GaAs Nanowire pn-Junctions Produced by Low-Cost and High-Throughput Aerotaxy.

Semiconductor nanowires could significantly boost the functionality and performance of future electronics, light-emitting diodes, and solar cells. However, realizing this potential requires growth methods that enable high-throughput and low-cost production of nanowires with controlled doping. Aerotaxy is an aerosol-based method with extremely high growth rate that does not require a growth substrate, allowing mass-production of high-quality nanowires at a low cost. So far, pn-junctions, a crucial element of solar cells and light-emitting diodes, have not been realized by Aerotaxy growth. Here we report a further development of the Aerotaxy method and demonstrate the growth of GaAs nanowire pn-junctions. Our Aerotaxy system uses an aerosol generator for producing the catalytic seed particles, together with a growth reactor with multiple consecutive chambers for growth of material with different dopants. We show that the produced nanowire pn-junctions have excellent diode characteristics with a rectification ratio of >105, an ideality factor around 2, and very promising photoresponse. Using electron beam induced current and hyperspectral cathodoluminescence, we determined the location of the pn-junction and show that the grown nanowires have high doping levels, as well as electrical properties and diffusion lengths comparable to nanowires grown using metal organic vapor phase epitaxy. Our findings demonstrate that high-quality GaAs nanowire pn-junctions can be produced using a low-cost technique suitable for mass-production, paving the way for industrial-scale production of nanowire-based solar cells.

Doping evaluation of InP nanowires for tandem junction solar cells.

In order to push the development of nanowire-based solar cells further using optimized nanowire diameter and pitch, a doping evaluation of the nanowire geometry is necessary. We report on a doping evaluation of n-type InP nanowires with diameters optimized for light absorption, grown by the use of metal-organic vapor phase epitaxy in particle-assisted growth mode using tetraethyltin (TESn) as the dopant precursor. The charge carrier concentration was evaluated using four-probe resistivity measurements and spatially resolved Hall measurements. In order to reach the highest possible nanowire doping level, we set the TESn molar fraction at a high constant value throughout growth and varied the trimethylindium (TMIn) molar fraction for different runs. Analysis shows that the charge carrier concentration in nanowires grown with the highest TMIn molar fraction (not leading to kinking nanowires) results in a low carrier concentration of approximately 10(16) cm(-3). By decreasing the molar fraction of TMIn, effectively increasing the IV/III ratio, the carrier concentration increases up to a level of about 10(19) cm(-3), where it seems to saturate. Axial carrier concentration gradients along the nanowires are found, which can be correlated to a combination of changes in the nanowire growth rate, measured in situ by optical reflectometry, and polytypism of the nanowires observed in transmission electron microscopy.

Primary clear cell renal carcinoma cells display minimal mitochondrial respiratory capacity resulting in pronounced sensitivity to glycolytic inhibition by 3-Bromopyruvate.

Changes of cellular metabolism are an integral property of the malignant potential of most cancer cells. Already in the 1930s, Otto Warburg observed that tumor cells preferably utilize glycolysis and lactate fermentation for energy production, rather than the mitochondrial oxidative phosphorylation dominating in normal cells, a phenomenon today known as the Warburg effect. Even though many tumor types display a high degree of aerobic glycolysis, they still retain the activity of other energy-producing metabolic pathways. One exception seems to be the clear cell variant of renal cell carcinoma, ccRCC, where the activity of most other pathways than that of glycolysis has been shown to be reduced. This makes ccRCC a promising candidate for the use of glycolytic inhibitors in treatment of the disease. However, few studies have so far addressed this issue. In this report, we show a strikingly reduced mitochondrial respiratory capacity of primary human ccRCC cells, resulting in enhanced sensitivity to glycolytic inhibition by 3-Bromopyruvate (3BrPA). This effect was largely absent in established ccRCC cell lines, a finding that highlights the importance of using biologically relevant models in the search for new candidate cancer therapies. 3BrPA markedly reduced ATP production in primary ccRCC cells, followed by cell death. Our data suggest that glycolytic inhibitors such as 3BrPA, that has been shown to be well tolerated in vivo, should be further analyzed for the possible development of selective treatment strategies for patients with ccRCC.

Effects of male fecundity, interindividual distance and anisotropic pollen dispersal on mating success in a Scots pine (Pinus sylvestris) seed orchard.

Quantifying the effect of pollen dispersal and flowering traits on mating success is essential for understanding evolutionary responses to changing environments and establishing strategies for forest tree breeding. This study examined, quantitatively, the effects of male fecundity, interindividual distance and anisotropic pollen dispersal on the mating success of Scots pine (Pinus sylvestris), utilizing a well-mapped Scots pine seed orchard. Paternity analysis of 1021 seeds sampled from 87 trees representing 28 clones showed that 53% of the seeds had at least one potential pollen parent within the orchard. Pronounced variation in paternal contribution was observed among clones. Variations in pollen production explained up to 78% of the variation in mating success, which was 11.2 times greater for clones producing the largest amount of pollen than for clones producing the least pollen. Mating success also varied with intertree distance and direction, which explained up to 28% of the variance. Fertilization between neighboring trees 2.3 m apart was 2.4 times more frequent than between trees 4.6 m apart, and up to 12.4 times higher for trees downwind of the presumed prevailing wind direction than for upwind trees. The effective number of pollen donors recorded in the seed orchard (12.2) was smaller than the theoretical expectation (19.7). Based on the empirical observations, a mating model that best describes the gene dispersal pattern in clonal seed orchards was constructed.

Relapsed childhood high hyperdiploid acute lymphoblastic leukemia: presence of preleukemic ancestral clones and the secondary nature of microdeletions and RTK-RAS mutations.

Although childhood high hyperdiploid acute lymphoblastic leukemia is associated with a favorable outcome, 20% of patients still relapse. It is important to identify these patients already at diagnosis to ensure proper risk stratification. We have investigated 11 paired diagnostic and relapse samples with single nucleotide polymorphism array and mutation analyses of FLT3, KRAS, NRAS and PTPN11 in order to identify changes associated with relapse and to ascertain the genetic evolution patterns. Structural changes, mainly cryptic hemizygous deletions, were significantly more common at relapse (P<0.05). No single aberration was linked to relapse, but four deletions, involving IKZF1, PAX5, CDKN2A/B or AK3, were recurrent. On the basis of the genetic relationship between the paired samples, three groups were delineated: (1) identical genetic changes at diagnosis and relapse (2 of 11 cases), (2) clonal evolution with all changes at diagnosis being present at relapse (2 of 11) and (3) clonal evolution with some changes conserved, lost or gained (7 of 11), suggesting the presence of a preleukemic clone. This ancestral clone was characterized by numerical changes only, with structural changes and RTK-RAS mutations being secondary to the high hyperdiploid pattern.

The optimal size of dynamic phosphorus models for coastal areas.

One method to assess environmental effects from industrial emissions to coastal and inland waters, e.g. from pulp and paper industries, is to quantify these emissions with mass balance models. In this study six different mass balance models for phosphorus with varying degrees of complexity have been tested in 11 Swedish coastal areas. The majority of these areas are recipients of pulp and paper industries. The accuracy of model predictions of phosphorus and chlorophyll is evaluated and compared between models. The results imply that for the included water bodies, models containing state variables for phosphorus in surface water and deep water are superior to models treating the water column as a completely mixed entity. The results do not justify the separation of phosphorus into dissolved and particulate fractions, but for chlorophyll predictions the results were significantly improved when phytoplankton was included as a state variable. Unless detailed descriptions or predictions of chlorophyll dynamics are required, modelling eutrophication in coastal areas may be considered as a matter of total phosphorus in two water compartments plus sediments.

Microarray-based classification of a consecutive series of 121 childhood acute leukemias: prediction of leukemic and genetic subtype as well as of minimal residual disease status.

Gene expression analyses were performed on 121 consecutive childhood leukemias (87 B-lineage acute lymphoblastic leukemias (ALLs), 11 T-cell ALLs and 23 acute myeloid leukemias (AMLs)), investigated during an 8-year period at a single center. The supervised learning algorithm k-nearest neighbor was utilized to build gene expression predictors that could classify the ALLs/AMLs according to clinically important subtypes with high accuracy. Validation experiments in an independent data set verified the high prediction accuracies of our classifiers. B-lineage ALLs with uncharacteristic cytogenetic aberrations or with a normal karyotype displayed heterogeneous gene expression profiles, resulting in low prediction accuracies. Minimal residual disease status (MRD) in T-cell ALLs with a high (>0.1%) MRD at day 29 could be classified with 100% accuracy already at the time of diagnosis. In pediatric leukemias with uncharacteristic cytogenetic aberrations or with a normal karyotype, unsupervised analysis identified two novel subgroups: one consisting mainly of cases remaining in complete remission (CR) and one containing a few patients in CR and all but one of the patients who relapsed. This study of a consecutive series of childhood leukemias confirms and extends further previous reports demonstrating that global gene expression profiling provides a valuable tool for genetic and clinical classification of childhood leukemias.

Molecular characterization of early-stage bladder carcinomas by expression profiles, FGFR3 mutation status, and loss of 9q.

We used gene expression profiling, mutation analyses of FGFR3 and TP53, and LOH analyses of chromosome 9 and the TP53 region on chromosome arm 17p, to molecularly characterize 75 Ta and T1 bladder carcinomas. We identified four major cellular processes related to cell cycle, protein synthesis, immune response, and extra cellular components that contribute to the expressional heterogeneity of early-stage urothelial cell carcinoma (UCC). Activating FGFR3 mutations were found at the highest frequency in G1 tumors (80%), and showed a strong correlation with FGFR3 expression. In contrast, G3 tumors displayed mutations in less than 10% of the cases and a low level of FGFR3 expression. Even though LOH on chromosome 9 was not associated with any specific expression pattern, our data indicate that loss of chromosome 9 is associated with tumor development rather than initiation. The combined analyses suggest the existence of two types of UCC tumors, one which is characterized by FGFR3 mutation or expression, high expression of protein synthesis genes, and low expression of cell cycle genes. Furthermore, the presented data underscore FGFR3 receptor involvement in urothelial cell transformation as the presence of FGFR3 mutations has a major impact on the global gene expression profile of bladder carcinomas.

Gene expression profiling of leukemic cell lines reveals conserved molecular signatures among subtypes with specific genetic aberrations.

Hematologic malignancies are characterized by fusion genes of biological/clinical importance. Immortalized cell lines with such aberrations are today widely used to model different aspects of leukemogenesis. Using cDNA microarrays, we determined the gene expression profiles of 40 cell lines as well as of primary leukemias harboring 11q23/MLL rearrangements, t(1;19)[TCF3/PBX1], t(12;21)[ETV6/RUNX1], t(8;21)[RUNX1/CBFA2T1], t(8;14)[IGH@/MYC], t(8;14)[TRA@/MYC], t(9;22)[BCR/ABL1], t(10;11)[PICALM/MLLT10], t(15;17)[PML/RARA], or inv(16)[CBFB/MYH11]. Unsupervised classification revealed that hematopoietic cell lines of diverse origin, but with the same primary genetic changes, segregated together, suggesting that pathogenetically important regulatory networks remain conserved despite numerous passages. Moreover, primary leukemias cosegregated with cell lines carrying identical genetic rearrangements, further supporting that critical regulatory pathways remain intact in hematopoietic cell lines. Transcriptional signatures correlating with clinical subtypes/primary genetic changes were identified and annotated based on their biological/molecular properties and chromosomal localization. Furthermore, the expression profile of tyrosine kinase-encoding genes was investigated, identifying several differentially expressed members, segregating with primary genetic changes, which may be targeted with tyrosine kinase inhibitors. The identified conserved signatures are likely to reflect regulatory networks of importance for the transforming abilities of the primary genetic changes and offer important pathogenetic insights as well as a number of targets for future rational drug design.

Open-nucleus breeding strategies compared with population-wide positive assortative mating: II. Unequal distribution of testing effort.

This study compares population-wide positive assortative mating (PAM) with open-nucleus breeding with an elite and main population when more effort is allocated to parents of the elite. A companion study showed that PAM is advantageous when testing effort is independent of parental value. In the present study,unbalanced testing was imposed by varying the number of crosses or the number of genotypes per cross. These unbalanced alternatives are compared with PAM, where the testing effort was varied so that better parents were mated more frequently. More effort allocated to parents of higher rank increased the additive effect and the additive variance and only slightly altered the group coancestry and inbreeding in the breeding population (BP) compared with completely balanced scenarios. Of particular interest to the breeder, large enhancement of the additive variance in the BP contributed to higher gains in the production population (PP). These simulations demonstrate that population-wide PAM leads to higher genetic gains compared with open-nucleus alternatives at any desired target level of diversity in the PP. This is true for both balanced (part I)and unbalanced distribution of testing effort (part II).

Open-nucleus breeding strategies compared with population-wide positive assortative mating: I. Equal distribution of testing efforts.

Positive assortative mating (PAM) can enhance the additive genetic variance in a breeding population(BP). This increases the potential for gains in the production population (PP, selected subset of the BP) for recurrent selection programs in forest trees. The assortment of mates can be either: (1) by individual tree rank across the whole BP (PAM), or (2) trees of similar rank can be merged into larger hierarchical groups and then mated randomly within group ("open"-nucleus breeding,NB). The objective of this study was to compare PAM and NB in quantitative terms. The NB simulation model assumed two tiers (nucleus, main) with unrestricted migration between the tiers. Clonal tests were used to predict breeding values and test resources per mate were kept constant for all mates. Both gain and diversity were combined into a single selection criterion, "group-merit selection." Alternatives were compared over five breeding cycles by considering genetic gain and diversity in a selected PP established in a seed orchard. The assortment of mates in both alternatives enhanced additive variance and increased the additive effect in the BP, leading to additional gain in the PP. Gains generated under PAM always exceeded gains under NB. Thus, the main message from this study is that PAM in both the short- and long-term results in more gain at any target level of diversity in the PP (the breeder's target) than is achieved by the NB alternative. The optimum size of the nucleus varies with the desired level of seed orchard diversity. At lower target diversity, smaller nucleus sizes are favorable, while larger sizes result in more gain when seed orchard diversity is considered more important.

Expected gain and status number following restricted individual and combined-index selection.

Imposition of restrictions on number of individuals selected from a family and number of families from which superior individuals are selected could markedly alter the consequences of individual and combined-index selection. Predicted genetic gain and diversity measured as status number following selection were studied to draw general conclusions. Selection and its prediction were applied to two sets of real-life data. Theoretical prediction gave results close to those from factual selection. Gain and status number varied with initial family number and size, sib type, heritability, selection proportion, restriction type and intensity, and selection criteria. Proper restriction on the number of individuals selected can control the reduction of status number to an acceptable level, particularly when breeding values are used as the selection criterion. Restriction on the number of families selected would effectively improve the gain efficiency of selection based on phenotypic values. Choosing combinations of both restrictions might produce higher gain without the loss of status number. Given constant population size, family number should be large enough to ensure that restricted selection will yield higher gain and status number.

Effects of maternal environment on mortality and growth in young Pinus sylvestris in field trials.

The same full-sib families of Scots pine (Pinus sylvestris L.) were created by artificial pollination of genetically identical grafts at three localities in Sweden at approximately 56, 59 and 64 degrees N. Two field trials were established with one-year-old plants in different years at latitude 64 degrees N. Height and survival were monitored for 4-5 years following planting. Maternal environment had significant aftereffects on the height of progeny. In both field trials, plants with the maternal parent at 59 degrees N were tallest and plants with the maternal parent at 64 degrees N were shortest. The aftereffects of maternal environment were as large in six-year-old plants as in one-year-old plants. In one field trial, maternal environment had a significant effect on mortality six years after germination but not after three years. Mortality increased with decreasing latitude of the maternal location. We conclude that the aftereffects of maternal environment are too large and too permanent to be regarded as unimportant.

Deployment to plantations of numbers and proportions of clones with special emphasis on maximizing gain at a constant diversity.

The value of a mixture of genetic entries present in different proportions is defined. A measure of the disadvantage of reduced diversity is defined as the sum of the squares of the proportions of the different entries. An algorithm for maximizing genetic gain of the mixture under the constraint of a constant disadvantage is developed. The optimal deployment strategy is one that lets the proportion of the genetic entries be linearly dependent on their genetic value. By use of rankits as entries for genetic values, optimal solutions for deployment were calculated for a range of values of available entries (from 10 to 5,000) and preset diversity-related disadvantage-factors (the preset values correspond to mixtures of between 2 and 100 entries in identical proportions). The values are tabulated so they can be used by breeders. The superiority of the proposed strategy increases with the proportion of the available entries which are selected. In the situation that around half would have been selected if truncation selection was applied, the improvement in genetic gain compared to classical truncation selection is up to 18%. Thus, considerable improvements in gain are possible without any sacrifice in diversity. Applications are discussed with particular reference to clonal forestry.

Classifying seedlots of Picea sitchensis and P. glauca in zones of introgression using restriction analysis of chloroplast DNA.

Chloroplast DNA (cpDNA) restriction analysis was used to classify five reforestation seedlots as to species. The material included two Sitka spruce (Picea sitchensis (Bong.) Carr.), one white spruce (P. glauca (Moench) Voss) from interior British Columbia, and two putative hybrid seedlots from the coast-interior introgression zone in British Columbia. The cpDNA patterns generated by Bam-HI and Bc1-I from individual trees of Sitka spruce, white spruce, western white spruce (P. glauca var. albertiana (S. Brown)), and Engelmann spruce (P. engelmanni (Parry)) were species-specific. They were used as reference patterns for comparisons. In addition, two controlled crosses between white and Sitka spruce were analyzed to demonstrate the paternal inheritance of cpDNA in spruces. The cpDNA restriction patterns for the five seedlots were obtained from composite samples of seedlings from each lot and compared to the typical cpDNA patterns of each species. Restriction patterns for the two Sitka spruce seedlots agreed with those from the Sitka spruce tree, while patterns for the white spruce seedlots from British Columbia agreed with those from the white spruce tree, lacking evidence of any Engelmann spruce component in the sample. On the other hand, one putative hybrid seedlot showed cpDNA patterns similar to white spruce while the other showed fragments unique to both Sitka and white spruce, indicating that this was a hybrid seedlot. The analysis of cpDNA restriction polymorphism has proven to be an effective tool for classifying seedlots in regions of introgression. To our knowledge, these results provide the first demonstration of the use of cpDNA analysis for solving practical forestry problems.

Gains from the clonal and the clonal seed-orchard options compared for tree breeding programs.

Gains expected from clonal propagation of selections for plantation from a breeding population were compared with those expected from seed propagation via clonal seed-orchards of selections from the same breeding population. Assumptions were made about numbers of clones selected, size of the breeding population, relative sizes of additive and dominance genetic variance components and time required for various operations. Even when dominance variance is zero, considerable extra gain is obtained by the clonal option over the seed-orchard option; mostly due to the shorter time between selection in the breeding population and field planting. When dominance variance equals additive variance, the advantage of the clonal option due to time saved is approximately equal to the advantage due to genetics (i.e. use of more of the additive variance, use of non-additive variance and greater precision of selection). This means that there is a substantial gain to be made simply by getting superior genotypes into plantations more quickly via the clonal option. The gains obtainable through the use of clonal forestry may also be obtained through seed orchards, but some decades later. In no case was the seed-orchard option superior to the clonal option in terms of the gains obtained. No clonal propagation program can advance without a strong sexually-based breeding program to supply it with improved genotypes. The opportunity for improvement comes from genetic recombination.

Effect of inbreeding on production of filled seed in Pinus radiata - experimental results and a model of gene action.

Pinus radiata D. Don was inbred to different degrees, commencing with a founder population of 8 clones. Yield of filled seed was determined for each mating type. Mean yields (%), relative to outcrossing, were: half-sib 102; full-sib 97; S1 43; S2 42. An epistatic model was developed to predict the empty seed yield following selfing, assuming that homozygosity for several recessive co-lethals is necessary to kill an embryo. Calculations were then extended to predict the yields following different degrees of inbreeding. The proposed model gave a better fit to present results, and to other published results of similar investigations, than did an alternative based on action of independent recessive lethals. Implications for breeding and seed production strategy are discussed.

Use of cisplatin, cyclophosphamide, vincristine, and doxorubicin for the treatment of non-small cell lung cancer.

Forty-four evaluable patients with non-small cell carcinoma of the lung were treated with cisplatin, cyclophosphamide, vincristine, and doxorubicin. The overall response rate was 57%. The 16% who had complete response had a median survival of 81 weeks.