SCANNING ELECTRON MICROSCOPY OF THE Pars Stridens OF Gryllus: TAXONOMIC IMPORTANCE.

The genus Gryllus has several cryptic species, which cannot be distinguished by external morphological characters. The present paper analyses the pars stridens of 7 species under the scanning electron microscope. The results showed that the pars stridens of the species have morphological differences on teeth shape. Based on these results, we propose that an analysis of the pars stridens under the scanning electron microscope should always be performed in order to reveal characters utilized in Gryllus taxonomy, especially if associated with pars stridens morphometric data. Key words: Gryllus, pars stridens, SEM, Cryptic species

Unraveling RNA dynamical behavior of TPP riboswitches: a comparison between Escherichia coli and Arabidopsis thaliana

Submitted by Manoel Barata ([email protected]) on 2019-04-30T15:50:52Z No. of bitstreams: 1 41598_2019_Article_40875.pdf: 8041209 bytes, checksum: a824ccf0635d7165f090a5ce2df9c212 (MD5)Approved for entry into archive by Manoel Barata ([email protected]) on 2019-05-20T15:06:54Z (GMT) No. of bitstreams: 1 41598_2019_Article_40875.pdf: 8041209 bytes, checksum: a824ccf0635d7165f090a5ce2df9c212 (MD5)Made available in DSpace on 2019-05-20T15:06:54Z (GMT). No. of bitstreams: 1 41598_2019_Article_40875.pdf: 8041209 bytes, checksum: a824ccf0635d7165f090a5ce2df9c212 (MD5) Previous issue date: 2019Fundação Oswaldo Cruz. Presidência. Programa de Computação Científica. Grupo de Biofísica Computacional e Modelagem Molecular. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Genômica Funcional e Bioinformática. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Presidência. Programa de Computação Científica. Grupo de Biofísica Computacional e Modelagem Molecular. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Genômica Funcional e Bioinformática. Rio de Janeiro, RJ, Brasil / Fundação Oswaldo Cruz. Instituto Carlos Chagas. Laboratório de Regulação da Expressão Gênica. Curitiba, PR, Brasil.Fundação Oswaldo Cruz. Presidência. Programa de Computação Científica. Grupo de Biofísica Computacional e Modelagem Molecular. Rio de Janeiro, RJ, Brasil.Riboswitches are RNA sensors that affect post-transcriptional processes through their ability to bind to small molecules. Thiamine pyrophosphate (TPP) riboswitch class is the most widespread riboswitch occurring in all three domains of life. Even though it controls different genes involved in the synthesis or transport of thiamine and its phosphorylated derivatives in bacteria, archaea, fungi, and plants, the TPP aptamer has a conserved structure. In this study, we aimed at understanding differences in the structural dynamics of TPP riboswitches from Escherichia coli and Arabidopsis thaliana, based on their crystallographic structures (TPPswec and TPPswat, respectively) and dynamics in aqueous solution, both in apo and holo states. A combination of Molecular Dynamics Simulations and Network Analysis empowered to find out slight differences in the dynamical behavior of TPP riboswitches, although relevant for their dynamics in bacteria and plants species. Our results suggest that distinct interactions in the microenvironment surrounding nucleotide U36 of TPPswec (and U35 in TPPswat) are related to different responses to TPP. The network analysis showed that minor structural differences in the aptamer enable enhanced intramolecular communication in the presence of TPP in TPPswec, but not in TPPswat. TPP riboswitches of plants present subtler and slower regulation mechanisms than bacteria do

RNA-seq transcriptional profiling of Herbaspirillum seropedicae colonizing wheat (Triticum aestivum) roots

Submitted by Luciane Willcox ([email protected]) on 2016-10-13T15:09:16Z No. of bitstreams: 1 RNA-seq transcriptional profiling.pdf: 1083112 bytes, checksum: 495932b4bc48644bb23802afc8fea605 (MD5)Approved for entry into archive by Luciane Willcox ([email protected]) on 2016-10-13T15:19:22Z (GMT) No. of bitstreams: 1 RNA-seq transcriptional profiling.pdf: 1083112 bytes, checksum: 495932b4bc48644bb23802afc8fea605 (MD5)Made available in DSpace on 2016-10-13T15:19:22Z (GMT). No. of bitstreams: 1 RNA-seq transcriptional profiling.pdf: 1083112 bytes, checksum: 495932b4bc48644bb23802afc8fea605 (MD5) Previous issue date: 2016-01-22The Brazilian Program of National Science and Technology Institute/INCT for BNFUniversidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, BrasilUniversidade Estadual de Londrina. Departamento de Bioquímica e Biotecnologia, Londrina, PR, Brasil.Universidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, Brasil.Universidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, Brasil.Universidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, Brasil.Universidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, Brasil.Universidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, Brasil.Universidade Federal do Paraná. Departamento de Biologia Celular. Curitiba, PR, Brasil.Instituto Nacional do Câncer. Coordenação de Pesquisa Clínica. Unidade de Bioinformática. Rio de Janeiro, RJ, Brasil. / Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Genômica Funcional e Bioinformática. Rio de Janeiro, RJ, Brasil.Instituto Nacional do Câncer. Coordenação de Pesquisa Clínica. Unidade de Bioinformática. Rio de Janeiro, RJ, Brasil. / Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Genômica Funcional e Bioinformática. Rio de Janeiro, RJ, Brasil.Universidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, Brasil.Universidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, Brasil.Universidade Federal do Paraná. Departamento de Bioquímica e Biologia Molecular. Curitiba, PR, Brasil.Herbaspirillum seropedicae is a diazotrophic and endophytic bacterium that associates with economically important grasses promoting plant growth and increasing productivity. To identify genes related to bacterial ability to colonize plants, wheat seedlings growing hydroponically in Hoagland's medium were inoculated with H. seropedicae and incubated for 3 days. Total mRNA from the bacteria present in the root surface and in the plant medium were purified, depleted from rRNA and used for RNA-seq profiling. RT-qPCR analyses were conducted to confirm regulation of selected genes. Comparison of RNA profile of root attached and planktonic bacteria revealed extensive metabolic adaptations to the epiphytic life style. These adaptations include expression of specific adhesins and cell wall re-modeling to attach to the root. Additionally, the metabolism was adapted to the microxic environment and nitrogen-fixation genes were expressed. Polyhydroxybutyrate (PHB) synthesis was activated, and PHB granules were stored as observed by microscopy. Genes related to plant growth promotion, such as auxin production were expressed. Many ABC transporter genes were regulated in the bacteria attached to the roots. The results provide new insights into the adaptation of H. seropedicae to the interaction with the plant