Publicações

Artigos publicados a partir de dados gerados na Unidade de Genômica Computacional Darcy Fontoura de Almeida.

 

  1. Metagenome enrichment approach used for selection of oil-degrading bacteria consortia for drill cutting residue bioremediation. Environmental Pollution, 2018.
  2. Comparative Genomic Analysis of a Clinical Isolate of Klebsiella quasipneumoniae subsp. similipneumoniae, a KPC-2 and OKP-B-6 Beta-Lactamases Producer Harboring Two Drug-Resistance Plasmids from Southeast Brazil. Frontiers in Microbiology, 2018.
  3. A comparative in silico linear B-cell epitope prediction and characterization for South American and African Trypanosoma vivax strains. Genomics, 2018.
  4. Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota). Studies in Mycology,2017.
  5. The costa of trichomonads: A complex macromolecular cytoskeleton structure made of uncommon proteins, 2017.
  6. Draft Genome Sequence of Strain K. Genome Announcements, 2017.
  7. Microbiome overview in swine lungs. PLoS One, 2017.
  8. Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. PLoS Neglected Tropical Diseases, 2017.
  9. Complete genome sequence of community-associated methicillin-resistant Staphylococcus aureus (strain USA400-0051), a prototype of the USA400 clone. MemÓrias do Instituto Oswaldo Cruz, 2017.
  10. Cryptococcal dissemination to the central nervous system requires the vacuolar calcium transporter Pmc1. Cellular Microbiology, 2017.
  11. Impact of long-term cropping of glyphosate-resistant transgenic soybean [Glycine max (L.) Merr.] on soil microbiome. Transgenic Research, 2016.
  12. Shifts in taxonomic and functional microbial diversity with agriculture: How fragile is the Brazilian Cerrado?. BMC Microbiology (Online), 2016.
  13. Adaptive processes of Staphylococcus aureus isolates during the progression from acute to chronic bone and joint infections in patients. Cellular Microbiology, 2016.
  14. The complete mitochondrial genome of Crassostrea gasar (Bivalvia: Ostreidae). Mitochondrial DNA, 2016.
  15. Metagenomic analysis of sediments under seaports influence in the Equatorial Atlantic Ocean. Science of the Total Environment, 2016.
  16. Complete genome sequence of an agr-dysfunctional variant of the ST239 lineage of the methicillin-resistant Staphylococcus aureus strain GV69 from Brazil. Standards in Genomic Sciences, 2016.
  17. Culture-independent characterization of novel psychrophilic magnetotactic cocci from Antarctic marine sediments. Environmental Microbiology, 2016.
  18. Genome of Rhizobium leucaenae strains CFN 299T and CPAO 29.8: searching for genes related to a successful symbiotic performance under stressful conditions. BMC Genomics,  2016.
  19. Insights on the virulence of swine respiratory tract mycoplasmas through genome-scale metabolic modeling. BMC Genomics, 2016.
  20. Complete genome sequence of the MRSA isolate HC1335 from ST239 lineage displaying a truncated AgrC histidine kinase receptor. Genome Biology and Evolution, 2016.
  21. Exploratory Investigation of Bacteroides fragilis Transcriptional Response during In vitro Exposure to Subinhibitory Concentration of Metronidazole. Frontiers in Microbiology, 2016.
  22. Mycoplasma non-coding RNA: identification of small RNAs and targets. BMC Genomics, 2016.
  23. Secondary metabolite gene clusters in the entomopathogen fungus Metarhizium anisopliae: genome identification and patterns of expression in a cuticle infection model. BMC Genomics, 2016.
  24. The polymyxin B-induced transcriptomic response of a clinical, multidrug-resistant Klebsiella pneumoniae involves multiple regulatory elements and intracellular targets. BMC Genomics, 2016.
  25. Combined genomic and structural analyses of a cultured magnetotactic bacterium reveals its niche adaptation to a dynamic environment. BMC Genomics,, 2016.
  26. Intraclonal Genome Stability of the Metallo-β-lactamase SPM-1-producing Pseudomonas aeruginosa ST277, an Endemic Clone Disseminated in Brazilian Hospitals. Frontiers in Microbiology, 2016.
  27. Isolation of Infective Zika Virus from Urine and Saliva of Patients in Brazil. PLoS Neglected Tropical Diseases,2016.
  28. Comparative metagenome of a stream impacted by the urbanization phenomenon. Brazilian Journal of Microbiology, 2016.
  29. Metagenomic analysis reveals microbial functional redundancies and specificities in a soil under different tillage and crop-management regimes. Applied Soil Ecology, 2015.
  30. Peroxide sensing and signaling in the Sporothrix schenckii complex: an in silico analysis to uncover putative mechanisms regulating the Hog1 and AP-1 like signaling pathways. Medical Mycology, 2015.
  31. Draft Genome Sequences of Six Actinobacillus pleuropneumoniae Serotype 8 Brazilian Clinical Isolates: Insight into New Applications. Genome Announcements, 2015.
  32. Biochemical and phylogenetic analyses of phosphatidylinositol production in Angomonas deanei, an endosymbiont-harboring trypanosomatid. Parasites & Vectors, 2015.
  33. Characterization of BKC-1 class A carbapenemase from Klebsiella pneumoniae clinical isolates in Brazil. Antimicrobial Agents and Chemotherapy, 2015.
  34. Chromosomal copy number variation reveals differential levels of genomic plasticity in distinct Trypanosoma cruzi strains. BMC Genomics, 2015.
  35. Genome Sequence of Bradyrhizobium tropiciagri Strain CNPSo 1112 , Isolated from a Root Nodule of Neotonia wightii. Genome Announcements, 2015.
  36. Genome Sequence of Bradyrhizobium viridifuturi Strain SEMIA 690 , a Nitrogen-Fixing Symbiont of Centrosema pubescens. Genome Announcements, 2015.
  37. Complete chloroplast genome of the orchid Cattleya crispata (Orchidaceae:Laeliinae), a neotropical repiculous species. Mitochondrial DNA, 2015.
  38. Comparative genomics of the major fungal agents of human and animal Sporotrichosis: Sporothrix schenckii and Sporothrix brasiliensis. BMC Genomics, 2014.
  39. Unravelling the Transcriptome Profile of the Swine Respiratory Tract Mycoplasmas. Plos One, 2014.
  40. Genomic Analyses and Transcriptional Profiles of the Glycoside Hydrolase Family 18 Genes of the Entomopathogenic Fungus Metarhizium anisopliae. Plos One, 2014.
  41. Comparative genome analysis of entomopathogenic fungi reveals a complex set of secreted proteins. BMC Genomic, 2014.
  42. Genome of the Avirulent Human-Infective Trypanosome-Trypanosoma rangeli. PLoS Neglected. Tropical Disease, 2014.
  43. Mitochondrial respiration and genomic analysis provide insight into the influence of the symbiotic bacterium on host trypanosomatid oxygen consumption. Parasitology, 2014.
  44. The complete genome of Burkholderia phenoliruptrix strain BR3459a, a symbiont of Mimosa flocculosa: highlighting the coexistence of symbiotic and pathogenic genes. BMC Genomics, 2014.
  45. Draft Genome Sequence of the D-Xylose-Fermenting Yeast Spathaspora arborariae UFMG-HM19.1AT. Genome Announcements, 2014.
  46. Comparative analysis of the complete genome of KPC-2-producing Klebsiella pneumoniae Kp13 reveals remarkable genome plasticity and a wide repertoire of virulence and resistance mechanisms. BMC Genomics, 2014.
  47. Trypanosoma cruzi Clone Dm28c Draft Genome Sequence. Genome Announcement, 2014.
  48. Isolation, cultivation and genomic analysis of magnetosome biomineralization genes of a new genus of South-seeking magnetotactic cocci within the Alphaproteobacteria. Frontiers in Microbiology, 2014.
  49. De novo transcriptome analysis of Hevea brasiliensis tissues by RNA-seq and screening for molecular markers. BMC Genomics, 2014.
  50. Taxonomic and functional profiles of soil samples from Atlantic forest and Caatinga biomes in northeastern Brazil. MicrobiologyOpen, 2014.
  51. Comparative genomics of Bradyrhizobium japonicum CPAC 15 and Bradyrhizobium diazoefficiens CPAC 7: elite model strains for understanding symbiotic performance with soybean. BMC Genomics, 2014.
  52. Empirical assessment of sequencing errors for high throughput pyrosequencing data. BMC Research Notes, 2013.
  53. Monophyletic Origin of Magnetotaxis and the First Magnetosomes. Environmental Microbiolog, 2013.
  54. Predicting the Proteins of Angomonas deanei, Strigomonas culicis and Their Respective Endosymbionts Reveals New Aspects of the Trypanosomatidae Family. Plos One, 2013.
  55. New insights on the biology of swine respiratory tract mycoplasmas from a comparative genome analysis. BMC Genomics, 2013
  56. The Genome of Anopheles darlingi, the main neotropical malaria vector. Nucleic Acids Research, 2013.
  57. A potential source for cellulolytic enzyme discovery and environmental aspects revealed through metagenomincs of Brazilian mangroves. AMB Express, 2013.
  58. New insights on the Golgi complex of Tritrichomonas foetus. Parasitology, 2013.
  59. Biosynthesis of Vitamins and Cofactors in Bacterium-Harbouring Trypanosomatids Depends on the Symbiotic Association as Revealed by Genomic Analyses. Plos One, 2013.
  60. Deciphering unusual uncultured magnetotactic multicellular prokaryotes through genomics. The ISME Journal, 2013.
  61. Soil metagenomics reveals differences under conventional and no-tillage with crop rotation or succession. Applied Soil Ecology, 2013.
  62. Complete Genome Sequence of a Variant of the Methicillin-Resistant Staphylococcus aureus ST239 Lineage, Strain BMB9393, Displaying Superior Ability To Accumulate ica-Independent Biofilm. Genome Announcements, 2013.
  63. Comparative Genomic Analysis of Magnetotactic Bacteria from the Deltaproteobacteria Provides New Insights into Magnetite and Greigite Magnetosome Genes Required for Magnetotaxis. Environmental Microbiology (Print), 2013
  64. Endosymbiosis in trypanosomatids: the genomic cooperation between bacterium and host in the synthesis of essential amino acids is heavily influenced by multiple horizontal gene transfers. BMC Evolutionary Biology (Online), 2013.
  65. Abrolhos Bank Reef Health Evaluated by Means of Water Quality, Microbial Diversity, Benthic Cover, and Fish Biomass Data. Plos One, 2012.
  66. Xylella fastidiosa comparative genomic database is an information resource to explore the annotation, genomic features, and biology of different strains. Genetics and Molecular Biology (Print), 2012.
  67. Gut Bacterial Communities in the Giant Land Snail Achatina fulica and Their Modification by Sugarcane-Based Diet. Plos One, 2012.
  68. Taxonomic and Functional Microbial Signatures of the Endemic Marine Sponge Arenosclera brasiliensis. Plos One, 2012.
  69. Soil bacterial community abundance and diversity in ice-free areas of Keller Peninsula, Antarctica. Applied Soil Ecology (Print), 2012.
  70. Analysis of Composition-Based Metagenomic Classification. BMC Genomics, 2012.
  71. Pyrosequencing-based analysis reveals a novel capsular gene cluster in a KPC-producing Klebsiella pneumoniae clinical isolate identified in Brazil. BMC Microbiology (Online), 2012.
  72. Complete genome sequence of Burkholderia phenoliruptrix BR3459a (= CLA1), a heat-tolerant nitrogen-fixing symbiont of Mimosa flocculosa. Journal of Bacteriology (Print), 2012.
  73. Metagenomic Analysis of the Microbiota from the Crop of an Invasive Snail Reveals a Rich Reservoir of Novel Genes. Plos One, 2012.
  74. Genomic basis of broad host range and environmental adaptability of Rhizobium tropici CIAT 899 and Rhizobium sp. PRF 81 which are used in inoculants for common bean (Phaseolus vulgaris L.). BMC Genomics, 2012.
  75. Metagenomics of the Water Column in the Pristine Upper Course of the Amazon River. Plos One, 2011.
  76. Distinct patterns of somatic alterations in a lymphoblastoid and a tumor genome derived from the same individual.  Nucleic Acids Research, 2011.
  77. Common ancestry of iron oxide- and iron-sulfidebased biomineralization in magnetotactic bacteria. The ISME Journal, 2011.
  78. Genomic insights into the versatility of the plant growth-promoting bacterium Azospirillum amazonense. BMC Genomics, 2011.
  79. Systematic detection of putative tumor suppressor genes through the combined use of exome and transcriptome sequencing. Genome Biology (Print), 2010.