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Genome-wide analysis of autophagy-associated genes in foxtail millet (Setaria italica L.) and characterization of the function of SiATG8a in conferring tolerance to nitrogen starvation in rice
- Source :
- BMC Genomics
- Publication Year :
- 2016
- Publisher :
- BioMed Central, 2016.
-
Abstract
- Background Autophagy is a cellular degradation process that is highly evolutionarily-conserved in yeast, plants, and animals. In plants, autophagy plays important roles in regulating intracellular degradation and recycling of amino acids in response to nutrient starvation, senescence, and other environmental stresses. Foxtail millet (Setaria italica) has strong resistance to stresses and has been proposed as an ideal material for use in the study of the physiological mechanisms of abiotic stress tolerance in plants. Although the genome sequence of foxtail millet (Setaria italica) is available, the characteristics and functions of abiotic stress-related genes remain largely unknown for this species. Results A total of 37 putative ATG (autophagy-associated genes) genes in the foxtail millet genome were identified. Gene duplication analysis revealed that both segmental and tandem duplication events have played significant roles in the expansion of the ATG gene family in foxtail millet. Comparative synteny mapping between the genomes of foxtail millet and rice suggested that the ATG genes in both species have common ancestors, as their ATG genes were primarily located in similar syntenic regions. Gene expression analysis revealed the induced expression of 31 SiATG genes by one or more phytohormone treatments, 26 SiATG genes by drought, salt and cold, 24 SiATG genes by darkness and 25 SiATG genes by nitrogen starvation. Results of qRT-PCR showing that among 37 SiATG genes, the expression level of SiATG8a was the highest after nitrogen starvation treatment 24 h, suggesting its potential role in tolerance to nutrient starvation. Moreover, the heterologous expression of SiATG8a in rice improved nitrogen starvation tolerance. Compared to wild type rice, the transgenic rice performed better and had higher aboveground total nitrogen content when the plants were grown under nitrogen starvation conditions. Conclusions Our results deepen understanding about the characteristics and functions of ATG genes in foxtail millet and also identify promising new genetic resources that should be of use in future efforts to develop varieties of foxtail millet and other crop species that have resistance to nitrogen deficiency stress. Electronic supplementary material The online version of this article (doi:10.1186/s12864-016-3113-4) contains supplementary material, which is available to authorized users.
- Subjects :
- 0301 basic medicine
Setaria
Nitrogen
Foxtail millet
Setaria Plant
Autophagy-associated genes
Genome
03 medical and health sciences
Gene Expression Regulation, Plant
Stress, Physiological
Gene Duplication
Botany
Genetics
Autophagy
Gene family
Expression pattern
Gene
Phylogeny
biology
Abiotic stress
Nitrogen deficiency
Nitrogen starvation
Gene Expression Profiling
Functional identification
food and beverages
Chromosome Mapping
Computational Biology
Oryza
Autophagy-Related Protein 8 Family
Exons
biology.organism_classification
Genetically modified rice
Introns
030104 developmental biology
Phenotype
Foxtail
Biotechnology
Research Article
Genome-Wide Association Study
Subjects
Details
- Language :
- English
- ISSN :
- 14712164
- Volume :
- 17
- Database :
- OpenAIRE
- Journal :
- BMC Genomics
- Accession number :
- edsair.doi.dedup.....946ba738a0e846b9a1a2ee57b7ba727d