Genome-Wide Identification, Characterization, and Regulation of RWP-RK Gene Family in the Nitrogen-Fixing Clade
| Autor: | Wen Huang, Hong Liu, Lisha Yi, Rui Qin, Tian-Ge Yang, Jing Wang, Erdai Qin, Zhihua Wu |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0106 biological sciences
0301 basic medicine Plant Science 01 natural sciences Genome Article Transcriptome nitrogen-fixing clade 03 medical and health sciences Phylogenetics evolution RWP-RK Arabidopsis thaliana Gene family nodulation Clade Gene Ecology Evolution Behavior and Systematics Genetics co-expression network Ecology biology Phylogenetic tree Botany biology.organism_classification 030104 developmental biology QK1-989 010606 plant biology & botany |
| Zdroj: | Plants, Vol 9, Iss 1178, p 1178 (2020) Plants Volume 9 Issue 9 |
| ISSN: | 2223-7747 |
| Popis: | RWP-RK is a plant-specific family of transcription factors, involved in nitrate response, gametogenesis, and nodulation. However, genome-wide characterization, phylogeny, and the regulation of RWP-RK genes in the nodulating and non-nodulating plant species of nitrogen-fixing clade (NFC) are widely unknown. Therefore, we identified a total of 292 RWP-RKs, including 278 RWP-RKs from 25 NFC species and 14 RWP-RKs from the outgroup, Arabidopsis thaliana. We classified the 292 RWP-RKs in two subfamilies: the NIN-like proteins (NLPs) and the RWP-RK domain proteins (RKDs). The transcriptome and phylogenetic analysis of RWP-RKs suggested that, compared to RKD genes, the NLP genes were just upregulated in nitrate response and nodulation. Moreover, nodule-specific NLP genes of some nodulating NFC species may have a common ancestor (OG0002084) with AtNLP genes in A. thaliana. Further, co-expression networks of A.thaliana under N-starvation and N-supplementation conditions revealed that there is a higher correlation between expression of AtNLP genes and symbiotic genes during N-starvation. In P. vulgaris, we confirmed that N-starvation stimulated nodulation by regulating expression of PvNLP2, closely related to AtNLP6 and AtNLP7 with another common origin (OG0004041). Taken together, we concluded that different origins of the NLP genes involved in both N-starvation response and specific expression of nodulation would contribute to the evolution of nodulation in NFC plant species. Our results shed light on the phylogenetic relationships of NLP genes and their differential regulation in nitrate response of A. thaliana and nodulation of NFC. |
| Databáze: | OpenAIRE |
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