Coexpression and Transcriptome analyses identify active Apomixis-related genes in Paspalum notatum leaves

Autor(es)

de Oliveira, Fernanda A. ^[1] ; Vigna, Bianca B. Z. ^[2] ; da Silva, Carla C. ^[1] ; Favero, Alessandra P. ^[2] ; de Matta, Frederico P. ^[2] ; Azevedo, Ana L. S. ^[3] ; de Souza, Anete P. ^{[4, 1]}

Afiliação do(s) autor(es)

^[1] Univ Estadual Campinas UNICAMP, CBMEG, Campinas, SP - Brazil

^[2] Embrapa Pecuaria Sudeste, Sao Carlos, SP - Brazil

^[3] Embrapa Gado Leite, Juiz De Fora, MG - Brazil

^[4] Univ Estadual Campinas, Inst Biol, Dept Biol Vegetal, Campinas, SP - Brazil

• Tipo de documento: Artigo Científico
• Fonte: BMC Genomics; v. 21, n. 1 JAN 28 2020.
• Citações Web of Science: 0

Resumo

Background Paspalum notatum exhibits both sexual and apomictic cytotypes and, thus, is considered a good model for studies of apomixis because it facilitates comparative approaches. In this work, transcriptome sequencing was used to compare contrasting P. notatum cytotypes to identify differential expression patterns and candidate genes involved in the regulation of expression of this trait. Results We built a comprehensive transcriptome using leaf and inflorescence from apomictic tetraploids and sexual diploids/tetraploids and a coexpression network based on pairwise correlations between transcript expression profiles. We identified genes exclusively expressed in each cytotype and genes differentially expressed between pairs of cytotypes. Gene Ontology enrichment analyses were performed to better interpret the data. We de novo assembled 114,306 reference transcripts. In total, 536 candidate genes possibly associated with apomixis were detected through statistical analyses of the differential expression data, and several interacting genes potentially linked to the apomixis-controlling region, genes that have already been reported in the literature, and their neighbors were transcriptionally related in the coexpression network. Conclusions Apomixis is a highly desirable trait in modern agriculture due to the maintenance of the characteristics of the mother plant in the progeny. The reference transcriptome, candidate genes and their coexpression network identified in this work represent rich resources for future grass breeding programs. (AU)

• Processo FAPESP: 08/52197-4 - Genomic-assisted breeding of sugarcane: using molecular markers for understanding the genetic architecture of quantitative traits and to implement marker assisted selection
• Beneficiário: Anete Pereira de Souza
• Modalidade de apoio: Auxílio à Pesquisa - Programa BIOEN - Temático
• Processo FAPESP: 18/18527-9 - Relações filogenéticas e identificação de marcadores para apomixia e espécie-específicos do grupo Plicatula em genomas poliplóides de Paspalum
• Beneficiário: Fernanda Ancelmo de Oliveira
• Modalidade de apoio: Bolsas no Brasil - Pós-Doutorado
• Processo FAPESP: 15/24346-9 - Análise da variação alélica em genes de importância econômica entre regiões hom(e)ólogas do genoma de cana-de-açúcar (Saccharum spp.)
• Beneficiário: Carla Cristina da Silva
• Modalidade de apoio: Bolsas no Brasil - Pós-Doutorado