). In this retrospective study, immunohistochemical stains for HER2 and c-KIT were performed on formalin-fixed paraffin-embedded sections from 49 patients with NPC who were treated at our hospital from 1971 to 2000. The clinical and immunohistochemical data were correlated, including gender, ethnic origin, age, histological type, EBV status (EBER in situ hybridization), stage, and overall survival. HER2 expression was not found in the tested samples. C-KIT overexpression was found in 33% (16/49) of the patients. Nine of the 16 samples (56%) were strongly positive for c-KIT protein (staining of >50% of the tumor cells). C-KIT expression was associated with younger age. C-KIT was not found in patients with squamous carcinoma or in those with negative EBV status, although these two groups consisted of only five patients each. Although c-KIT-positive cases tended to be associated with slightly better survival, this was not statistically significant. C-KIT protein was expressed in one third of the NPC patients in this study, only in EBV-positive, undifferentiated, or nonkeratinizing carcinoma patients. Further study is needed to check whether c-KIT expression is correlated with c-KIT DNA mutations and to test the possibility of treatment with imatinib mesylate (Gleevec). HER2 protein was negative in the same tested specimens.

Interband and intraband (Drude) contributions to femtosecond laser absorption in aluminum.

Theoretical and experimental investigations of the absorption in metallic aluminum of femtosecond-laser radiation pulses with peak intensity I0 less similar 10(15) W/cm(2) are reported. Energy balance equations are solved for electron and phonon subsystems, together with Helmholtz equation for the laser radiation. Expressions for the relaxation times as functions of electron and phonon temperatures are obtained, with no free parameters. Contrary to the assumption made in published studies, we find that the interband rather than the intraband (Drude) absorption plays the dominant role in the near infrared and throughout the visible region at low and moderate intensities. For 50 fs, 800 nm laser pulses the absorption in interband transitions dominates for intensities up to few times 10(13) W/cm(2). For such pulses, broadening of the parallel-band interband absorption line with the increase in electron and phonon temperatures results, for I0 < or =5 x 10(13) W/cm(2), in the decrease of the absorption coefficient compared to the room-temperature value. In this paper, we present both the first theoretical prediction and the first experimental observation of this phenomenon. Dielectric permittivity gradients within the skin layer also contribute to the decrease in absorption. The mechanisms of the lattice disordering are considered quantitatively, and it is shown that for I0 < 10(14) W/cm(2) melting does not occur in the laser-pulse duration. Experimental results are presented for 800 and 400 nm wavelengths. The agreement between the theory and the experiment is very good.

Splenic littoral cell haemangioendothelioma: a new low-grade variant of malignant littoral cell tumour.

AIMS: Littoral cell angioma is a recently described splenic vascular tumour of splenic sinus lining cells. Almost all cases of splenic littoral cell tumours hitherto described were benign. METHODS AND RESULTS: A splenic littoral cell tumour recurred 8 years after splenectomy, with an abdominal mass and multiple liver metastases, resulting in the patient's death. Histologically, the original splenic tumour showed solid areas with small necrotic foci in addition to large areas of typical littoral cell angioma. The recurrent tumours showed increased solid architecture and slightly increased nuclear atypia. The tumours showed an immunohistochemical profile positive for factor VIII, CD31, CD68, cathepsin D, and CD21 and negative for CD34 and CD8, consistent with the immunophenotype of classic littoral cell angioma. Ki67 index in the recurrent tumours was higher than in the primary tumour. CONCLUSIONS: The mildly atypical, but not frankly malignant, histological features as well as the protracted clinical course support definition of the tumour as 'littoral cell haemangioendothelioma'. Low rate of Ki67 staining and diploid DNA histogram with low S-phase fraction of the tumours are in accordance with a low-grade malignancy. Literature review revealed two other cases of littoral cell tumours with disseminated disease that may be other examples of littoral cell haemangioendothelioma. Littoral cell haemangioendothelioma should be distinguished from the overtly malignant splenic angiosarcomas, of which a few may show splenic lining cell differentiation with some immunohistochemical features of littoral cells. Due to difficulties in predicting biological behaviour based on histological features of splenic littoral cell tumours, a long-term follow-up for these patients, especially for those with atypical histology, is recommended.

Potential formalism for an axial energy cumulation process

A central filament is assumed to be axially positioned inside a collapsing cylindrical thin shell. A cumulation process is induced by generating a high magnetic field between the shell and the filament. Assuming a dissipationless approach, it is shown that this problem is equivalent to two point particles moving in a potential.

Measurement of the energy penetration depth into solid targets irradiated by ultrashort laser pulses

The energy penetration depth of a short (100 fs) Ti-sapphire laser pulse (0.8 &mgr;m) of intensity 3x10(16) W/cm(2), in solid density materials has been measured. High-Z (BaF2) and low-Z (MgF2) solid layers targets were used. The penetration depth was determined from the measurement of the x-ray emission spectra, as a function of the target thickness. The investigation of these spectra showed that in the low-Z case, solid density material to a depth of 50 nm was heated to a peak electron temperature of approximately 150 eV. For the high-Z material, the penetration depth corresponding to this temperature exceeded 100 nm. This is evidence of a larger heat penetration depth in a high-Z material in comparison to a low-Z material. A model based on electron heat conduction is used to estimate the energy penetration depth. It is suggested that the larger heat penetration in high-Z material is due to heating of the material, caused by the radiation flux, generated by the electron heat conduction.

Interference between stretched and original pulses.

An off-axis holographic recording method for fast-moving objects that has a time resolution of several picoseconds and a large depth of field is suggested. Two different but mutually coherent laser pulses, the original pulse (20 ps) and a stretched pulse (60 ps), are interfered. The short pulse determines the resolution, and the stretched pulse increases the field depth. Interference patterns between the short and the expanded pulses, for lambda = 1.064 microm and lambda = 0.532 microm, are demonstrated.