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Research article
Genome-wide identification, phylogeny, and expression profiling of RWP-RK gene family under low nitrogen and nodulation in Arabidopsis and legumes
Rui Qin
South-Central University for Nationalities
Corresponding Author
ORCiD: https://orcid.org/0000-0003-4093-7044
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background Nitrogen, as a constituent of amino acids and nucleic acids, is an essential macronutrient for all living organisms. The nitrogen-fixation clade (NFC) is a clade, consisting of Fabales, Fagales, Cucurbitales, and Rosales, where all nodulating plants have been originated. The plant-specific RWP-RK family of transcription factors are involved in nitrate responses and play specific roles in nodule inception. In the present study, by investigation of RWP-RKs at genome-wide level and comparative coexpression networks, the roles of RWP-RKs involved in nitrate response and nodulation were analyzed to reveal evolution of RWP-RKs and a possible relationship between nitrogen signaling and nodulation.
Results Here, we systematically investigated 292 RWP-RKs from 26 species of legumes and non-legumes of NFC by whole-genomic analysis and characterized their evolutionary relationships, protein motifs, and gene structures. We compared RWP-RK networks from Arabidopsis thaliana under N-starvation and N-supplementation conditions, as well as transcriptome atlases from Phaseolus vulgaris and Glycine max . This revealed that N starvation, which is essential for nodulation, alters the connectivity of RWP-RKs to other genes, including symbiosis-related genes. Meanwhile, appropriately low concentrations of nitrates stimulate nodulation by regulating RWP-RK expression in P. vulgaris .
Conclusions Our comparative evolutionary analysis of RWP-RKs between A. thaliana and legumes revealed the evolutionary features and the relationship between the nitrate signaling pathway in a model organism and nodulation in legumes.
Keywords
RWP-RK, nitrogen-fixation clade, coexpression network, nitrate signaling, nodulation
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Research article
Genome-wide identification, phylogeny, and expression profiling of RWP-RK gene family under low nitrogen and nodulation in Arabidopsis and legumes
Rui Qin
South-Central University for Nationalities
Corresponding Author
ORCiD: https://orcid.org/0000-0003-4093-7044
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Posted
Version 1
Posted 03 Jan, 2020
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background Nitrogen, as a constituent of amino acids and nucleic acids, is an essential macronutrient for all living organisms. The nitrogen-fixation clade (NFC) is a clade, consisting of Fabales, Fagales, Cucurbitales, and Rosales, where all nodulating plants have been originated. The plant-specific RWP-RK family of transcription factors are involved in nitrate responses and play specific roles in nodule inception. In the present study, by investigation of RWP-RKs at genome-wide level and comparative coexpression networks, the roles of RWP-RKs involved in nitrate response and nodulation were analyzed to reveal evolution of RWP-RKs and a possible relationship between nitrogen signaling and nodulation.
Results Here, we systematically investigated 292 RWP-RKs from 26 species of legumes and non-legumes of NFC by whole-genomic analysis and characterized their evolutionary relationships, protein motifs, and gene structures. We compared RWP-RK networks from Arabidopsis thaliana under N-starvation and N-supplementation conditions, as well as transcriptome atlases from Phaseolus vulgaris and Glycine max . This revealed that N starvation, which is essential for nodulation, alters the connectivity of RWP-RKs to other genes, including symbiosis-related genes. Meanwhile, appropriately low concentrations of nitrates stimulate nodulation by regulating RWP-RK expression in P. vulgaris .
Conclusions Our comparative evolutionary analysis of RWP-RKs between A. thaliana and legumes revealed the evolutionary features and the relationship between the nitrate signaling pathway in a model organism and nodulation in legumes.
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Figure 10