数字农科院2.0

Genome-Wide Identification of NLP Gene Families and Haplotype Analysis of SiNLP2 in Foxtail Millet (Setaria italica)

文献类型： 外文期刊

作者： Yanming Bai;Juncheng Wang;Wensi Tang;Daizhen Sun;Shuguang Wang;Kai Chen;Yongbin Zhou;Chunxiao Wang;Jun Chen;Zhaoshi Xu;Ming Chen;Huajun Wang;Youzhi Ma

作者机构：

关键词： haplotype;millet;nitrogen;NLP transcription factor

期刊名称： International Journal of Molecular Sciences

ISSN： 1661-6596

年卷期： 2024 年 25 卷 23 期

页码：

收录情况： SCIE（2024版）

摘要： Nitrogen is a critical factor in plant growth, development, and crop yield. NODULE-INCEPTION-like proteins (NLPs), which are plant-specific transcription factors, function as nitrate sensors and play a vital role in the nitrogen response of plants. However, the genome-wide identification of the NLP gene family, the elucidation of the underlying molecular mechanism governing nitrogen response, and haplotype mining remain elusive in millet. In this study, we identified seven members of the NLP gene family in the millet genome and systematically analyzed their physicochemical properties. Evolutionary tree analysis indicated that SiNLP members can be classified into three subgroups, with NLP members from the same species preferentially grouped together within each subgroup. Analysis of gene structure characteristics revealed that all SiNLP members contained 10 conserved motifs, as well as the RWP-RK and PB1 domains, indicating that these motifs and domains have been relatively conserved throughout evolution. Additionally, we identified a significant abundance of response elements related to hormones, stress, growth, and development within the promoter regions of SiNLP members, suggesting that these members are involved in regulating diverse physiological processes in millet. Transcriptome data under low-nitrogen conditions showed significant differences in the expression profiles of SiNLP2 and SiNLP4 compared to the other members. RNA-seq and qRT-PCR results demonstrated that SiNLP2 significantly responds to low-nitrogen stress. Notably, we found that SiNLP2 is involved in nitrogen pathways by regulating the expression of the SiNAR2.1A, SiNAR2.1B, SiNRT1.1, and SiNR2 genes. More importantly, we identified an elite haplotype, Hap2, of SiNLP2, which is gradually being utilized in the breeding process. Our study established a foundation for a comprehensive understanding of the SiNLP gene family and provided gene resources for variety improvement and marker-assisted selection breeding.

分类号：

  • 相关文献

[1]Synthetical Weather Index Insurance Product D.esign - A Case O f Millet In Wuzhai, Shanxi. Wang, Yueqin,Nie, Qian,Zhang, Qiao,Zhao, Sijian. 2018

[2]Metabolic Variation And Cooking Qualities O.f Millet Cultivars Grown B oth Organically And Conventionally. Liang, Kehong,Zhu, Hong,Zhu, Dazhou,Lu, Lingang,Lu, Lingang,Liang, Kehong,Zhu, Dazhou,Zhang, Min,Liang, Shan,Liu, Peng,Zhang, Min,Zhu, Hong,Liu, Peng,Liang, Shan. 2018

[3]The effect of low water content on seed longevity. Hu, CL,Zhang, YL,Tao, M,Hu, XR,Jiang, CY. 1998

[4]Millet Grain As A Candidate A.ntioxidant Food Resource: A R eview. Liang, Kehong,Liang, Kehong,Liang, Shan,Liang, Shan. 2019

[5]Effect of Different Processing Methods on the Millet Polyphenols and Their Anti-diabetic Potential. Han Wang,Yongxia Fu,Qingyu Zhao,Dianzhi Hou,Xuehao Yang,Shuqun Bai,Xianmin Diao,Yong Xue,Qun Shen. 2022

[6]Integrated lipidomic and transcriptomic analysis reveals the effect of cold plasma treatment on lipid oxidation in millet during storage. Ziyan Chen,Jiamei Zhu,Kehong Liang. 2025

[7]Earthworms enhanced winter oilseed rape (Brassica napus L.) growth and nitrogen uptake. Zhang, Shujie,Chao, Ying,Zhang, Chunlei,Cheng, Jing,Li, Jun,Ma, Ni.

[8]A haplotype block associated with thousand-kernel weight on chromosome 5DS in common wheat (Triticum aestivum L.). Wang, Yuquan,Zheng, Jun,Ma, Zhengqiang,Zhang, Xueyong,Wang, Yuquan,Zheng, Jun,Ma, Zhengqiang,Zhang, Xueyong,Wang, Yuquan,Hao, Chenyang,Zheng, Jun,Ge, Hongmei,Zhou, Yang,Zhang, Xueyong. 2015

[9]Genome-wide meta-analysis of maize heterosis reveals the potential role of additive gene expression at pericentromeric loci. Thiemann, Alexander,Seifert, Felix,Scholten, Stefan,Fu, Junjie,Grant-Downton, Robert T.,Schrag, Tobias A.,Melchinger, Albrecht E.,Scholten, Stefan,Pospisil, Heike,Frisch, Matthias. 2014

[10]Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in China. Dong Kun-zhe,Yao Na,Shu Guo-tao,Zhao Qian-jun,Ma Yue-hui,Kang Ye,Zuo Qing-qing. 2014

[11]Molecular and geographic evolutionary support for the essential role of GIGANTEAa in soybean domestication of flowering time. Wang, Yan,Gu, Yongzhe,Gao, Huihui,He, Chaoying,Gu, Yongzhe,Gao, Huihui,Qiu, Lijuan,Chang, Ruzhen,Chen, Shouyi. 2016

[12]Haplotype variation of Green Revolution gene Rht-D1 during wheat domestication and improvement. Zhang, Chihong,Ren, Zhenglong,Zhang, Chihong,Gao, Lifeng,Sun, Jiaqiang,Jia, Jizeng,Zhang, Chihong. 2014

[13]Population Genetic Analysis of Blumeria graminis f. sp tritici in Qinghai Province, China. Duan Xia-yu,Zhou Yi-lin,Guo Qing-yun,Yao Qiang,Cao Shi-qin. 2014

[14]Synonymous single nucleotide polymorphisms in the MC4R gene that are significantly associated with milk production traits in water buffaloes. Deng, T. X.,Pang, C. Y.,Liang, X. W.,Liu, M. Q.,Zhang, C.. 2016

[15]Genetic diversity and systematic evolution of Chinese domestic ducks along the Yangtze-Huai river. Li, Hui-fang,Chen, Kuan-wei,Tang, Qing-ping,Zhang, Jing-xin,Zhang, Tang-jie,Chang, Hong,Zhang, Jing-xin. 2007

[16]Development and characterization of single nucleotide polymorphism markers in Camellia sinensis (Theaceae). Zhang, C. C.,Wang, L. Y.,Wei, K.,Cheng, H.. 2014

[17]Study on LOC426217 as a candidate gene for beak deformity in chicken. Bai, Hao,Sun, Yanyan,Zhu, Jing,Liu, Nian,Li, Dongli,Xue, Fuguang,Li, Yunlei,Chen, Jilan. 2016

[18]Identification and development of a functional marker from 6-SFT-A2 associated with grain weight in wheat. Yue, Aiqin,Li, Ang,Mao, Xinguo,Chang, Xiaoping,Jing, Ruilian,Yue, Aiqin,Li, Runzhi.

[19]Differential expression of CYB5A in Chinese and European pig breeds due to genetic variations in the promoter region. Bai, Y.,Zhang, J. B.,Fang, M. Y.,Bai, Y.,Xue, Y.,Peng, Y. L.,Chen, G..

[20]High-throughput multiplex cpDNA resequencing clarifies the genetic diversity and genetic relationships among Brassica napus, Brassica rapa and Brassica oleracea. Qiao, Jiangwei,Cai, Mengxian,Yan, Guixin,Wang, Nian,Li, Feng,Chen, Binyun,Gao, Guizhen,Xu, Kun,Li, Jun,Wu, Xiaoming.

作者其他论文 更多>>