The rubber tree kinome: Genome-wide characterization and insights into coexpression patterns associated with abiotic stress responses

Autor(es)

dos Santos, Lucas Borges ; Aono, Alexandre Hild ; Francisco, Felipe Roberto ; da Silva, Carla Cristina ; Souza, Livia Moura ; de Souza, Anete Pereira

• Tipo de documento: Artigo Científico
• Fonte: FRONTIERS IN PLANT SCIENCE; v. 14, p. 14-pg., 2023-02-07.

Resumo

The protein kinase (PK) superfamily constitutes one of the largest and most conserved protein families in eukaryotic genomes, comprising core components of signaling pathways in cell regulation. Despite its remarkable relevance, only a few kinase families have been studied in Hevea brasiliensis. A comprehensive characterization and global expression analysis of the PK superfamily, however, is currently lacking. In this study, with the aim of providing novel inferences about the mechanisms associated with the stress response developed by PKs and retained throughout evolution, we identified and characterized the entire set of PKs, also known as the kinome, present in the Hevea genome. Different RNA-sequencing datasets were employed to identify tissue-specific expression patterns and potential correspondences between different rubber tree genotypes. In addition, coexpression networks under several abiotic stress conditions, such as cold, drought and latex overexploitation, were employed to elucidate associations between families and tissues/stresses. A total of 1,809 PK genes were identified using the current reference genome assembly at the scaffold level, and 1,379 PK genes were identified using the latest chromosome-level assembly and combined into a single set of 2,842 PKs. These proteins were further classified into 20 different groups and 122 families, exhibiting high compositional similarities among family members and with two phylogenetically close species Manihot esculenta and Ricinus communis. Through the joint investigation of tandemly duplicated kinases, transposable elements, gene expression patterns, and coexpression events, we provided insights into the understanding of the cell regulation mechanisms in response to several conditions, which can often lead to a significant reduction in rubber yield. (AU)

• Processo FAPESP: 19/19340-2 - O quinoma de seringueira: classificação funcional e padrões de expressão em resposta ao frio
• Beneficiário: Lucas Borges dos Santos
• Modalidade de apoio: Bolsas no Brasil - Iniciação Científica
• Processo FAPESP: 18/18985-7 - Mapa genético integrado e seleção genômica ampla visando caracteres de importância econômica em seringueira
• Beneficiário: Felipe Roberto Francisco
• Modalidade de apoio: Bolsas no Brasil - Doutorado Direto
• Processo FAPESP: 19/03232-6 - Seleção genômica ampla em cana-de-açúcar via aprendizado de máquina e redes complexas para caracteres de importância econômica
• Beneficiário: Alexandre Hild Aono
• Modalidade de apoio: Bolsas no Brasil - Doutorado Direto