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Genome-Wide Identification, Characterization, and Expression Analysis of the NAC Transcription Factor in Chenopodium quinoa.
Genes (Basel). 2019 06 30; 10(7)G

Abstract

The NAC (NAM, ATAF, and CUC) family is one of the largest families of plant-specific transcription factors. It is involved in many plant growth and development processes, as well as abiotic/biotic stress responses. So far, little is known about the NAC family in Chenopodium quinoa. In the present study, a total of 90 NACs were identified in quinoa (named as CqNAC1-CqNAC90) and phylogenetically divided into 14 distinct subfamilies. Different subfamilies showed diversities in gene proportions, exon-intron structures, and motif compositions. In addition, 28 CqNAC duplication events were investigated, and a strong subfamily preference was found during the NAC expansion in quinoa, indicating that the duplication event was not random across NAC subfamilies during quinoa evolution. Moreover, the analysis of Ka/Ks (non-synonymous substitution rate/synonymous substitution rate) ratios suggested that the duplicated CqNACs might have mainly experienced purifying selection pressure with limited functional divergence. Additionally, 11 selected CqNACs showed significant tissue-specific expression patterns, and all the CqNACs were positively regulated in response to salt stress. The result provided evidence for selecting candidate genes for further characterization in tissue/organ specificity and their functional involvement in quinoa's strong salinity tolerance.

Authors+Show Affiliations

College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.College of Life Science, Shanxi Datong University, Datong 037009, China. Research and Development Center of Agricultural Facility Technology, Shanxi Datong University, Datong 037009, China.Maize Research Institute, Shanxi Academy of Agricultural Sciences, Xinzhou 034000, China. lingchenhaifeng@163.com.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

31262002

Citation

Li, Feng, et al. "Genome-Wide Identification, Characterization, and Expression Analysis of the NAC Transcription Factor in Chenopodium Quinoa." Genes, vol. 10, no. 7, 2019.
Li F, Guo X, Liu J, et al. Genome-Wide Identification, Characterization, and Expression Analysis of the NAC Transcription Factor in Chenopodium quinoa. Genes (Basel). 2019;10(7).
Li, F., Guo, X., Liu, J., Zhou, F., Liu, W., Wu, J., Zhang, H., Cao, H., Su, H., & Wen, R. (2019). Genome-Wide Identification, Characterization, and Expression Analysis of the NAC Transcription Factor in Chenopodium quinoa. Genes, 10(7). https://doi.org/10.3390/genes10070500
Li F, et al. Genome-Wide Identification, Characterization, and Expression Analysis of the NAC Transcription Factor in Chenopodium Quinoa. Genes (Basel). 2019 06 30;10(7) PubMed PMID: 31262002.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-Wide Identification, Characterization, and Expression Analysis of the NAC Transcription Factor in Chenopodium quinoa. AU - Li,Feng, AU - Guo,Xuhu, AU - Liu,Jianxia, AU - Zhou,Feng, AU - Liu,Wenying, AU - Wu,Juan, AU - Zhang,Hongli, AU - Cao,Huifen, AU - Su,Huanzhen, AU - Wen,Riyu, Y1 - 2019/06/30/ PY - 2019/04/26/received PY - 2019/06/20/revised PY - 2019/06/26/accepted PY - 2019/7/3/entrez PY - 2019/7/3/pubmed PY - 2019/7/3/medline KW - NAC transcription factor family KW - gene expression patterns KW - phylogenetic analysis KW - quinoa (Chenopodium quinoa) JF - Genes JO - Genes (Basel) VL - 10 IS - 7 N2 - The NAC (NAM, ATAF, and CUC) family is one of the largest families of plant-specific transcription factors. It is involved in many plant growth and development processes, as well as abiotic/biotic stress responses. So far, little is known about the NAC family in Chenopodium quinoa. In the present study, a total of 90 NACs were identified in quinoa (named as CqNAC1-CqNAC90) and phylogenetically divided into 14 distinct subfamilies. Different subfamilies showed diversities in gene proportions, exon-intron structures, and motif compositions. In addition, 28 CqNAC duplication events were investigated, and a strong subfamily preference was found during the NAC expansion in quinoa, indicating that the duplication event was not random across NAC subfamilies during quinoa evolution. Moreover, the analysis of Ka/Ks (non-synonymous substitution rate/synonymous substitution rate) ratios suggested that the duplicated CqNACs might have mainly experienced purifying selection pressure with limited functional divergence. Additionally, 11 selected CqNACs showed significant tissue-specific expression patterns, and all the CqNACs were positively regulated in response to salt stress. The result provided evidence for selecting candidate genes for further characterization in tissue/organ specificity and their functional involvement in quinoa's strong salinity tolerance. SN - 2073-4425 UR - https://www.unboundmedicine.com/medline/citation/31262002/Genome_Wide_Identification_Characterization_and_Expression_Analysis_of_the_NAC_Transcription_Factor_in_Chenopodium_quinoa_ L2 - https://www.mdpi.com/resolver?pii=genes10070500 DB - PRIME DP - Unbound Medicine ER -