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