Assessment of Gene Flow from Genetically Modified Anthracnose-Resistant Chili Pepper (Capsicum annuum L.) to a Conventional Crop

We conducted a 2-year field assessment of the gene flow from genetically modified (GM) chili pepper (Capsicum annuum L.), containing the PepEST (pepper esterase) gene, to a non-GM control line “WT512” and two commercial hybrid cultivars, “Manidda” and “Cheongpung Myeongwol (CM).” After seeds were collected from the pollen-recipient non-GM plants, hybrids between them and the GM peppers were screened by a hygromycin assay. PCR with the targeting hpt gene was performed to confirm the presence of transgenes in hygromycin-resistant seedlings. Out of 7,071 “WT512” seeds and 6,854 “Manidda” seeds collected in 2006, eight and 12 hybrids, respectively, were detected. In 2007, 33 hybrids from 3,456 “WT512” seeds and 50 hybrids from 3,457 “CM” seeds were found. The highest frequency of gene flow, 6.19%, was observed in that 2007 trial. These results suggest that a limited isolation distance would be sufficient to prevent gene flow from GM to conventionally bred chili peppers.     

Detection of gene flow from GM to non-GM watermelon in a field trial

Gene flow from genetically modified (GM) crops to conventional non-GM crops is a serious concern for protection of conventional and organic farming. Gene flow from GM watermelon developed for rootstock use, containing cucumber green mottle mosaic virus (CGMMV)-coat protein (CP) gene, to a non-GM isogenic control variety “Clhalteok” and grafted watermelon “Keumcheon” was investigated in a small scale field trial as a pilot study. Hybrids between GM and non-GM watermelons were screened from 1304 “Chalteok” seeds and 856 “Keumcheon” seeds using the duplex PCR method targeting theCGMMV- CP gene as a marker. Hybrids were found in all pollen recipient plots. The gene flow frequencies were greater for “Chaiteok” than for “KeumcheonD; with 75% outcrossing in the “Chaiteok” plot at the closest distance (0.8 m) to the GM plot. A much larger scale field trial is necessary to identify the isolation distance between GM and non-GM watermelon, as the behaviors of insect pollinators needs to be clarified in Korea.     

Allometric Effects of <Emphasis Type="Italic">Agriophyllum squarrosum</Emphasis> in Response to Soil Nutrients,Water, and Population Density in the Horqin Sandy Land of China

We monitored the allometric effects for greenhouse-grown Agriophyllum squarrosum plants in response to variations in population density and the availability of soil nutrients and water. Biomass allocations were size-dependent. The plasticity of roots, stems, leaves, and reproductive effort was “true” in response to changes in nutrient content. At a low level of soil minerals, plants allocated more resources to the development of roots and reproductive organs than to leaves, but data for stem allocations were consistent for tradeoffs between the effects of nutrients and plant size. The plasticities of leaf allocation and reproductive effort were “true” whereas those of root and stem allocations were “apparent” in response to fluctuations in soil water, being a function of plant size. Decreasing soil water content was associated with higher leaf allocation and lower reproductive effort. Except for this “apparent” plasticity of leaf allocation, none was detected with population density on biomass allocation. Architectural traits were determinants of the latter. For roots, the determining trait was the ratio of plant height to total biomass; for stems and reproduction, plant height; and for leaves, the ratio of branch numbers to plant height.     

An ESS for the Height of a Plant Population, or an Optimal Height for an Individual?—Rethinking Game-Theoretic Models for Plant Height

Plants only interact with neighbors over restricted distances, so local conditions are of great significance for plants. It is therefore important to consider spatial structure and neighborhood effects if we are to understand plants' strategies. We constructed a spatially-explicit, game theory model to explore optimal height growth at the individual-level. In the model, there is no ESS for height growth at the population level, because there is an “instantaneous” optimal height growth strategy for the individual plant that changes depending on the local light environment. The optimal strategy is plasticity in response to local conditions. Game-theoretic models for plant phenotypic traits should move from “mean-field approximations” towards explicit modeling of local interactions.     

Indian rice “Kasalath” contains genes that improve traits of Japanese premium rice “Koshihikari”

Rice (Oryza sativa L.) chromosome segment substitution lines (CSSLs), in which chromosomal segments of the Indian landrace “Kasalath” replace the corresponding endogenous segments in the genome of the Japanese premium rice “Koshihikari”, are available and together cover the entire genome. Chromosome regions affecting a trait (CRATs) can be identified by comparison of phenotypes with genotypes of CSSLs. We detected 99 CRATs for 15 agronomic or morphological traits. “Kasalath” had positively acting alleles in 53 CRATs. Its CRATs increased panicle number per plant by up to 23.3%, grain number per panicle by up to 30.8%, and total grain number by up to 15.1%, relative to “Koshihikari”. CRATs were identified for grain size (grain thickness and width), with positive effects of about 5.0%. A CRAT on chromosome 8 almost doubled the weight of roots in uppermost soil layers compared to “Koshihikari”. Additionally, “Kasalath” possessed CRATs for higher lodging resistance (reduction in plant height and increase in stem diameter). In some cases, multiple CRATs were detected in the same chromosome regions. Therefore, CSSLs with these chromosome segments might be useful breeding materials for the simultaneous improvement of multiple traits. Five CRATs, one for plant height on chromosome 1, one for stem diameter on chromosome 8, and three for heading date on chromosomes 6, 7, and 8 overlapped with the corresponding QTLs that already had been mapped with back-crossed inbred lines of “Nipponbare” and “Kasalath”. In both “Koshihikari” CRATs and “Nipponbare” QTLs, “Kasalath” had similar effects. Both Y. Madoka and T. Kashiwagi have contributed equally to this article.     

Study of tree architecture of apple (<Emphasis Type="Italic">Malus</Emphasis> × <Emphasis Type="Italic">domestica</Emphasis> Borkh.) by QTL analysis of growth traits

Apple tree architecture is naturally very diverse, but for fruit production, certain tree habits are more desirable than others. Here we describe the results of a QTL analysis performed to study the genetic control of growth traits in apple. This was carried out on the progeny of a cross between two apple cultivars of contrasting tree architectures. “Telamon” has a columnar tree form and “Braeburn” has a more standard, “normal” growth habit. The growth traits were measured on the F ₁ seedlings of the Telamon × Braeburn population for two consecutive years of growth on own roots and for the first year of growth on M9 rootstock. QTL analysis was carried out using either the Kruskal–Wallis method or the Multiple QTL Method. For all but one growth characteristic, significant QTLs were detected. A major cluster of QTLs was located in the Co gene region of “Telamon”, confirming the major influence of the Co gene on tree architecture, although this influence changed as the plant material aged and was generally more pronounced for rootstock-grown plants. Additional QTL results suggest the occurrence of genes with pleiotropic effects on tree architecture. The observed QTL instability over different years and for different root systems indicates that the genetic control of tree architecture is largely influenced by environmental factors and probably changes as the tree matures. Finally, a major influence of the root system on all the traits determining tree architecture was clearly demonstrated.     

Dynamic role of “illite-like” clay minerals in temperate soils: facts and hypotheses

Analysis of new data and reinterpretation of published information for clay minerals found in temperate climate soil profiles indicates that there is often a gradient of “illite-like” clay minerals with depth. We used the term “illite-like” because these observations are based on X-Ray Diffractogram patterns and not on layer charge measurements which allow to define properly illite. It appears that “illite-like” layers are concentrated in the upper, organic - rich portion of the soil profile both under grassland and forest vegetation. “Illite-like” layer quantity seems directly related to soil potassium status. Indeed, intensive agriculture practises without potassium fertilization reduce “illite-like” content in surface soils, whereas several years of potassic fertilization without plant growth can increase “illite-like” content. The potassic soil clay mineral, illite, is particularly important in that it can be the major source of readily available potassium for plants. Spatial and temporal dynamics of clay minerals should be related to the potassium cycle. We propose that the frequently observed general trend of increasing exchangeable potassium in the top soil can be correlated with an increase in “illite-like” in the clays and that the decrease of potassium caused by intensive agricultural practices leads to “illite-like” layer destabilization. This vision of “illite-like” layer as a potassium reservoir refueled by plants and emptied by intensive cropping renews the concept of potassium availability and indicates a need to be discussed as well in natural ecosystems as in cultivated ecosystems.     

Genetic diversity and relationship of clonal tea (<Emphasis Type="Italic">Camellia sinensis</Emphasis>) cultivars in China as revealed by SSR markers

Tea plant [Camellia sinensis (L.) O.Kuntze)] is one of the most popular non-alcoholic beverage crops in the world today. In recent years, many clonal tea cultivars have been developed and widely planted to replace the diverse traditional tea populations. In this article, we study the relationships between classifications based on simple sequence repeat (SSR) markers and on morphological traits for 185 tea plant cultivars. Results show that the genetic diversity index (H) is between 0.229 and 0.803, and the mean value is 0.543; the observed heterozygosity (H _o) ranges from 0.103 to 0.683, with an average of 0.340, while the genetic identity varies from 0.267 to 0.984. Based on tea-making properties, the genetic diversity in the “black-green tea” group is much higher than in the “Oolong tea” group. Based on morphological traits, cluster analysis classifies the 185 cultivars into three groups, “group I,” “group II” and “group III.” Most cultivars are related based on the geographical origin and their genetic backgrounds.     

T-DNA structure in transgenic tobacco plants with multiple independent integration sites

Summary Transgenic tobacco plants were produced by inoculation of leaf disks withAgrobacterium tumefaciens harboring a disarmed binary vector containing soybean leghemoglobin Lbc3 and glycinin G2 genes. Physical and genetic characterization of these plants indicated that one to six copies of DNA from the vector were transferred and maintained in the plant genome. Approximately 30% of the copies transferred were found to be incomplete or rearranged and in some cases joined as inverted repeats. The transferred DNA was found at multiple genetic loci in five of the six cases examined. In one plant, kanamycin-resistance traits were at four independent chromosomal positions, although two were genetically linked at about 3 centimorgans. Thus,Agrobacterium-mediated DNA transfer to plants has some characteristics in common with “natural” systems in animals, such as retroviral or P-element derived systems, some characteristics in common with “artificial” systems, such as microinjection, electroporation, or calcium phosphate coprecipitation techniques, and some novel characteristics.     

Process Control as Ecosystem Management: Using the History of Sewage Treatment Plants to Analyze Ecosystem Management Practices

Industrial ecosystems are fruitful sites for examining ecosystem management. Sewage treatment plants, breweries, biotechnology reactors, and ethanol production plants are all ecosystems—complex biophysical systems in which communities of bacteria, yeast, fungi, and other organisms are maintained to extract services or resources. The industrial analog to ecosystem management is “process control”, where the industrial operator is the ecosystem manager. Process control is the management of a production process through the careful measurement and adjustment of its physical and chemical conditions. By analyzing the history of process control in activated sludge sewage treatment plants, I show the importance of craft knowledge in ecosystem management. Sewage treatment plant workers, through their experience in operating the plants, developed means of evaluating process conditions based on sight and smell rather than laboratory analysis. These craft techniques developed and persisted in spite of concerted efforts on the part of sanitary scientists to institute “scientific” control of the process based on laboratory analysis and models of microbial kinetics, suggesting that craft knowledge of ecosystem function can contribute to successful management. The craft knowledge of sewage plant workers is a kind of adaptive management, in which workers constantly adjust ecosystem parameters and observe the results. This approach is contrasted to “command and control” approaches to treatment plant automation, which have met with uneven success.     

Defense syndromes against herbivory in a cerrado plant community

Plants have traits against herbivory that may occur together and increase defense efficiency. We tested whether there are defense syndromes in a cerrado community and, if so, whether there is a phylogenetic signal in them. We measured nine defense traits from a woodland cerrado community in southeastern Brazil. We tested the correlation between all pairs of traits and grouped the species into defense syndromes according to their traits. Most pairwise correlations of traits were complementary. Plants with lower specific leaf area also presented tougher leaves, with low nitrogen, more trichomes, and tannins. We found five syndromes: two with low defenses and high nutritional quality, two with high defenses and low nutritional quality, and one with traits compensating each other. There were two predominant strategies against herbivory in cerrado: “tolerance” and “low nutritional quality” syndromes. Phylogeny did not determine the suite of traits species presented. We argue that herbivory exerts significant selection pressure on these plant defense traits.     

The roles of body size and phylogeny in fast and slow life histories

Species’ life histories are often classified on a continuum from “fast” to “slow”, yet there is no consistently used definition of this continuum. For example, some researchers include body mass as one of the traits defining the continuum, others factor it out by analysing body-mass residuals, a third group performs both of these analyses and uses the terms “fast” and “slow” in both ways, while still others do not mention body mass at all. Our analysis of European and North American freshwater fish, mammals, and birds (N = 2,288 species) shows the fundamental differences between life-history patterns of raw data and of body-mass residuals. Specifically, in fish and mammals, the number of traits defining the continuum decreases if body-mass residuals are analysed. In birds, the continuum is defined by a different set of traits if body mass is factored out. Our study also exposes important dissimilarities among the three taxonomic groups analysed. For example, while mammals and birds with a “slow” life history have a low fecundity, the opposite is true for fish. We conclude that our understanding of life histories will improve if differences between patterns of raw data and of body-mass residuals are acknowledged, as well as differences among taxonomic groups, instead of using the “fast–slow continuum” too indiscriminately for any covarying traits that appear to suit the idea.     

Hairy root type plant in vitro systems as sources of bioactive substances

“Hairy root” systems, obtained by transforming plant tissues with the “natural genetic engineer” Agrobacterium rhizogenes, have been known for more than three decades. To date, hairy root cultures have been obtained from more than 100 plant species, including several endangered medicinal plants, affording opportunities to produce important phytochemicals and proteins in eco-friendly conditions. Diverse strategies can be applied to improve the yields of desired metabolites and to produce recombinant proteins. Furthermore, recent advances in bioreactor design and construction allow hairy root-based technologies to be scaled up while maintaining their biosynthetic potential. This review highlights recent progress in the field and outlines future prospects for exploiting the potential utility of hairy root cultures as “chemical factories” for producing bioactive substances.     

Weevils and camellias in a Darwin’s race: model system for the study of eco-evolutionary interactions between species

Organisms are surrounded by their predators, parasites, hosts, and mutualists, being involved in reciprocal adaptation processes with such “biotic environment”. The concept of “coevolution”, therefore, provides a basis for the comprehensive understanding of evolutionary and ecological dynamics in biological communities and ecosystems. Recent studies have shown that coevolutionary processes are spatially heterogeneous and that traits mediating interspecific interactions can evolve rapidly in natural communities. Here, I discuss factors promoting the geographic differentiation of coevolutionary interactions, the spatial scales of the geographic structuring, and the pace of coevolutionary changes, reviewing findings in the arms race coevolution involving a long-mouthed weevil and its host camellia plant. Evolutionary, ecological, and population genetic studies on the system illuminated that viewpoints from the aspect of “coevolving biosphere” were important for predicting how ongoing anthropogenic change in global environment alter the spatiotemporal dynamics of biological communities.     

Dynamics of IAA and cytokinins in flower tissues of transgenic tobacco mutant plants with mutant phenotype

A comparative analysis of IAA and total cytokinin contents at various developmental stages of floral morphogenesis (I–XII) in transgenic tobacco (Nicotiana tabacum L.) plants with mutant phenotypes was performed. Disturbances in flower structure were correlated with changes in the content and dynamics of these phytohormones. In plants with the phenotype “wavy corolla”, IAA content increased by three times as compared with control at stage VIII; in plants with the phenotype “longostyly”, IAA content increased gradually from VIII to XII stage and sharply (by nine times) at stage XII. In plants with the phenotype “wavy corolla”, total content of cytokinins was lower than in control at all developmental stages (except for stage I), whereas their dynamics coincided with that in control flowers. In plants with the phenotype “longostyly”, cytokinin content was twice lower than in control at early developmental stages, whereas it oscillated at later stages, approaching to control value at stage XII. It is supposed that differences observed could result from T-DNA insertion into plant own genes, which led to changes in the content and dynamics of phytohormones in developing flowers and production of anomalies in the flower structure.     

Spent medium analysis for liquid culture micropropagation of <Emphasis Type="Italic">Hemerocallis</Emphasis> on Murashige and Skoog medium

Residual nutrients from Murashige and Skoog medium were analyzed following a 5-wk multifactor experiment. Plant density, sugar concentration, and plant growth regulators (benzyladenine and ancymidol) were examined using four genotypes of daylily (Hemerocallis) to determine which factors most influenced nutrient use. Active nutrient uptake was observed for 11 nutrients (potassium, sodium, copper, phosphorus, iron, calcium, magnesium, manganese, boron, sulfur, and zinc) with lower concentrations in spent medium than in the tissue water volume (fresh-dry mass expressed as mL H₂O). Two patterns of nutrient use were visualized by correlative analysis of nutrient uptake. Greatest growth lowered plant nutrient concentrations of potassium, sodium, phosphorus, iron, and copper in all genotypes, and luxuriant uptake was indicated with least growth. Potassium, sodium, iron, and copper concentrations in plant dry matter were equal to or exceeded what is observed in vigorously growing nursery plants. However, phosphorus concentration in plant dry matter was low enough to be considered deficient when compared to Hemerocallis plants in nursery production. With a second group of nutrients (calcium, magnesium, manganese, and boron), the genotype, “Barbara Mitchell” lacked active uptake and was deficient. Calcium concentration was low in all plants compared to Hemerocallis grown under nursery conditions (“Barbara Mitchell” was the lowest concentration) despite active uptake by the other three genotypes—“Brocaded Gown,” “Mary’s Gold,” and “Heart of a Missionary.” Magnesium concentration in these three genotypes was low enough in vessels with greatest growth to question its adequacy at high densities. Increased sucrose in medium reduced the dry matter concentrations of all tested nutrients. Plant growth regulators had less impact on nutrient use than genotype and plant density. Nutrient uptake may be an important physiological component of genotypic variation.     

Advanced backcross-QTL analysis in spring barley (H. vulgare ssp. spontaneum) comparing a REML versus a Bayesian model in multi-environmental field trials

A common difficulty in mapping quantitative trait loci (QTLs) is that QTL effects may show environment specificity and thus differ across environments. Furthermore, quantitative traits are likely to be influenced by multiple QTLs or genes having different effect sizes. There is currently a need for efficient mapping strategies to account for both multiple QTLs and marker-by-environment interactions. Thus, the objective of our study was to develop a Bayesian multi-locus multi-environmental method of QTL analysis. This strategy is compared to (1) Bayesian multi-locus mapping, where each environment is analysed separately, (2) Restricted Maximum Likelihood (REML) single-locus method using a mixed hierarchical model, and (3) REML forward selection applying a mixed hierarchical model. For this study, we used data on multi-environmental field trials of 301 BC₂DH lines derived from a cross between the spring barley elite cultivar Scarlett and the wild donor ISR42-8 from Israel. The lines were genotyped by 98 SSR markers and measured for the agronomic traits “ears per m2,” “days until heading,” “plant height,” “thousand grain weight,” and “grain yield”. Additionally, a simulation study was performed to verify the QTL results obtained in the spring barley population. In general, the results of Bayesian QTL mapping are in accordance with REML methods. In this study, Bayesian multi-locus multi-environmental analysis is a valuable method that is particularly suitable if lines are cultivated in multi-environmental field trials. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

In vitro separation of a rose chimera

“Fairmount 1 thorny” (“FM1 thorny”) (a Rosa multiflora Thunb ex. J. Murr.) and a thornless sport of “FM1 thorny” (“Fairmount 1” (“FM1”)) were established in vitro to investigate chimeral segregation under various levels of BA and to obtain a pure thornless rose. While the chimeral thornless sport was expected to segregate in vitro and yield both thorny and thornless plantlets, “FM1 thorny” was to yield only thorny plants. “FM1” segregated in vitro into its constituent genotypes and yielded thorny and thornless plantlets, suggesting that “FM1” is chimeral. “FM1 thorny” produced only thorny plants in vitro. These results indicate that the “FM1 thorny” clone was not chimeral (pure thorny) and that the thornless regenerates of “FM1” did not develop via somaclonal variation. There was a significant linear relationship between increasing BA concentration and the percentage of thorny plants. Among a population of 690 tissue culture derived plants from all the BA experiments, 6 plants were classified as pure thornless plants 1 year later.     

Identification of Barley Varieties Tolerant to Cadmium Toxicity

Two successive hydroponic experiments were carried out to identify barley varieties tolerant to Cd toxicity via examining Soil–Plant Analyses Development (SPAD) value, plant height, leaves and tillers per plant, root number and volume, and biomass accumulation. The results showed that SPAD values (chlorophyll meter readings), plant height, leaf number, root number and volume, and biomass accumulation of shoot/root were significantly reduced in the plants grown in 20 μM Cd nutrient solution compared with control, and the uptake and translocation of Zn, Mn, and Cu was also strictly hindered. Furthermore, there was a highly significant difference in the reduction in these growth parameters among varieties, and varieties “Weisuobuzhi” and “Jipi 1” showed the least reduction both in the two experiments, suggesting their high tolerance to Cd toxicity, while “Dong 17” and “Suyinmai 2” with the greatest reduction and the toxicity symptoms appeared rapidly and severely, denoting as Cd-sensitive varieties. Significant variety difference in Cd concentration was also found, with Weisuobuzhi containing the highest and Jipi 1 the lowest Cd concentration in shoots.     

Cyanobacterial cell division: Genetics and comparative genomics of cyanobacterial cell division

Division of cyanobacteria serves as a model for studying division of plant chloroplasts. Analysis of mutants obtained by methods of “forward” and “reverse” genetics underlies effective strategy for studying genetics of cell division in these photoautotrophic prokaryotes. Comparative genomic analysis indicates that some cyanobacterial genes involved in the control of cell division have homologs among cyanobacteria, green algae, and higher plants, some others, only in bacteria, whereas the remaining genes are specific only for cyanobacteria.