Mobilization of a Recombinant IncQ Plasmid between Bacteria on Agar and in Soil via Cotransfer or Retrotransfer

Mobilization of a genetically engineered IncQ plasmid, pSKTG, was studied in vitro and in sterile and nonsterile soils. In biparental and triparental filter matings, the mobilization frequencies of pSKTG were identical, and the plasmid was mobilized only in the presence of self-transmissible plasmid RP4p. In sterile soil, mobilization was probably limited by reduced cell-to-cell contact, since the frequencies of mobilization were approximately 100-fold lower than the frequencies in the filter matings. The transfer frequency of pSKTG in sterile soil when RP4p was present in the same strain was about 100-fold higher than the transfer frequency when RP4p was present in a separate strain. In studies in natural soil, pSKTG was also found to be transferred to indigenous bacteria. However, natural mobilization by genetic elements present in the indigenous soil microflora could not be detected. In vitro studies of natural transfer suggested that such genetic elements occur in soil bacteria.     

A new forest cover map of continental southeast Asia derived from SPOT‐VEGETATION satellite imagery

Question: Can recent satellite imagery of coarse spatial resolution support forest cover assessment and mapping at the regional level? Location: Continental southeast Asia. Methods: Forest cover mapping was based on digital classification of SPOT4‐VEGETATION satellite images of 1 km spatial resolution from the dry seasons 1998/1999 and 1999/2000. Following a geographical stratification, the spectral clusters were visually assigned to land cover classes. The forest classes were validated by an independent set of maps, derived from interpretation of satellite imagery of high spatial resolution (Landsat TM, 30 m). Forest area estimates from the regional forest cover map were compared to the forest figures of the FAO database. Results: The regional forest cover map displays 12 forest and land cover classes. The mapping of the region's deciduous and fragmented forest cover remained challenging. A high correlation was found between forest area estimates obtained from this map and from the Landsat TM derived maps. The regional and sub‐regional forest area estimates were close to those reported by FAO. Conclusion: SPOT4‐VEGETATION satellite imagery can be used for mapping consistently and uniformly the extent and distribution of the broad forest cover types at the regional scale. The new map can be considered as an update and improvement on existing regional forest cover maps.     

Low Hepcidin Levels in Severely Anemic Malawian Children with High Incidence of Infectious Diseases and Bone Marrow Iron Deficiency

Introduction

A reliable diagnostic biomarker of iron status is required for severely anemic children living in malarious areas because presumptive treatment with iron may increase their infection risk if they are not iron deficient. Current biomarkers are limited because they are altered by host inflammation. In this study hepcidin concentrations were assessed in severely anemic children living in a highly malarious area of Malawi and evaluated against bone marrow iron in order to determine the usefulness of hepcidin as a point of care test.

Methods

207 severely anemic children were assessed for levels of hepcidin, ferritin, serum transferrin receptor, erythropoietin, hematological indices, C-reactive protein, interleukin-6, malaria parasites and HIV infection. Deficiency of bone marrow iron stores was graded and erythroblast iron incorporation estimated. Interaction of covariates was assessed by structural-equation-modeling.

Results and Conclusion

Hepcidin was a poor predictor of bone marrow iron deficiency (sensitivity 66.7%; specificity 48.5%), and of iron incorporation (sensitivity 54.2%; specificity 61.8%), and therefore would have limitations as a point of care test in this category of children. As upregulation of hepcidin by inflammation and iron status was blunted by erythropoietin in this population, enhanced iron absorption through the low hepcidin values may increase infection risk. Current recommendations to treat all severely anemic children living in malarious areas with iron should therefore be reconsidered.     

Continental estimates of forest cover and forest cover changes in the dry ecosystems of Africa between 1990 and 2000

Aim

This study provides regional estimates of forest cover in dry African ecoregions and the changes in forest cover that occurred there between 1990 and 2000, using a systematic sample of medium‐resolution satellite imagery which was processed consistently across the continent.

Location

The study area corresponds to the dry forests and woodlands of Africa between the humid forests and the semi‐arid regions. This area covers the Sudanian and Zambezian ecoregions.

Methods

A systematic sample of 1600 Landsat satellite imagery subsets, each 20 km × 20 km in size, were analysed for two reference years: 1990 and 2000. At each sample site and for both years, dense tree cover, open tree cover, other wooded land and other vegetation cover were identified from the analysis of satellite imagery, which comprised multidate segmentation and automatic classification steps followed by visual control by national forestry experts.

Results

Land cover and land‐cover changes were estimated at continental and ecoregion scales and compared with existing pan‐continental, regional and local studies. The overall accuracy of our land‐cover maps was estimated at 87%. Between 1990 and 2000, 3.3 million hectares (Mha) of dense tree cover, 5.8 Mha of open tree cover and 8.9 Mha of other wooded land were lost, with a further 3.9 Mha degraded from dense to open tree cover. These results are substantially lower than the 34 Mha of forest loss reported in the FAO's 2010 Global Forest Resources Assessment for the same period and area.

Main conclusions

Our method generates the first consistent and robust estimates of forest cover and change in dry Africa with known statistical precision at continental and ecoregion scales. These results reduce the uncertainty regarding vegetation cover and its dynamics in these previously poorly studied ecosystems and provide crucial information for both science and environmental policies.     

State and evolution of the African rainforests between 1990 and 2010

This paper presents a map of Africa''s rainforests for 2005. Derived from moderate resolution imaging spectroradiometer data at a spatial resolution of 250 m and with an overall accuracy of 84%, this map provides new levels of spatial and thematic detail. The map is accompanied by measurements of deforestation between 1990, 2000 and 2010 for West Africa, Central Africa and Madagascar derived from a systematic sample of Landsat images—imagery from equivalent platforms is used to fill gaps in the Landsat record. Net deforestation is estimated at 0.28% yr⁻¹ for the period 1990–2000 and 0.14% yr⁻¹ for the period 2000–2010. West Africa and Madagascar exhibit a much higher deforestation rate than the Congo Basin, for example, three times higher for West Africa and nine times higher for Madagascar. Analysis of variance over the Congo Basin is then used to show that expanding agriculture and increasing fuelwood demands are key drivers of deforestation in the region, whereas well-controlled timber exploitation programmes have little or no direct influence on forest-cover reduction at present. Rural and urban population concentrations and fluxes are also identified as strong underlying causes of deforestation in this study.     

An integrated population model sheds light on the complex population dynamics of a unique colonial breeder

Climate models forecast increasing climatic variation and more extreme events, which could increase the variability in animal demographic rates. More variable demographic rates generally lead to lower population growth and can be detrimental to wild populations, especially if the particular demographic rates affected are those to which population growth is most sensitive. We investigated the population dynamics of a metapopulation of 25 colonies of a semi-arid bird species, the sociable weaver Philetairus socius, and how it was influenced by seasonal weather during 1993–2014. We constructed an integrated population model which estimated population sizes similar to observed population counts, and allowed us to estimate annual fecundity and recruitment. Variance in fecundity contributed most to variance in population growth, which showed no trend over time. No weather variables explained overall demographic variation at the population level. However, a separate analysis of the largest colony showed a clear decline with a high extinction probability (0.05 to 0.33) within 5 years after the study period. In this colony, juvenile survival was lower when summers were hot, and adult survival was lower when winters were cold. Rainfall was also negatively correlated with adult survival. These weather effects could be due to increased physiological demands of thermoregulation and rainfall-induced breeding activity. Our results suggest that the dynamics of the population on the whole are buffered against current weather variation, as individual colonies apparently react in different ways. However, if more and increasingly extreme weather events synchronize colony dynamics, they are likely to have negative effects.     

XML: a lingua franca for science?

XML is a new language designed to solve one of the biggest problems of the World Wide Web: its main language, HTML, is not extensible. In this article, the authors discuss the current successes and limitations of the World Wide Web, briefly explain the basics of XML and present the benefits of using XML as a data-exchange language. Finally, they discuss real-life applications that have been developed using XML, with a focus on biology.     

Serum non-transferrin-bound iron and low-density lipoprotein oxidation in heterozygous hemochromatosis

Non-transferrin-bound iron (NTBI) is implicated in lipid peroxidation but the relation with oxidative modification of low-density lipoprotein (LDL) is not known. We assessed variables reflecting in vitro and in vivo LDL oxidation in two age- and sex-matched groups (n=23) of hereditary hemochromatosis heterozygotes (C282Y), characterized by a clear difference in mean serum NTBI (1.55+/-0.57 micromol/L vs 3.70+/-0.96 micromol/L). Plasma level of oxidized LDL (absolute and relative to plasma apolipoprotein B), and IgG and IgM antibodies to oxidized LDL, markers of in vivo LDL oxidation, did not differ between the groups with low and high serum NTBI. Mean lag-phase of in vitro LDL oxidation was also not significantly different between both study groups. Conclusion: these findings do not support the hypothesis that NTBI promotes oxidative modification of plasma LDL.     

Survival synchronicity in two avian insectivore communities

Climate change is forecast to increase climatic variability, in particular the occurrence of extreme events. Consequently, it is imperative to understand how climatic variation influences the dynamics of communities. We investigated synchronicity in survival in response to climatic variation among bird communities occupying habitats that differed in climatic seasonality: a more seasonal wetland and a less seasonal fynbos shrubland in South Africa. We predicted higher synchronicity at the wetland than at the shrubland because there was more potential for weather to induce variation in survival at this climatically more variable site. We estimated survival from ringing data for four wetland species and three fynbos species in hierarchical models with an asynchronous (species-specific) variance component and a synchronous (common) variance component. Comparing models including and excluding a climatic covariate enabled us to estimate the effect of climatic variation as a synchronizing and desynchronizing agent on survival. As hypothesized, synchronicity in survival was substantially greater at the more seasonal wetland than at the climatically more stable fynbos site: 0.50 (95% credible interval 0.01–1.92 on the logit scale) and 0.03 (0.00001–0.19), respectively. Similarly, asynchronicity in survival was greater for wetland species than for fynbos species. However, we found no clear evidence that weather affected survival. We provide the first survival estimates of several African endemic birds and the first estimates of synchronicity and asynchronicity in survival of communities outside the strongly seasonal northern temperate zone. Our results suggest that the relative magnitude of synchronicity and asynchronicity varies among communities and support the idea that environmental variability induces synchronicity.