Genome-Wide Identification and Expression Analysis of Dof Transcription Factors in Lotus (Nelumbo nucifera Gaertn.)

Abstract

Lotus (Nelumbo nucifera Gaertn.) is a traditional Chinese aquatic flower with high ornamental and economic value, but water salinity seriously affects lotus cultivation and distribution. The Dof transcription factors (TFs) play a crucial function in the regulatory network of growth and defense in plants. However, no systematic investigations of the Dof TFs in lotus have been performed. In this study, comprehensive searches of the lotus genome yielded 29 potential NnDofs. We carried out a series of standardized analyses, which include physical properties, multiple sequence alignment, phylogenetic analysis, gene structure, motif composition, cis-acting element prediction, chromosome distribution, and synteny analysis. The results showed that segment duplication probably caused the NnDofs gene family expansion. The potential functions of NnDofs in lotus development and stress conditions are speculated by promoter analysis. Furthermore, a complete expression investigation of NnDofs utilizing an RNA-seq atlas and quantitative real-time polymerase chain reaction (qRT-PCR) was performed. The majority of the NnDofs exhibit tissue-specific expression patterns, and many genes have been identified as being extremely sensitive to salt stressors. Overall, this study is the first to report a genome-wide assessment of the Dof family in lotus, and the findings offer vital insights for prospective functional studies on lotus salinity stress.

Identification and characterization of Dof genes in Cerasus humilis

“…Among these elements, those involved in the response to plant hormones including ABA, biotic stress, abiotic stresses including low temperature and light, and plant growth and development response were the most abundant ( Figure 6 ). These results are very similar to the results of cis-acting element analysis in lotus, indicating that the composition of Dof gene promoters is also relatively conserved ( Cao et al., 2022 ). Storage or transport at low temperature is commonly used to extend the shelf-life of fruits and vegetables after harvest.…”

Discovery and exploration of genes related to important agronomic traits in fruit trees

“…Among these elements, those involved in the response to plant hormones including ABA, biotic stress, abiotic stresses including low temperature and light, and plant growth and development response were the most abundant (Figure 6). These results are very similar to the results of cis-acting element analysis in lotus, indicating that the composition of Dof gene promoters is also relatively conserved (Cao et al, 2022). Storage or transport at low temperature is commonly used to extend the shelflife of fruits and vegetables after harvest.…”

Identification and functional analysis of the DOF gene family in Populus simonii: implications for development and stress response

“…During this study, we identified active elements, including light responsive, hormone responsive, and abiotic stress responsive elements, within PSDOFs . These elements play crucial roles in plant growth and development, closely resembling the cis-acting elements analyzed in wheat ( Liu et al., 2020 ), lotus ( Cao et al., 2022 ), and blueberry ( Li et al., 2022b ). These studies also indicate that the composition of DOF gene promoter elements is relatively conserved, and the associated DOF genes play roles in growth, development, and stress responses.…”