DNA barcodes identify marine fishes of São Paulo State,Brazil

Anthropogenic impacts are an increasing threat to the diversity of fishes, especially in areas around large urban centres, and many effective conservation actions depend on accurate species identification. Considering the utility of DNA barcoding as a global system for species identification and discovery, this study aims to assemble a DNA barcode reference sequence library for marine fishes from the coastal region of São Paulo State, Brazil. The standard 652 bp ‘barcode’ fragment of the cytochrome c oxidase subunit I (COI) gene was PCR amplified and bidirectionally sequenced from 678 individuals belonging to 135 species. A neighbour‐joining analysis revealed that this approach can unambiguously discriminate 97% of the species surveyed. Most species exhibited low intraspecific genetic distances (0.31%), about 43‐fold less than the distance among species within a genus. Four species showed higher intraspecific divergences ranging from 2.2% to 7.6%, suggesting overlooked diversity. Notably, just one species‐pair exhibited barcode divergences of <1%. This library is a first step to better know the molecular diversity of marine fish species from São Paulo, providing a basis for further studies of this fauna – extending the ability to identify these species from all life stages and even fragmentary remains, setting the stage for a better understanding of interactions among species, calibrating the estimations about species composition and richness in an ecosystem, and providing tools for authenticating bioproducts and monitoring illegal species exploitation.     

Blood meal sources of mosquitoes captured in municipal parks in São Paulo,Brazil

The aim of this study was to investigate blood meal sources of mosquitoes captured in municipal parks in the city of São Paulo, Brazil, and to identify possible associations between mosquito species and their food preferences. Fourteen species of blood hosts of 510 engorged adult female mosquitoes were identified using PCR assays with a vertebrate‐specific primer set based on cytochrome b mitochondrial DNA of the following vertebrates: birds, dogs, cats, rodents, humans, and other primates. Mosquitoes were captured using a manual aspirator, CDC traps in the canopy, CDC traps at ground level, and Shannon traps. With the exception of cats, all other vertebrates were used as hosts by mosquitoes in the parks. Statistical analysis failed to show any trend toward association between most culicid species captured and the sources of blood meals. Instead, they revealed random patterns, indicating that the mosquitoes fed on the most abundant or convenient blood meal sources. Although feeding preferences were observed in two species (birds in the case of Cx. nigripalpus and dogs in the case of Cx. quinquefasciatus), our results highlight the opportunistic feeding habits of the female mosquitoes in this study.     

Thermal Regime and Stability of Jurumirim Reservoir (Paranapanema River,São Paulo,Brazil)

Thermal regime and stability in Jurumirim Reservoir (São Paulo, Brazil) were studied for a year. Isothermy and thermal stratification were observed from June to September and from October to March, respectively. The annual heat budget was 14.0 Kcal · cm⁻² and average heat gain per day was 67.2 cal · cm⁻² · day⁻¹. Maximum stability and wind work reached 324.2 and 3,037.5 g · cm · cm⁻², respectively. According to thermal structure and heat content, Jurumirim Reservoir was classified as a warm tropical monomictic lake.     

Seasonal population dynamics and the genetic structure of the mosquito vector Aedes aegypti in São Paulo,Brazil

Population genetic studies of insect vectors can generate knowledge to improve epidemiological studies focused on the decrease of pathogen transmission. In this study, we used nine SNPs across the Aedes aegypti genome to characterize seasonal population variations of this important dengue vector. Mosquito samples were obtained by ovitraps placed over Botucatu SP from 2005 to 2010. Our data show that, regardless of the large variation in mosquito abundance (deduced from the number of eggs obtained from ovitraps), the effective population size remained stable over the years. These results suggest that Ae. aegypti is able to maintain a sufficiently large active breeding population during the dry season to keep genetic frequencies stable. These results open new perspectives on mosquito survey and control methods.     

Temporal Dynamics of Tomato Severe Rugose Virus and Bemisia tabaci in Tomato Fields in São Paulo,Brazil

Temporal progress of a begomovirus disease in tomato fields and the abundance of its whitefly vector, Bemisia tabaci biotype B, were evaluated during three consecutive tomato plantings in the municipality of Sumaré, state of São Paulo, Brazil, in 2006 and 2007. The incidence of symptomatic plants and the number of adult whiteflies were weekly monitored on experimental plots randomly chosen in tomato commercial fields. Tomato severe rugose virus (ToSRV) was identified as the causal agent of the disease, and its relationships with other Brazilian begomoviruses was confirmed by partial and complete nucleotide sequencing of the viral genome. The disease temporal progress was analysed by fitting different models to disease incidence. The monomolecular model showed the best fit, which is consistent with a predominant role of primary spread in the epidemiology of ToSRV. A higher number of adult whiteflies were observed at the borders of the plots, also suggesting primary spread of ToSRV from external sources of inoculum, which might be represented by weeds and volunteer tomato‐infected plants. In Brazil, since 2004, there is a legislative measure that mandates, for some regions of processing tomato plantings, a 2‐month crop‐free period during the year. Based on our results, we suggest the extension of this measure to all tomato‐producing regions, including fresh market tomato. We also suggest that growers emphasize the elimination of old plants from harvested fields that can serve as virus reservoirs several weeks prior to new plantings and weeds nearby the fields to limit the primary spread of ToSRV.     

Length–weight relationships of two catfish species from the Guareí River basin,São Paulo,Brazil

Here the length–weight relationships (LWRs) of two catfish species are provided. Individuals of Imparfinis mirini Haseman, 1911, and Phenacorhamdia tenebrosa (Schubart, 1964) were collected in August and December 2017 from the Guareí River Basin, upper Paraná River basin, Brazil. Values of b were between 2.66 and 3.11 and a between 0.0122 and 0.0137; statistical analysis showed high r² values. Lastly, a new record of maximum standard length for P. tenebrosa is provided.     

Host range,mating type and population structure of Magnaporthe sp. of a single barley field in São Paulo state,Brazil

Brazil is blast disease hot spot because severe epidemics have occurred among wheat, triticale, rye, barley and oat crops. Although the first outbreak of barley blast appeared in 1998, little information is available. Therefore, this study aimed to examine host range, mating type composition and population structure of Magnaporthe sp. from a single barley field in São Paulo, Brazil. To examine pathogenicity, 25 Magnaporthe isolates were inoculated on five, three, two and two cultivars of barley, wheat, oat and rice, respectively, and one cultivar each of rye, corn, sorghum, triticale and certain weeds (Cenchrus echinatus, Setaria geniculata, Brachiaria plantaginea and Eleusine indica). Mating type distribution of 33 isolates was investigated by molecular tools. The genotypic divergence of 41 barley and five wheat isolates was investigated by 15 random amplified polymorphic DNA primers and unweighted pair group method with arithmetic mean. The host range of the barley blast pathogen included wheat, oat, rye and triticale but not rice and weeds. Sexual reproduction appeared to not be involved in the high genotypic diversity because only a single isolate, MAT1‐2, was identified. The majority of barley isolates clustered together with wheat blast, except for four, suggesting a different origin.     

Responses of the Phytoplankton Community of a Tropical Reservoir (São Paulo,Brazil) to the Enrichment with Nitrate,Phosphate and EDTA

The effects of artificial enrichment with nitrate, phosphate and EDTA on the phytoplankton community were studied in the Lobo Reservoir (São Paulo, Brazil). After 14 days of in situ incubation, the amounts of suspended matter and chlorophyll a, the numbers of cells and the carotene/chlorophyll ratio were determined. The addition of nitrate and phosphate to water samples produced significant effects on the chlorophyll a and cell counts, while EDTA acted only on the cell production. Both nitrate and phosphate, when analysed individually, caused a decrease in the value of the carotene/chlorophyll ratio. A synergistic effect of the addition of EDTA and N on the suspended matter was observed.     

Fatal toxoplasmosis in a southern muriqui (Brachyteles arachnoides) from São Paulo state,Brazil: Pathological,immunohistochemical, and molecular characterization

We report the pathological, immunohistochemical, and molecular features of fatal acute systemic toxoplasmosis in an adult, female, free‐living southern muriqui (Brachyteles arachnoides) from São Paulo state, Brazil. PCR‐RFLP genotyping analysis identified the #21 genotype of Toxoplasma gondii. This represents the first report of acute toxoplasmosis involving this genotype in humans and animals.     

Onychomycosis in São Paulo,Brazil

Onychomycosis is a fungal infection of the nails with broad aetiological scope, and it represents 18–40% of all onychopathies and 39% of all superficial mycotic infections. From July 1996 to December 1999, samples of nails were collected from 588 patients with presumptive diagnosis of onychomycosis at the Dermatology and Mycology Divisions EPM\UNIFESP, Brazil, and the diagnosis was confirmed in 247 of these cases. The most common pathogens isolated in this study were yeasts in 52% of positive cultures (Candida albicans 18.3%, Candida parapsilosis 13.8%, other species of Candida 15.4% and other yeasts 4.6%), followed by dermatophytes in 40.6% of positive cultures (the most commonly isolated organisms were Trichophyton rubrum in 33.2%, followed by Trichophyton mentagrophytes in 6.3% and others 1.2%). Non-dermatophyte moulds were isolated in 7.4% of positive cultures (Fusarium spp. 4.5%, Nattrassia mangiferae 2.3% and Aspergillus spp. 0.6%). Distal and lateral subungual onychomycosis (DLSO) was the commonest clinical pattern 44.6% followed by free edge onycholysis (FEO) 38.8% and others. In conclusion, this study demonstrated that T. rubrum is the main agent causing onychomycosis in toenails, and species of genus Candida were the main agents isolated in fingernail onychomycosis in our region.     

Reproductive biology of the guitarfish Rhinobatos percellens (Chondrichthyes,Rhinobatidae) from the São Paulo Coast,Brazil, western South Atlantic Ocean

The reproductive biology of the guitarfish Rhinobatos percellens was studied from 751 specimens caught by bottom pair trawlers off the coast of São Paulo, Brazil, between c. 24° 00′ S; 45° 15′ W and c. 25° 10′ S; 47° 52′ W, from September 2007 to August 2009. The total length (L_T) and total mass (M_T) relationship for males and females combined was M_T = 1·29E‐06 L_T^3·15 (r = 0·99, n = 751). The mean L_T of sexually mature specimens was 548 mm for males and 583 mm for females. Clasper growth was allometric and showed three distinct phases. Most claspers were calcified in specimens of c. 550 mm L_T. The mean diameter of the largest oocyte was 29·8 mm, the mean ovarian fecundity was seven oocytes and ovulation occurred between August and November. Uterine fecundity ranged from two to 13 embryos (mean of five embryos). Larger females had higher litter sizes and larger embryos; the size‐at‐birth was c. 200 mm L_T. The hepato‐somatic index oscillated seasonally for males and females; the gonado‐somatic index had little variation in males, but varied seasonally in females. The presence of many non‐pregnant adult females and of encapsulated eggs during two consecutive seasons suggests a resting period between gestations and the possibility of diapause.     

Mosquitoes in degraded and preserved areas of the Atlantic Forest and potential for vector‐borne disease risk in the municipality of São Paulo,Brazil

In order to assess the epidemiological potential of the Culicidae species in remaining areas of the Brazilian Atlantic Forest, specimens of this family were collected in wild and anthropic environments. A total of 9,403 adult mosquitoes was collected from May, 2009 to June, 2010. The most prevalent among species collected in the wild environment were Anopheles (Kerteszia) cruzii, the Melanoconion section of Culex (Melanoconion), and Aedes serratus, while the most common in the anthropic site were Coquillettidia chrysonotum/albifera, Culex (Culex) Coronator group, and An. (Ker.) cruzii. Mosquito richness was similar between environments, although the abundance of individuals from different species varied. When comparing diversity patterns between environments, anthropic sites exhibited higher richness and evenness, suggesting that environmental stress increased the number of favorable niches for culicids, promoting diversity. Increased abundance of opportunistic species in the anthropic environment enhances contact with culicids that transmit vector‐borne diseases.     

Primary Production and Effects of Enrichment with Nitrate and Phosphate on Phytoplankton in the Barra Bonita Reservoir (State of São Paulo,Brazil)

Primary productivity of the phytoplankton was evaluated by the ¹⁴C and dissolved oxygen methods in December 1981 at the Barra Bonita Reservoir (São Paulo State, Brazil). The primary production varied between 0.17 to 14.51 mg C m⁻³h⁻¹ at 4 and 0 m depth, respectively. About 57 to 94% of the photosynthetic activity was due to phytoplankton > 50 μm. The highest value of assimilation rate (3.36 mg C mg Chl⁻¹h⁻¹) was found in the surface water. Dissolved nutrient concentrations were very high and consisted mainly of nitrate. Light penetration was low, the aphotic zone accounting for about 90% of the water column. Enrichment with nitrate and phosphate showed that both N and P stimulated the production of biomass (chlorophyll a), mainly due to the addition of phosphate. The enrichment experiment also indicated that phosphate addition has a significant stimulatory effect on the growth of Melosira sp. The limiting effect of light penetration on photosynthetic activity is more severe than that of nutrients.     

Entomological surveillance,spatial distribution,and diversity of Culicidae (Diptera) immatures in a rural area of the Atlantic Forest biome,State of São Paulo,Brazil

Because of the high adaptive capacity of mosquitoes, studies that focus on transitional environments become very important, such as those in rural areas, which are considered as bridges between wild diseases and human populations of urban areas. In this study, a survey of the existing species of mosquitoes was performed in an Atlantic Forest area of the city of Santa Bárbara d'Oeste, São Paulo state, Brazil, using traps for immatures and analyzing the frequency and distribution of these insects over the sampling months. Five mosquito species were found: Aedes albopictus (the most frequent species), Aedes aegypti, Aedes fluviatilis, Culex quinquefasciatus, and Toxorhynchites theobaldi. The 4,524 eggs collected in ovitraps showed the presence of the tribe Aedini. Aedes aegypti and Ae. albopictus were identified after larval hatching in the laboratory, with different spatial distributions: the first of which coincides with the area of greatest diversity calculated using the Simpson index, while the second does not. The association of ecological analysis of spatial diversity with simple methods of data collection enables the identification of possible epidemiological risk situations and is a strategy that may be implemented to monitor ecological processes resulting from the interaction among different species of mosquitoes.     

Parity and gonotrophic discordance of females of Aedes aegypti and Aedes albopictus (Diptera: Culicidae) in the city of São Paulo,SP, Brazil

The objective of this study was to assess the parity, presence of blood in the stomach, and the gonotrophic discordance of females of Aedes aegypti and Aedes albopictus captured in two areas of the city of São Paulo. The captures were undertaken monthly, by aspiration, in the period from January, 2015 to August, 2017. All the females of the two species had their midguts and ovaries dissected to determine the presence of blood and the parity/stage of maturation. With regard to parity, 27% and 34% of the females of Ae. aegypti and Ae. albopictus, respectively, were parous or were in advanced stages of the development of their ovaries (33% and 27%, respectively). The larger part of the females of Ae. aegypti and Ae. albopictus contained blood in their stomachs (77% and 60%, respectively), beyond which 36% and 27% of the females of Ae. aegypti and Ae. albopictus, respectively, were in gonotrophic discordance. Our results indicate favorable conditions in the study areas because of the presence of parous females. Moreover, this frequent and multiple contact of Ae. aegypti and Ae. albopictus females with vertebrate hosts, such as humans, increases the possibility of transmitting the viruses they may be carrying.     

On the need of legal frameworks for assessing restoration projects success: new perspectives from São Paulo state (Brazil)

Despite growing worldwide commitment to large‐scale ecosystem restoration, national public policies on restoration are few, and those that exist tend to be vague. Brazil and especially São Paulo state stand out. In a pioneering attempt to improve restoration projects and their outcomes, the Secretariat for the Environment of the State of São Paulo has enacted a legal instrument to drive planning and to assess whether the goals and targets of mandatory ecological restoration are being achieved. Regardless of the restoration techniques applied, the effectiveness of mandatory or public‐funded projects will henceforth be assessed by using three ecological indicators: (1) ground coverage with native vegetation; (2) density of native plants spontaneously regenerating; and (3) number of spontaneously regenerating native plant species. We analyze how this science‐based legal framework is expected to promote greater restoration success, improve cost‐effectiveness, and help bridge the all‐too‐familiar knowledge‐action gap in environmental policies. Notably, scientists, professionals, public agents, and stakeholders from different institutions have collaborated to advance the refinement and rolling out of this legal instrument. By 2037, it is expected that more than 300,000 restoration projects will be carried out in São Paulo state and monitored using this set of indicators. We also suggest that this approach could be usefully applied to the growing number of ecological restoration programs being carried out worldwide, especially in the context of offset policies intended to achieve serious compensation for environmental degradation or loss of biodiversity.     

Hisonotus devidei,a new species from the São Francisco basin,Brazil (Siluriformes: Loricariidae)

A recent expedition to headwaters of the Rio Pandeiros, a left‐bank tributary of the Rio São Francisco revealed the presence of a fourth species of Hisonotus from that basin. Hisonotus devidei sp. nov. differs from congeners by the presence of conspicuous dark blotches of distinct shapes irregularly arranged along lateral and dorsal surfaces of the body and scattered throughout all fins, by possessing small plates in lateral portions of the abdomen and adjacent areas between pelvic fins without development of dermal plates and by morphometric ratios. The putative phylogenetic placement of the new species is discussed based on morphological comparisons with species of related Hypoptopomatinae genera and the Hisonotus species diversity within the Rio São Francisco Basin is compared with that of adjacent basins.     

Molecular typing and occurrence of beta‐lactam resistance genes of Shigella sonnei strains isolated from 1983 to 2014 in the São Paulo state of Brazil

Shigella sonnei , which has generally been associated with dysentery in developed countries, has recently been emerging in developing countries. Specifically, in Brazil few published studies have that molecularly characterized this species. The aims of this study were to analyze the efficacy of typing using multiple‐locus variable‐number tandem‐repeat analysis (MLVA), study the phylogeny by multi‐locus sequence typing (MLST) and assess the presence of some beta‐lactam resistance genes in S. sonnei strains isolated from human diarrhoeic faeces in the São Paulo State in Brazil between 1983 and 2014. Seventy‐two such S. sonnei strains were typed by MLVA and grouped into two clusters. The discrimination index of MLVA was found to be 0.996. Twenty strains were typed by MLST as ST152. In addition, the bla _TEM gene was detected in eight (72.7%) of the 11 S. sonnei strains that had previously been shown to be resistant to β‐lactams. However, bla _{CTX‐M‐1group}, bla _{CTX‐M‐9group} and bla _SHV genes were not found. MLVA results suggested the existence of two prevalent subtypes in the S. sonnei strains studied, confirming previous results. Moreover, MLVA efficiently discriminated monomorphic S. sonnei species. Because the S. sonnei strains studied belonged to clonal complex 152 and all isolates were typed as ST152, MLST is not a suitable method for studying the population structure of S. sonnei . Although, the rates of β‐lactam resistance were not high in the present study, the frequency of bla _TEM may represent a risk for patients receiving antimicrobial treatment. Taken together, the results provide better molecular characterization of this globally clinically important pathogen.