Bioinformatics analysis of <italic>SnRK</italic> gene family and its relation with seed oil content of <italic>Brassica napus</italic> L.

Abstract

<p indent=0mm>Sucrose non-fermenting-1-related protein kinase (SnRK) is a widely existed serine/threonine protein kinase in plants, which is involved in the regulation of biological processes such as signal transduction, stress response and seed growth. In order to explore the mechamism of the <italic>SnRK</italic> gene families and its influence on the seed oil content of<italic> Brassica napus </italic>L., <italic>BnSnRK </italic>gene family system evolution, gene structure, physical and chemical properties of protein, conservative motif, protein secondary structure, <italic>cis</italic>-element and subcellular localization prediction were analyzed, and<italic> BnSnRK</italic> genes affecting oil content of seeds were screened by candidate genes association analysis, haplotype analysis and qRT-PCR. The results showed that 92<italic> BnSnRK</italic> members were identified and divided into three subgroups, distributed on 19 chromosomes of <italic>Brassica napus </italic>L. The physical and chemical properties of proteins were significantly different among subgroups. Most genes had 7–14 exons; the motifs of the same subfamily were more similar in distribution. The<italic> BnSnRK</italic> family was mainly expressed in the cytoplasm. 12 family members related to the oil content were screened out by association analysis in rapeseed. Genes<italic> BnaC02g10730D</italic> might negatively regulate seed oil content, while genes <italic>BnaA07g12290D</italic>, <italic>BnaA10g22850D</italic>,<italic> BnaA08g18050D</italic>, and <italic>BnaC04g44390D</italic> might positively regulate seed oil content of <italic>Brassica napus</italic> L. There were significant differences in seed oil content under different environments, and 12 oil-related members all contained MYB, MYC and ABA response elements. Environment-specific oil-related genes might be related to plant abiotic stress response. This study provides a theoretical basis for<italic> BnSnRK </italic>gene functional verification and breeding.