Global tropical forest cover change assessment with medium spatial stellite imagery using a systematic sample grid - data, methods and first results.

At the Joint Research Centre (JRC) of the European Commission, a methodology has been developed to monitor the pan-tropical forest cover with remote sensing data for the years 1990-2000-2005 in Latin America, Southeast Asia and Africa on the basis of over 4000 sample units sample units with a dimension of 20 km by 20 km located at every full latitude and longitude degree confluence. From the Landsat Thematic Mapper (TM) and Enhanced Thematic Mapper (ETM) instruments, images with low cloud impact from the epochs around the years 1990, 2000 and 2005 were selected and subsets covering the sample units were cut-out, pre-processed, segmented and classified in five different land cover classes in order to build global and regional statistics on tropical forest cover change. The data was validated in three steps, internal correction of wrongly classified objects, external (national or regional) expert validation and internal harmonization of the data. In this paper, the data collection and the workflow of the forest cover change assessment for the epochs 1990 and 2000 is presented. Parts of the results for the Brazilian Amazon have been validated by comparing with interpretations of corresponding samples carried out by the Instituto Nacional de Pesquisas Espaciais (INPE), showing a very high correlation. Further, the figure produced by INPE through the PRODES program on gross deforestation for the years 1990-2000 was compared to the figure calculated on basis of the JRC results for the respective area, where the JRC estimate that was ca. 10% higher than the INPE estimate

The potential for operational monitoring of selectively logged forest using vegetation index in the brazilian Amazon.

This work presents a approach for monitoring forest degradation in the Brazilian Amazon using a multi-temporal dataset of Landsat-8 imagery. We use a Normalized Burned Ratio (NBR) for detecting selective logging in two differents areas in the Brazilian Amazon, Acre State and the Roraima State. The proposed approach can be used for monitoring forest degradation to availability the vegetation indice using the proposed method and facilitating the implementation of action of forest protection in the Brazilian Amazon.Editores: Douglas Francisco Marcolino Gherardi; Ieda Del'Arco Sanches; Luiz Eduardo Oliveira e Cruz de Aragão

Forest Cover Changes in Tropical South and Central America from 1990 to 2005 and Related Carbon Emissions and Removals.

This paper outlines the methods and results for monitoring forest change and resulting carbon emissions for the 1990-2000 and 200-2005 periods carried out over tropical Central and South America. To produce our forest change estimates we used a systematic sample of medium resolution satellite data processed to forest change maps covering 1230 sites of 20 km by 20 km, each located at the degree confluence. Biomass data were spatially associated to each individual sample site so that annual carbon emissions could be estimated. For our study area we estimate that forest cover in the study area had fallen from 763 Mha (s.e. 10 Mha) in 1990 to 715 Mha (s.e. 10 Mha) in 2005. During the same period other wooded land (i.e., non-forest woody vegetation) had fallen from 191 Mha (s.e. 5.5 Mha) to 184 Mha (s.e. 5.5 Mha). This equates to an annual gross loss of 3.74 Mha·y−1 of forests (0.50% annually) between 1990 and 2000, rising to 4.40 Mha·y−1 in the early 2000s (0.61% annually), with Brazil accounting for 69% of the total losses. The annual carbon emissions from the combined loss of forests and other wooded land were calculated to be 482 MtC·y−1 (s.e. 29 MtC·y−1) for the 1990s, and 583 MtC·y−1 (s.e. 48 MtC·y−1) for the 2000 to 2005 period. Our maximum estimate of sinks from forest regrowth in tropical South America is 92 MtC·y−1. These estimates of gross emissions correspond well with the national estimates reported by Brazil, however, they are less than half of those reported in a recent study based on the FAO country statistics, highlighting the need for continued research in this area

Molecular recognition of histone lysine methylation by the Polycomb group repressor dSfmbt

Polycomb group (PcG) proteins repress transcription by modifying chromatin structure in target genes. dSfmbt is a subunit of the Drosophila melanogaster PcG protein complex PhoRC and contains four malignant brain tumour (MBT) repeats involved in the recognition of various mono- and dimethylated histone peptides. Here, we present the crystal structure of the four-MBT-repeat domain of dSfmbt in complex with a mono-methylated histone H4 peptide. Only a single histone peptide binds to the four-MBT-repeat domain. Mutational analyses show high-affinity binding with low peptide sequence selectivity through combinatorial interaction of the methyl-lysine with an aromatic cage and positively charged flanking residues with the surrounding negatively charged surface of the fourth MBT repeat. dSfmbt directly interacts with the PcG protein Scm, a related MBT-repeat protein with similar methyl-lysine binding activity. dSfmbt and Scm co-occupy Polycomb response elements of target genes in Drosophila and they strongly synergize in the repression of these target genes, suggesting that the combined action of these two MBT proteins is crucial for Polycomb silencing

Land cover changes in the Brazilian Cerrado and Caatinga biomes from 1990 to 2010 based on a systematic remote sensing sampling approach

Abstract - The main objective of our study was to provide consistent information on land cover changes between the years 1990 and 2010 for the Cerrado and Caatinga Brazilian seasonal biomes. These areas have been overlooked in terms of land cover change assessment if compared with efforts in monitoring the Amazon rain forest. For each of the target years (1990, 2000 and 2010) land cover information was obtained through an object-based classification approach for 243 sample units (10 km × 10 km size), using (E)TM Landsat images systematically located at each full degree confluence of latitude and longitude. The images were automatically pre-processed, segmented and labelled according to the following legend: Tree Cover (TC), Tree Cover Mosaic (TCM), Other Wooded Land (OWL), Other Land Cover (OLC) and Water (W). Our results indicate the Cerrado and Caatinga biomes lost (gross loss) respectively 265,595 km2 and 89,656 km2 of natural vegetation (TC + OWL) between 1990 and 2010. In the same period, these areas also experienced gain of TC and OWL. By 2010, the percentage of natural vegetation cover remaining in the Cerrado was 47% and in the Caatinga 63%. The annual (net) rate of natural vegetation cover loss in the Cerrado slowed down from ?0.79% yr?1 to ?0.44% yr?1 from the 1990s to the 2000s, while in the Caatinga for the same periods the rate increased from ?0.19% yr?1 to ?0.44% yr?1. In summary, these Brazilian biomes experienced both loss and gains of Tree Cover and Other Wooded Land; however a continued net loss of natural vegetation was observed for both biomes between 1990 and 2010. The average annual rate of change in this period was higher in the Cerrado (?0.6% yr?1) than in the Caatinga (?0.3% yr?1)

Pcl-PRC2 is needed to generate high levels of H3-K27 trimethylation at Polycomb target genes

PRC2 is thought to be the histone methyltransferase (HMTase) responsible for H3-K27 trimethylation at Polycomb target genes. Here we report the biochemical purification and characterization of a distinct form of Drosophila PRC2 that contains the Polycomb group protein polycomblike (Pcl). Like PRC2, Pcl-PRC2 is an H3-K27-specific HMTase that mono-, di- and trimethylates H3-K27 in nucleosomes in vitro. Analysis of Drosophila mutants that lack Pcl unexpectedly reveals that Pcl-PRC2 is required to generate high levels of H3-K27 trimethylation at Polycomb target genes but is dispensable for the genome-wide H3-K27 mono- and dimethylation that is generated by PRC2. In Pcl mutants, Polycomb target genes become derepressed even though H3-K27 trimethylation at these genes is only reduced and not abolished, and even though targeting of the Polycomb protein complexes PhoRC and PRC1 to Polycomb response elements is not affected. Pcl-PRC2 is thus the HMTase that generates the high levels of H3-K27 trimethylation in Polycomb target genes that are needed to maintain a Polycomb-repressed chromatin state

Tissue Specific Profiling of Females of Schistosoma japonicum by Integrated Laser Microdissection Microscopy and Microarray Analysis

Schistosomes are parasitic worms responsible for important human diseases in tropical and developing nations. There is urgent need to develop new drugs and vaccines to augment current treatments for this disease. In recent years, concerted efforts by many laboratories have led to extensive genetic sequencing of the parasites, and the publication of genome sequence for two agents of schistosomiasis appears imminent. This genetic information has revealed many molecules expressed by the schistosome parasites for which no functional information is available. This lack of information extends to ignorance of where in the complex multicellular schistosome parasites the genes are expressed. We integrated two molecular and cellular techniques to address these knowledge gaps. We used laser microdissection microscopy to dissect small but highly important tissues involved in nutrition and reproduction from sections of female Schistosoma japonicum. From these dissected tissues we then used a broad molecular biology method to identify the multiple genes active in these tissues. Our approach has allowed us to formulate the basis of a “gene atlas” for schistosome parasites, defining the expression repertoire of specific tissues. The better understanding of the roles of tissues in parasite biology, especially in development, reproduction and interactions with its human hosts, should promote future investigations into pathogenesis and control of these significant parasites

Saltatory remodeling of Hox chromatin in response to rostrocaudal patterning signals

Hox genes controlling motor neuron subtype identity are expressed in rostrocaudal patterns that are spatially and temporally collinear with their chromosomal organization. Here we demonstrate that Hox chromatin is subdivided into discrete domains that are controlled by rostrocaudal patterning signals that trigger rapid, domain-wide clearance of repressive histone H3 Lys27 trimethylation (H3K27me3) polycomb modifications. Treatment of differentiating mouse neural progenitors with retinoic acid leads to activation and binding of retinoic acid receptors (RARs) to the Hox1–Hox5 chromatin domains, which is followed by a rapid domain-wide removal of H3K27me3 and acquisition of cervical spinal identity. Wnt and fibroblast growth factor (FGF) signals induce expression of the Cdx2 transcription factor that binds and clears H3K27me3 from the Hox1–Hox9 chromatin domains, leading to specification of brachial or thoracic spinal identity. We propose that rapid clearance of repressive modifications in response to transient patterning signals encodes global rostrocaudal neural identity and that maintenance of these chromatin domains ensures the transmission of positional identity to postmitotic motor neurons later in development.Leona M. and Harry B. Helmsley Charitable TrustNational Institutes of Health (U.S.) (Grant P01 NS055923)Smith Family Foundatio

Mutations in the Polycomb Group Gene polyhomeotic Lead to Epithelial Instability in both the Ovary and Wing Imaginal Disc in Drosophila

Most human cancers originate from epithelial tissues and cell polarity and adhesion defects can lead to metastasis. The Polycomb-Group of chromatin factors were first characterized in Drosophila as repressors of homeotic genes during development, while studies in mammals indicate a conserved role in body plan organization, as well as an implication in other processes such as stem cell maintenance, cell proliferation, and tumorigenesis. We have analyzed the function of the Drosophila Polycomb-Group gene polyhomeotic in epithelial cells of two different organs, the ovary and the wing imaginal disc.Clonal analysis of loss and gain of function of polyhomeotic resulted in segregation between mutant and wild-type cells in both the follicular and wing imaginal disc epithelia, without excessive cell proliferation. Both basal and apical expulsion of mutant cells was observed, the former characterized by specific reorganization of cell adhesion and polarity proteins, the latter by complete cytoplasmic diffusion of these proteins. Among several candidate target genes tested, only the homeotic gene Abdominal-B was a target of PH in both ovarian and wing disc cells. Although overexpression of Abdominal-B was sufficient to cause cell segregation in the wing disc, epistatic analysis indicated that the presence of Abdominal-B is not necessary for expulsion of polyhomeotic mutant epithelial cells suggesting that additional polyhomeotic targets are implicated in this phenomenon.Our results indicate that polyhomeotic mutations have a direct effect on epithelial integrity that can be uncoupled from overproliferation. We show that cells in an epithelium expressing different levels of polyhomeotic sort out indicating differential adhesive properties between the cell populations. Interestingly, we found distinct modalities between apical and basal expulsion of ph mutant cells and further studies of this phenomenon should allow parallels to be made with the modified adhesive and polarity properties of different types of epithelial tumors