Genome-wide characterization of NmrA-like proteins and the regulatory function of soybean GmNmrA6 in response to salt and oxidative stresses

Mao, Tingting; Geng, Zigui; Zhang, Yaru; Wu, Xue; Ma, L.; Yang, Jun; Yu, Jingyin; Wang, Shengnan; Zhuo, Sheng Guang; Zhang, Yu; Yu, Chunyan; Sheng, Yuting; Zhang, Juan; Zhang, Hongxia

doi:10.1016/j.envexpbot.2023.105447

Environmental and Experimental Botany

2023

DOI: 10.1016/j.envexpbot.2023.105447

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Genome-wide characterization of NmrA-like proteins and the regulatory function of soybean GmNmrA6 in response to salt and oxidative stresses

Tingting Mao

Zigui Geng

Yaru Zhang

et al.

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2024

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Cited by 2 publications

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Comprehensive analysis of the CPP gene family in Moso bamboo: insights into their role in rapid shoot growth

Tan,

Xuan,

et al. 2024

BMC Genomics

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Cysteine-rich polycomb-like proteins (CPPs), pivotal transcription factors crucial for evolution of plants from germination to maturity, and adaptation to environmental stresses, have not yet been characterized within the context of Moso bamboo. The CPP gene family of Moso bamboo was identified through bioinformatics, and the structural and functional attributes of the gene, including its physicochemical properties, evolutionary relationships, and gene-protein structures, were revealed. Additionally, the current study also offers valuable information on the patterns of gene expression in bamboo shoots during the period of accelerated development. The results show that the Moso bamboo genome contains 17 CPP members. Molecular phylogenetic relationships indicated that CPPs could be divided into three subfamilies and that CPP members of the same subfamily shared similar gene structures, motifs and conserved structural domains. The covariance analysis showed that the covariance between CPP and Oryza sativa was higher than that between Arabidopsis. Protein homology modeling showed that CPP proteins contain the DNA-binding domain of typical transcription factors. Transcriptomic data analysis revealed that CPP gene expression differs between tissues and organs. CPP could be regulated in response to exogenous gibberellin (GA) and naphthalene acetic acid (NAA). The qRT-PCR experiments demonstrated that CPP was crucial in the initial and fast expansion of bamboo shoots. Additionally, gene ontology (GO), KEGG enrichment and CPP regulatory network map analyses revealed multiple functional annotations of PeCPP-regulated downstream target genes. The results of this study will not only lay the foundation for further exploration of the detailed biological functions of CPP genes in the growth and development of Moso bamboo, but also establish the groundwork for future genetic enhancement of fast-growing forest trees. Supplementary Information The online version contains supplementary material available at 10.1186/s12864-024-11084-6.

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Comprehensive analysis of the CPP gene family in Moso bamboo: insights into their role in rapid shoot growth

Tan,

Xuan,

et al. 2024

BMC Genomics

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Integrating RNA-seq and population genomics to elucidate salt tolerance mechanisms in flax (Linum usitatissimum L.)

Li,

Zhu

et al. 2024

Front. Plant Sci.

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Salinity is an important abiotic environmental stressor threatening agricultural productivity worldwide. Flax, an economically important crop, exhibits varying degrees of adaptability to salt stress among different cultivars. However, the specific molecular mechanisms underlying these differences in adaptation have remained unclear. The objective of this study was to identify candidate genes associated with salt tolerance in flax using RNA-Seq combined with population-level analysis. To begin with, three representative cultivars were selected from a population of 200 flax germplasm and assessed their physiological and transcriptomic responses to salt stress. The cultivar C121 exhibited superior osmoregulation, antioxidant capacity, and growth under salt stress compared to the other two cultivars. Through transcriptome sequencing, a total of 7,459 differentially expressed genes associated with salt stress were identified, which were mainly enriched in pathways related to response to toxic substances, metal ion transport, and phenylpropanoid biosynthesis. Furthermore, genotyping of the 7,459 differentially expressed genes and correlating them with the phenotypic data on survival rates under salt stress allowed the identification of 17 salt-related candidate genes. Notably, the nucleotide diversity of nine of the candidate genes was significantly higher in the oil flax subgroup than in the fiber flax subgroup. These results enhance the fundamental understanding of salt tolerance mechanisms in flax, provide a basis for a more in-depth exploration of its adaptive responses to salt stress, and facilitate the scientific selection and breeding of salt-tolerant varieties.

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Genome-wide characterization of NmrA-like proteins and the regulatory function of soybean GmNmrA6 in response to salt and oxidative stresses

Cited by 2 publications

References 39 publications

Comprehensive analysis of the CPP gene family in Moso bamboo: insights into their role in rapid shoot growth

Comprehensive analysis of the CPP gene family in Moso bamboo: insights into their role in rapid shoot growth

Integrating RNA-seq and population genomics to elucidate salt tolerance mechanisms in flax (Linum usitatissimum L.)

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