The genome sequence of the plant pathogen Xylella fastidiosa: The Xylella fastidiosa consortium of the organization for nucleotide sequencing and analysis, Sao Paulo, Brazil

Xylella fastidiosa is a fastidious, xylem-limited bacterium that causes a range of economically important plant diseases. Here we report the complete genome sequence of X. fastidiosa clone 9a5c, which causes citrus variegated chlorosis - a serious disease of orange trees. The genome comprises a 52.7% GC-rich 2,679,305-base-pair (bp) circular chromosome and 'two plasmids of 51,158 bp and 1,285 bp. We can assign putative functions to47% of the 2,904 predicted coding regions. Efficient metabolic functions are predicted, with sugars as the principal energy and carbon source, supporting existence in the nutrient-poor xylem sap. The mechanisms associated with pathogenicity and virulence involve toxins, antibiotics and ion sequestration systems, as well as bacterium-bacterium and bacterium-host interactions mediated by a range of proteins. Orthologues of some of these proteins have only been identified in animal and human pathogens; their presence in X. fastidiosa indicates that the molecular basis for bacterial pathogenicity is both conserved and independent of host. At least 83 genes are bacteriophage-derived and include virulence-associated genes from other bacteria, providing direct evidence of phage-mediated horizontal gene transfer.

Ticks infesting birds in Atlantic Forest fragments in Rio Clam, State of Sao Paulo, Brazil

In the present study, we report tick infestations on wild birds in plots of the Atlantic Forest reforested fragments with native species and plots reforested with Eucalyptus tereticornis in the municipality of Rio Claro, State of Sao Paulo, Brazil. A total of 256 birds were captured: 137 individuals of 33 species, in planted native forest; and 128 individuals of 37 species, in planted Eucalyptus tereticornis forest. Nymphs of two tick species were found on the birds: Amblyomma calcaratum and Amblyomma longirostre, the former was more abundant in the fragments reforested with Atlantic forest native species, and the latter in the fragment reforested with E. tereticornis. New host records were presented for A. calcaratum.

Sensitivity of Colletotrichum lindemuthianum from green beans to fungicides and race determination of isolates from State of Sao Paulo, Brazil

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Integrated biomarker responses as environmental status descriptors of a coastal zone (Sao Paulo, Brazil)

Sao Paulo state (Brazil) has one of the most overpopulated coastal zones in South America, where previous studies have already detected sediment and water contamination. However, biological-based monitoring considering signals of xenobiotic exposure and effects are scarce. The present study employed a battery of biomarkers under field conditions to assess the environmental quality of this coastal zone. For this purpose, the activity of CYP 450, antioxidant enzymes, DNA damage, lipid peroxidation and lysosomal membrane were analysed in caged mussels and integrated using Factorial Analysis. A representation of estimated factor scores was performed in order to confirm the factor descriptions characterizing the studied areas. Biomarker responses indicated signals of mussels` impaired health during the monitoring, which pointed to the impact of different sources of contaminants in the water quality and identified critical areas. This integrated approach produced a rapid, sensitive and cost-effective assessment, which could be incorporated as a descriptor of environmental status in future coastal zones biomonitoring. (C) 2011 Elsevier Inc. All rights reserved.

Mangrove Forests and Sedimentary Processes on the South of Coast of Sao Paulo State (Brazil)

Mangrove structure and distribution is conditioned by geomorphic processes. This paper describes the response of mangroves to sedimentary processes at the Cananeia-Iguape Coastal System on the south coast of Sao Paulo State (Brazil), between latitudes 24 degrees 40`S and 25 degrees 20`S. Within six study areas 41 plots were established along 14 transects. Plot size varied according to stem density from 2mx2m to 20mx20m. Here mangroves are strongly coupled to sedimentary processes, forming discrete architectural elements within particular depositional environments or topographic settings. These sedimentary structures and progradation environments are colonized by Laguncularia racemosa, associated with the smooth cordgrass Spartina alterniflora. Rhizophora mangle occurs typically near creeklets where tidal flooding is more frequent. Where tidal influence is restricted Avicennia schaueriana becomes dominant. Erosive margins are dominated by A. schaueriana or R. mangle. Single linkage cluster analysis yields three groups (A, B and C), with high levels of similarity, providing support to the classification of the data into two broad landform categories: depositional and erosive. Group A includes plots with the least structural development (nominal stem diameter d(n) between 1.05 and 4.61cm). Group B is composed of stems of intermediate diameter (4.99 cm <= d(n) <= 5.63cm). Group C plots have the largest structural development (5.50 cm <= d(n) <= 11.10cm). The structure of mangroves (dominance and structural development) reflects responses to geomorphology and habitat change.

Levels of persistent organic pollutants and residual pattern of DDTs in small cetaceans from the coast of Sao Paulo, Brazil

The State of Sao Paulo is the most developed area in Brazil and was impacted by persistent organic pollutants for several decades. This study investigated organochlorines in five species of small cetaceans (Pontoporia blainvillei, Stenella frontalis, Sotalia guianensis, Tursiops truncatus and Steno bredanensis) found dead along the coast of Sao Paulo between 1997 and 2003. DDTs (15.9 mu g g(-1) lipid: mean for all pooled individuals) and PCBs (8.08 mu g g(-1)) exhibited the highest concentrations in the animals, reflecting large amounts formerly used in Brazil. Lower levels of mirex (0.149 mu g g(-1)), HCB (0.051 mu g g(-1)), CHLs (0.008 mu g g(-1)) and HCHs (0.007 mu g g(-1)) were detected in all species. Residual pattern of DDTs in dolphins suggests that o,p`-DDT is more recalcitrant than p,p`-DDT in the body of the animals and/or the environment. In contrast to p,p`-DDT, residues of o,p`-DDT seem to be preferentially converted into o,p`-DDD rather than op-DDE. (C) 2010 Elsevier Ltd. All rights reserved.

The response of the Sao Paulo Continental Shelf, Brazil, to synoptic winds

The response of the Sao Paulo Continental Shelf (SPCS) to synoptic wind forcing has been analyzed. Two different methods are used for this purpose, one based on hydrographic data, bottom topography, and geographical characteristics, and a second on analyzing currentmeter data directly and using empirical orthogonal functions. Both methods show similar results for an essentially barotropic shelf. The SPCS response in the subinertial frequency band appears to be trapped on the continental shelf. Numerical experiments have also been carried out showing results that qualitatively agree with the observations, including the velocity component parallel to the coastline.

ANALYSIS OF MANGROVE FOREST SUCCESSION, USING SEDIMENT CORES: A CASE STUDY IN THE CANANEIA-IGUAPE COASTAL SYSTEM, SAO PAULO-BRAZIL

Sediment cores are an essential tool for the analysis of the dynamics of mangrove succession. Coring was used to correlate changes in depositional environments and lateral sedimentary facies with discrete stages of forest succession at the Cananeia-Iguape Coastal System in southeastern Brazil. A local level successional pattern was examined based on four core series T1) a sediment bank; T2) a smooth cordgrass Spartina alterniflora bank; T3) an active mangrove progradation fringe dominated by Laguncularia racemosa, and; T4) a mature mangrove forest dominated by Avicennia schaueriana. Cores were macroscopically described in terms of color, texture, sedimentary structure and organic components. The base of all cores exhibited a similar pattern suggesting common vertical progressive changes in depositional conditions and subsequent successional colonization pattern throughout the forest. The progradation zone is an exposed bank, colonized by S. alterniflora. L. racemosa, replaces S. alterniflora as progradation takes place. As the substrate consolidates A. schaueriana replaces L. racemosa and attains the greatest structural development in the mature forest. Cores collected within the A. schaueriana dominated stand contained S. alterniflora fragments near the base, confirming that a smooth cordgrass habitat characterized the establishment and early seral stages. Cores provide a reliable approach to describe local-level successional sequences in dynamic settings subject to drivers operating on multiple temporal and spatial scales where spatial heterogeneity can lead to multiple equilibria and where similar successional end-points may be reached through convergent paths.

HEMATOLOGICAL ANALYSIS OF Micropogonias furnieri, DESMAREST, 1823, SCIANIDAE, FROM TWO ESTUARIES OF BAIXADA SANTISTA, SAO PAULO, BRAZIL

Hematological alterations in fish are considered a useful tool to evaluate pathological processes resulting from the exposure to environmental pollutants. The whitemouth croaker Micropogonias furnieri is a common species in estuarine areas and potentially exposed to many contaminants. In the present study, the hematological characteristics of fish collected at two sites in Baixada Santista (Santos Estuarine System - SES, a polluted site; and the Estuary of Itanhaem River - EIR, unpolluted site) del was analysed. The following blood descriptors were analyzed: number of Erythrocytes (Er), Hematocrit (Ht), Hemoglobin (Hb), Mean Corpuscular Volume (MCV) and Mean Corpuscular Hemoglobin concentration (MCHC). Fish from SES exhibited significant lower levels of Ht and increase on MCHC and Hb. Such differences are likely related to the different contamination levels found in these estuaries.

Sexual abuse victimisation and perpetration in a cohort of men living with HIV/AIDS who have sex with women from Sao Paulo, Brazil

Sexual abuse leads to physical harm and devastating psychosocial consequences. It increases risk of HIV transmission and is associated with risky behaviour. Little is known about sexual abuse victimisation (SAV) and perpetration (SAP) among HIV-positive men who have sex with women (MSW). We investigated self-reported SAV and SAP among 242 Brazilian MSW selected at HIV care centres. Patients were questioned about sociodemographic data, mode of HIV acquisition, sexual practices, drug use and history of SAV or SAP. Prevalence of outcomes was estimated and risk factors for SAP investigated by logistic regression. Fifty-eight (24.1%) interviewees reported SAV. Of patients abused before 15 years of age, 64.3% reported events before the age of ten. Aggressors included relatives, friends and teachers. Among those victimised after 15 years old, 57.7% described events before 17 and 38.5% had acquainted aggressors. Fourteen (5.8%) interviewees reported SAP and most knew their victims. Sexual abuse perpetration was associated with lower schooling, marital status, illicit drug use and self-reported SAV. Sexual abuse was frequently reported by MSW from this cohort. Identifying predictors of violence and addressing SAV and SAP in comprehensive HIV care may help reduce violent behaviour, psychological distress and contribute to maximise benefits of preventive and care interventions.

A catalogue of the types of Asiloidea (Diptera) in the collection of the Museu de Zoologia da Universidade de Sao Paulo, Brazil (Part 1: Bombyliidae and Mydidae)

A catalogue of the type-specimens of Bombyliidae and Mydidae (Diptera) held in the collection of the Museu de Zoologia da Universidade de Sao Paulo (MZUSP) is provided, with information on 109 type specimens of 34 Neotropical (mostly Brazilian) species of the families Bombyliidae and Mydidae.

A New Species of Fissurella from Sao Pedro e Sao Paulo Archipelago, Brazil (Vetigastropoda, Fissurellidae)

Fissurella mesoatlantica n. sp. is endemic to the Saint Peter and Saint Paul Archipelago, Brazil, located approximately in the middle Atlantic (00 degrees 55N. 29 degrees 20W). The species is very similar to F. clenchi from the mainland Brazilian coast, differing in having a taller. more richly sculptured shell and by anatomical details. such its the papillae of mantle border and epipodial tentacles. A complete anatomical description is included.

A new species of Leptodactylus (Anura : Leptodactylidae) from the Atlantic forest of Sao Paulo State, Brazil

A new species of Leptodactylus from Bertioga municipality, Sao Paulo State, Brazil is described. Leptodactylus ajurauna sp. nov. differs from others species in the L. marmoratus group by its dark brown throat and the advertisement call. The taxonomy of other species in the group and the status of the population of Leptodactylus marmoratus sympatric with the new species are discussed. The advertisement call is also described.

A study of multidrug-resistant tuberculosis in risk groups in the city of Santos, Sao Paulo, Brazil

Monitoring the extent of and trends in multidrug-resistant tuberculosis (MDR-TB) is a priority of the Brazilian National Tuberculosis Control Programme. The current study aimed to estimate the incidence of MDR-TB, describe the profile of TB drug resistance in risk groups and examine whether screening for MDR-TB adhered to the recommended guidelines. A descriptive study that examined diagnosed cases of pulmonary TB was conducted in the city of Santos, Brazil, between 2000-2004. Of the 2,176 pulmonary TB cases studied, 671 (30.8%) met the criteria for drug sensitivity testing and, of these cases, 31.7% (213/671) were tested. Among the tested cases, 9.4% were resistant to one anti-TB drug and 15% were MDR. MDR was observed in 11.6% of 86 new TB cases and 17.3% of 127 previously treated cases. The average annual incidence of MDR-TB was 1.9 per 100,000 inhabitants-years. The extent of known MDR-TB in the city of Santos is high, though likely to be underestimated. Our study therefore indicates an inadequate adherence to the guidelines for MDR-TB screening and suggests the necessity of alternative strategies of MDR-TB surveillance.