Mapping of the Ogura fertility restorer gene <Emphasis Type="Italic">Rfo</Emphasis> and development of <Emphasis Type="Italic">Rfo</Emphasis> allele-specific markers in canola (<Emphasis Type="Italic">Brassica napus</Emphasis> L.)

Ogura cytoplasmic male sterility (CMS) and its corresponding nuclear fertility restorer gene, Rfo, have been introduced from radish to Brassica species by interspecific crosses. Rfo restores male fertility by altering the translational expression of Orf138, a mitochondrial gene, whose expression results in the male sterile phenotype. This system has been extensively investigated and breeding restorer lines for the Ogura CMS has become a major objective for hybrid seed production in many canola breeding programs. In this study, we have sequenced genomic clones of Rfo amplified from a canola restorer line R2000, licensed from INRA, France, and a Dow AgroSciences non-restorer line Nexera 705 using primers designed from the radish Rfo sequence (GenBank accession AJ550021). Sequence alignment revealed three homologous sequences of Rfo. Two of the sequences were present in both R2000 and Nexera 705 but the third one was present only in R2000. These results suggested that the first two sequences could be the homoeologous sequences of Rfo already existing in the canola genome and the third one could be the radish Rfo introduced into canola. Based on the sequence differences between the restorer and non-restorer lines, Rfo allele-specific PCR markers were developed. We also developed a high throughput, Rfo allele-specific Invader^® assay through Third Wave Technologies. Linkage analysis revealed a co-segregation between the allele-specific marker and the phenotypes for fertility restoration. This allele-specific marker has been mapped in the linkage group N19 and proved to be very useful for direct selection of Rfo alleles for fertility restoration during marker-assisted introgression of the Ogura restorer for hybrid development in canola.     

A Zooarchaeological Test for Dietary Resource Depression at the End of the Classic Period in the Petexbatun,Guatemala

Zooarchaeological analyses of animal remains from the Petexbatun sites in the Guatemalan lowlands provide proxy evidence to test a hypothesis of dietary insufficiency during the Maya “collapse.” Ecological foraging theory and resource depression models are used to interpret animal use patterns before and after the disintegration of the Petexbatun polity at the end of the Late Classic period (around a.d. 800). Environmental failure models of the Maya “collapse” at the end of the Late Classic imply that a dietary insufficiency, and particularly a lack of animal resources, was associated with the political and social transitions of this period. However, the results of this zooarchaeological study do not support this hypothesis and point instead to very limited early reductions of only highest-ranked dietary species. The lack of evidence for specific resource depression associated directly with the period of political collapse does not support a model of environmental failure during political disintegration in the Petexbatun. Correlations are found between animal use patterns and the specifics of site size and periods of peak political activity, suggesting that small-scale resource depressions might have resulted at some sites during early periods of human population growth, site expansion, and increasing political activity.     

Spatial variation of species diversity across scales in an old-growth temperate forest of China

Species richness and abundance are the two most important diversity variables. Species abundance is additive when aggregated across spatial scale, whereas species richness is non-additive. This study analyzes the effect of spatial scale and site on species abundance and richness in a 25-ha temperate forest plot in the Changbai Mountains, northeastern China. The result shows that species abundance and richness are not only dependent on spatial scales, but also dependent on site. Species abundance responds linearly to changes of spatial scale with no intersection in different sites of the study area. However, although species richness also increases with the increase of spatial scale, there are some intersections for the different sites, suggesting that a species-rich site does not always have a high value if the spatial scale is changed. In all, with respect to additive variables, it is relatively easy to extrapolate them from one spatial scale to another spatial scale, as they and the spatial scale usually form a linear relationship. In contrast, non-additive variables are difficult to extrapolate across spatial scales, because they often respond nonlinearly to spatial scale changes. In order to extrapolate these non-additive variables across spatial scales, it is necessary to estimate the relationships between them and spatial scales. As a result, extrapolation of information among spatial scales may be possible, but very difficult, especially for non-additive variables. Because the 25-ha Changbai plot is very small compared to the extent of the world temperate forests, and the vegetation is a relatively uniform type, more such studies in other ecosystems are needed before theories and generalization about scaling effects can be formulated.     

Benthic shear stress gradient defines three mutually exclusive modes of non-biological internal nutrient loading in shallow lakes

Assessment of the importance of internal nutrient loading is essential for managing and restoring eutrophic shallow lakes. To date, studies of internal loads have tended to focus on one of two abiotic processes, either molecular diffusion or sediment/nutrient entrainment (resuspension). This study presents a new approach to determining the non-biological fluxes of nitrogen (N) and phosphorus (P) from the sediment to the water column of shallow lakes. Three mutually exclusive flux processes: (i) molecular diffusion, (ii) turbulent diffusion (eddy diffusivity) and (iii) wind-induced resuspension of N and P, were related to a gradient of benthic shear stress. A model presented here allowed the durations and magnitudes of different non-biological fluxes to be calculated over time, based on benthic shear stress. Two site-specific critical shear stress thresholds determined which of the three flux processes dominated for any benthic shear stress value. The model was calibrated for a shallow lake and the continuous flux of nutrient from the sediment to the overlying water generated by each process during that period was calculated, enabling the estimation of the relative importance of each of the three flux processes over a one-year period. Wind-induced resuspension dominated the internal nutrient flux, operating for 38% of the time and contributing 0.9 T P year⁻¹ and 10.2 T N year⁻¹ to the internal nutrient load. In contrast, molecular diffusion only contributed 0.01–0.02 T P year⁻¹ and 0.12–0.20 T N year⁻¹ to the water column, while turbulent diffusion provided up to 0.6 T P year⁻¹ and 6.2 T N year⁻¹. Our model suggests that turbulent diffusion is a neglected and potentially important process contributing to internal nutrient loading in shallow lakes, whereas molecular diffusion appears to be relatively unimportant in lakes that experience turbulence at the sediment–water interface. Handling editor: L. Naselli-Flores     

Controlling factors of spring–summer phytoplankton succession in Lake Taihu (Meiliang Bay,China)

The spring–summer successions of phytoplankton and crustacean zooplankton were examined weekly in Meiliang Bay of the subtropical Lake Taihu in 2004 and 2005. During the study period, the ecosystem of Meiliang Bay was characterized by (i) clearly declined nitrogen compounds (nitrate, TN, and ammonium) and slowly increased phosphorus compounds (TP and SRP), (ii) increased total phytoplankton density and rapid replacement of chlorophyta (mainly Ulothrix) by cyanobacteria (mainly Microcystis), and (iii) rapid replacement of large-sized crustaceans (Daphnia and Moina) by small-sized ones (Bosmina, Limnoithona, and Ceriodaphnia). Results from the CCA and correlation analysis indicate that the spring-summer phytoplankton succession was primarily controlled by abiotic factors. Cyanobacteria were mainly promoted by increased temperature and decreased concentrations of nitrogen compounds. The pure contribution of crustacean was low for the variation of phytoplankton suggesting a weak top-down control by crustacean zooplankton in the subtropical Lake Taihu. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users. Handling editor: L. Naselli-Flores     

Managing private,commercial rangelands for agricultural production and wildlife diversity in Namibia and Zambia

The private game industry has grown across Africa since the mid-20th century. While considerable research has documented wildlife production on commercial land in many eastern and southern African countries, few studies have focused specifically on the integration of livestock and game production in Namibia and Zambia. This paper reports a survey of 43 commercial conservancy members in Namibia and 23 game farmers in Zambia conducted between September 2004 and June 2005. The survey was based on inductive sampling theory and queried farmers on how they have integrated wildlife production into their management practices. Farmers in each country reported considerable integration of wildlife conservation and agricultural production. Namibian farmers reported substantial problems with bush encroachment, whereas none of their Zambian counterparts raised similar complaints. This paper describes the state of rangeland management on commercial farms in Namibia and Zambia and identifies important areas where further research can contribute to the enhancement of this conservation-production system.     

Synergistic role of c-Myc and ERK1/2 in the mitogenic response to TGFβ-1 in cultured rat nucleus pulposus cells

Introduction  

Although transforming growth factor β1 (TGFβ1) is known to be a potent inhibitor of proliferation in most cell types, it accelerates proliferation in certain mesenchymal cells, such as articular chondrocytes and nucleus pulposus cells. The low ability for self-renewal of nucleus pulposus cells is one obstacle in developing new therapeutic options for intervertebral disc diseases, and utilizing cytokines is one of the strategies to regulate nucleus pulposus cell proliferation. However, the precise cell cycle progression and molecular mechanisms by which TGFβ1 stimulates cell growth remain unclear. The aim of this study was to elucidate a mechanism that enables cell proliferation with TGFβ1 stimulation.     

Preparation of validoxylamine A by biotransformation of validamycin A using resting cells of a recombinant <Emphasis Type="Italic">Escherichia coli</Emphasis>

A gene encoding β-glucosidase was cloned and over-expressed in Escherichia coli. Validamycin A was then biotransformed into validoxylamine A by using the resting recombinant cells. The biotransformation yield reached 92% when the reaction was performed at 37°C for 1 h in the presence of 100 ml sodium phosphate buffer (0.1 M, pH 7.0), 32 mM validamycin A and 0.71 mg dry cell w/ml.     

Thrombin inhibitors with novel P1 binding pocket functionality: free energy of binding analysis

The high incidence of thrombembolic diseases justifies the development of new antithrombotics. The search for a direct inhibitor has resulted in the synthesis of a considerable number of low molecular weight molecules that inhibit human α-thrombin potently. However, efforts to develop an orally active drug remain in progress as the most active inhibitors with a highly basic P1 moiety exhibit an unsatisfactory bioavailability profile. In our previous work we solved several X-ray structures of human α-thrombin in complexes with (1) novel bicyclic arginine mimetics attached to the glycylproline amide and pyridinone acetamide scaffold and (2) inhibitors with a novel aza scaffold and with charged or neutral P1 moieties. In the present contribution, we correlate the structures of the complex between these inhibitors and the protein with the calculated free energy of binding. The energy of solvation was calculated using the Poisson–Boltzmann approach. In particular, the requirements for successful recognition of an inhibitor at the protein’s active site pocket S1 are discussed. Figure We report here on free energy of binding analysis of thrombin inhibitors with novel aza scaffold and novel bicyclic arginine mimetics in S1 pocket of thrombin