A5087284455- Genomics and Phylogenetic Studies
- Plant Pathogenic Bacteria Studies
- Plant-Microbe Interactions and Immunity
- Chromosomal and Genetic Variations
- Legume Nitrogen Fixing Symbiosis
- Antibiotic Resistance in Bacteria
- Bacteriophages and microbial interactions
- Plant and Biological Electrophysiology Studies
- Microbial Community Ecology and Physiology
- Phytoplasmas and Hemiptera pathogens
- Enzyme Production and Characterization
- Cocoa and Sweet Potato Agronomy
- Probiotics and Fermented Foods
- Protist diversity and phylogeny
- Plant Diversity and Evolution
- Biofuel production and bioconversion
- Bacterial Genetics and Biotechnology
- Plant Pathogens and Fungal Diseases
- Plant Virus Research Studies
- Aquatic Ecosystems and Phytoplankton Dynamics
- Mycorrhizal Fungi and Plant Interactions
- Sugarcane Cultivation and Processing
- Milk Quality and Mastitis in Dairy Cows
- Microbial Metabolites in Food Biotechnology
- Plant tissue culture and regeneration
Universidade Estadual Paulista (Unesp)
2017-2041
Universidade Federal do Rio de Janeiro
2024
Policlinico S.Orsola-Malpighi
2023
Núcleo de Pesquisas Aplicadas (Brazil)
2015
Universidade de São Paulo
2004-2013
Centre National de la Recherche Scientifique
2011-2012
Laboratoire de Microbiologie et Génétique Moléculaires
2012
Instituto de Botânica
2004-2008
Laboratório Nacional de Computação Científica
2005
Abstract Insertion sequences (ISs) play a key role in prokaryotic genome evolution but are seldom well annotated. We describe web application pipeline, ISsaga ( http://issaga.biotoul.fr/ISsaga/issaga_index.php ), that provides computational tools and methods for high-quality IS annotation. It uses established ISfinder annotation standards permits rapid processing of single or multiple prokaryote genomes. general prediction tools, information on context individual ISs graphical overview...
Carbapenemase-producing Enterobacteriaceae (CPE), which are resistant to most or all known antibiotics, constitute a global threat public health. Transposable elements often associated with antibiotic resistance determinants, suggesting role in the emergence of resistance. One insertion sequence, IS26, is frequently but its remains unclear. We have analyzed genomic contexts 70 IS26 copies several clinical and surveillance CPE isolates from National Institutes Health Clinical Center. used...
Sugarcane is the source of sugar in all tropical and subtropical countries becoming increasingly important for bio-based fuels. However, its large (10 Gb), polyploid, complex genome has hindered based breeding efforts. Here we release largest most diverse set sugarcane sequences to date, as part an on-going initiative provide a genomic information resource, with ultimate goal producing gold standard genome. Three hundred seventeen chiefly euchromatic BACs were sequenced. A reference one...
Abstract The size of bacterial genomes is often associated with organismal metabolic capabilities determining ecological breadth and lifestyle. recently proposed Candidate Phyla Radiation (CPR)/Patescibacteria encompasses mostly unculturable taxa relatively small genome sizes potential for co‐metabolism interdependencies. As yet, little known about the ecology evolution CPR, particularly respect to how they might interact other taxa. Here, we reconstructed two novel (namely, Candidatus...
The ability of bacteria to undergo rapid evolution and adapt changing environmental circumstances drives the public health crisis multiple antibiotic resistance, as well outbreaks disease in economically important agricultural crops animal husbandry. Prokaryotic transposable elements (TE) play a critical role this.
The family Passifloraceae consists of some 700 species classified in around 16 genera. Almost all its members belong to the genus Passiflora. In Brazil, yellow passion fruit (Passiflora edulis) is considerable economic importance, both for juice production and consumption as fresh fruit. availability chloroplast genomes (cp genomes) their sequence comparisons has led a better understanding evolutionary relationships within plant taxa. this study, we obtained complete nucleotide Passiflora...
ABSTRACT The dissemination of resistance among bacteria has been facilitated by the fact that genes are usually located on a diverse and evolving set transmissible plasmids. However, mechanisms generating diversity enabling adaptation within highly successful plasmids have remained obscure, despite their profound clinical significance. To understand these mechanisms, we performed detailed analysis mobilome (the entire mobile genetic element content) previously sequenced...
Whole genome sequencing (WGS) has been used as a powerful technology for molecular epidemiology, surveillance, identification of species and serotype, the sources outbreaks, among other purposes. In Brazil, there is relatively few epidemiological data on Salmonella. this study, 90 Salmonella Typhimurium strains had their sequenced to uncover diversity isolated from humans food, between 1983 2013, different geographic regions in Brazil based single nucleotide polymorphism (SNP) analysis. A...
Lentibulariaceae is the richest family of carnivorous plants spanning three genera including Pinguicula, Genlisea, and Utricularia. Utricularia globally distributed, and, unlike Pinguicula has both aquatic terrestrial forms. In this study we present analysis chloroplast (cp) genome reniformis. U. reniformis a standard cp 139,725bp, encoding gene repertoire similar to essentially all photosynthetic organisms. However, an exclusive combination losses pseudogenization plastid...
ABSTRACT Members of the genus Xanthomonas are among most important phytopathogens. A key feature pathogenesis is translocation type III secretion system (T3SS) effector proteins (T3SEs) into plant target cells via a T3SS. Several T3SEs and murein lytic transglycosylase gene ( mlt , required for citrus canker symptoms) found associated with three transposition-related genes in citri plasmid pXAC64. These flanked by short i nverted r epeats (IRs). The region was identified as transposon, Tn...
Xanthomonas citri subsp. pathotypes cause bacterial citrus canker, being responsible for severe agricultural losses worldwide. The A pathotype has a broad host spectrum, while A* and Aw are more restricted both in hosts geography. Two previous phylogenomic studies led to contrasting well-supported clades sequenced genomes of these pathotypes. No extensive biogeographical or divergence dating analytic approaches have been so far applied available genomes.Based on larger sampling than...
The cyanobacterial genus Nostoc is an important contributor to carbon and nitrogen bioavailability in terrestrial ecosystems a frequent partner symbiotic relationships with non-diazotrophic organisms. However, since this currently polyphyletic genus, the diversity of -like cyanobacteria considerably underestimated at moment. While reviewing phylogenetic placement previously isolated originating from Brazilian Amazon, Caatinga Atlantic forest samples, we detected 17 strains soil, freshwater,...
Utricularia belongs to Lentibulariaceae, a widespread family of carnivorous plants that possess ultra-small and highly dynamic nuclear genomes. It has been shown the Lentibulariaceae genomes have shaped by transposable elements expansion loss, multiple rounds whole-genome duplications (WGD), making platform for evolutionary comparative genomics studies. To explore evolution Utricularia, we estimated chromosome number genome size, as well sequenced terrestrial bladderwort reniformis (2n = 40,...
Xylella fastidiosa is a Gram negative plant pathogen causing many economically important diseases, and analyses of completely sequenced X. genome strains allowed the identification prophage-like elements possibly phage remnants, accounting for up to 15% composition. To better evaluate recent evolution chromosome backbone among distinct pathovars, number location regions on two finished genomes (9a5c Temecula1), in candidate molecules (Ann1 Dixon) were assessed. Based comparative best...
The biosynthesis of quinolinate, the de novo precursor nicotinamide adenine dinucleotide (NAD), may be performed by two distinct pathways, namely, bacterial aspartate (aspartate-to-quinolinate) and eukaryotic kynurenine (tryptophan-to-quinolinate). Even though separation into routes is long established, recent genomic surveys have challenged this view, because certain species also carry genes for pathway. In work, both quinolinate biosynthetic pathways were investigated in Bacteria clade...
Cylindrospermopsis raciborskii is a freshwater cyanobacterial species with increasing bloom reports worldwide that are likely due to factors related climate change. In addition the deleterious effects of blooms on aquatic ecosystems, majority ecotypes can synthesize toxic secondary metabolites causing public health issues. To overcome harmful C. blooms, it important advance knowledge diversity, genetic variation, and evolutionary processes within populations. An efficient approach exploring...
A novel combination of structurally simple, high-rate horizontal anaerobic reactors installed in series was used to treat swine wastewater. The maintained stable pH, alkalinity, and volatile acid levels. Removed chemical oxygen demand (COD) represented 68% the total, average specific methane production 0.30 L CH4 (g removed CODtot)−1. In addition, next-generation sequencing quantitative real-time PCR analyses were explore methane-producing Archaea microbial diversity. At least 94% sludge...
Much of the diversity prokaryotic genomes is contributed by tightly controlled recombination activity transposons (Tns). The Tn3 family arguably one most widespread transposon families. Members carry a large range passenger genes incorporated into their structures. Family members undergo replicative transposition using DDE transposase to generate cointegrate structure which then resolved site-specific between specific DNA sequences (res) on each two Tn copies in cointegrate. These sites also...