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Open AccessArticle

Characterization and Functional Divergence of a Novel DUF668 Gene Family in Rice Based on Comprehensive Expression Patterns

1
State Key Laboratory for Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan 430072, China
2
Key Laboratory of Crop Physiology, Ecology and Genetic Breeding (Jiangxi Agricultural University), Ministry of Education of the P.R. China, Nanchang 330045, Jiangxi, China
3
Southern Regional Collaborative Innovation Center for Grain and Oil Crops in China, Changsha 410128, Hunan, China
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Genes 2019, 10(12), 980; https://doi.org/10.3390/genes10120980
Received: 19 October 2019 / Revised: 24 November 2019 / Accepted: 26 November 2019 / Published: 28 November 2019
(This article belongs to the Section Plant Genetics and Genomics)
The domain of unknown function (DUF) superfamily encodes proteins of unknown functions in plants. Among them, DUF668 family members in plants possess a 29 amino-acid conserved domain, and this family has not been described previously. Here, we report this plant-specific novel DUF668 gene family containing 12 OsDUF668 genes in rice (Oryza sativa) and 91 DUF668s for the other seven plant species. In our study, DUF668 genes were present in both dicot and monocot plants, indicating that DUF668 is a conserved gene family that originated by predating the dicot–monocot divergence. Based on the gene structure and motif composition, the DUF668 family consists of two distinct clades, I and II in the phylogenetic tree. Remarkably, OsDUF668 genes clustered on the chromosomes merely show close phylogenetic relationships, suggesting that gene duplications or collinearity seldom happened. Cis-elements prediction display that over 80% of DUF668s contain phytohormone and light responsiveness factors. Further comprehensive experimental analyses of the OsDUF668 family are implemented in 22 different tissues, five hormone treatments, seven environmental factor stresses, and two pathogen-defense related stresses. The OsDUF668 genes express ubiquitously in analyzed rice tissues, and seven genes show tissue-specific high expression profiles. All OsDUF668s respond to drought, and some of Avr9/Cf-9 rapidly elicited genes resist to salt, wound, and rice blast with rapidly altered expression patterns. These findings imply that OsDUF668 is essential for drought-enduring and plant defense. Together, our results bring the important role of the DUF668 gene family in rice development and fitness to the fore.
Keywords: DUF668 gene family; rice; phylogenetic analysis; expression patterns; stress DUF668 gene family; rice; phylogenetic analysis; expression patterns; stress
MDPI and ACS Style

Zhong, H.; Zhang, H.; Guo, R.; Wang, Q.; Huang, X.; Liao, J.; Li, Y.; Huang, Y.; Wang, Z. Characterization and Functional Divergence of a Novel DUF668 Gene Family in Rice Based on Comprehensive Expression Patterns. Genes 2019, 10, 980.

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    Doi: 10.5281/zenodo.3509852
    Link: https://zenodo.org/deposit/3509852
    Description: Figure S1. Chromosomal locations of DUF668 genes in rice. Different colors of OsDUF668s represent the members from different subfamilies. Table S1. Primers for qRT-PCR Table S2. Reference genes for each experimental condition Table S3. DUF668 gene family number in 62 plant species. Table S4. Summary of information on DUF668 genes from seven other plants Table S5. Annotation of conserved motifs in DUF668 proteins
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