Genome-wide characterization of the NUCLEAR FACTOR-Y (NF-Y) family in Citrus grandis identified CgNF-YB9 involved in the fructose and glucose accumulation

Mai, Yiting; Shui, Lanya; Huo, Kaisen; Niu, Jun

doi:10.1007/s13258-019-00862-2

Cited by 8 publications

(5 citation statements)

References 56 publications

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“…The NF-Y gene family, which are crucial regulators of plant growth and physiology, had been carefully and critically analyzed in Arabidopsis, rice, soybean, peach, maize, alfalfa, buckwheat, Populus (as a woody model plant), potato, tomato, grape, barley, citrus, and so on [8,51,[74][75][76][77][78][79][80][81][82][83][84]. In Arabidopsis, AtNF-Y had been declared to be involved in seed germination, embryo development, hypocotyl elongation, flowering, drought stress, salt stress, heat stress, and other pathways to regulate plant growth [18,19,22,23,29,30,32,34,36,41,85].…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Identification and Analysis of NF-Y Gene Family Reveal Its Potential Roles in Stress-Resistance in Chrysanthemum

Yin

Song

et al. 2023

Horticulturae

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Nuclear factor Y (NF-Y) is a class of transcription factors (TFs) with various biological functions that exist in almost all eukaryotes. In plants, heterotrimers composed of different NF-Y subunits are numerous and have different functions that can participate in the regulation of plant growth at various stages. However, NF-Y genes have not been systematically analyzed in chrysanthemum, only involving several NF-Y members. In this study, forty-six NF-Y members were identified from the diploid species Chrysanthemum seticuspe, including eight NF-YA members, twenty-one NF-YB members, and seventeen NF-YC members. These NF-Y genes were analyzed for their physicochemical characteristics, multiple alignments, conserved motifs, gene structure, promoter elements, and chromosomal location. Phylogenetic analysis revealed that only two gene pairs in C. seticuspe underwent gene duplication events. The Ka/Ks ratios were both less than one, indicating that the two pairs underwent purifying selection. Promoter element analysis showed that multiple abiotic stress and hormone response elements were present in the CsNF-Y genes, suggesting that these genes play an important role in the response to stress, growth, and development in plants. Further validation of candidate genes in response to drought regulation using RT-qPCR demonstrated that CsNF-Y genes in C. seticuspe play an important role in drought regulation.

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Section: Discussionmentioning

confidence: 99%

Genome-Wide Identification and Analysis of NF-Y Gene Family Reveal Its Potential Roles in Stress-Resistance in Chrysanthemum

Yin

Song

et al. 2023

Horticulturae

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“…For example, 36 and 34 NF-Y genes were identified in Arabidopsis and rice (over 10 genes for each subunit), respectively [10,11]. In recent years, the NF-Y gene family has been identified and characterized in a number of plant species, including 23 NF-Y genes in barley (Hordeum vulgare) [12], 24 in Citrus grandis [13], 24 in peach (Prunus persica) [14], 25 in castor bean (Ricinus communis) [15], 35 in tea plant (Camellia sinensis) [16], 42 in sorghum (Sorghum bicolor) [17], 44 in banana (Musa acuminata) [18], and 51 in cassava (Manihot esculenta) [19]. Many reports have shown that NF-Y TFs are involved in various physiological and biochemical processes of plants, such as flowering [20,21], seed germination [22], hypocotyl elongation [23], photomorphogenesis [24], root development [25,26], and grain filling and endosperm development [27][28][29].…”

Section: Introductionmentioning

confidence: 99%

In Silico Identification and Expression Analysis of Nuclear Factor Y (Nf-Y) Transcription Factors in Cucumber

et al. 2020

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The nuclear factor Y (NF-Y) transcription factors (TFs) play vital regulatory roles in diverse developmental processes and responses to abiotic stresses in plants. However, the NF-Y genes remain largely unknown in cucumber. In this study, based on phylogenetic and protein structure analyses, we identified 27 CsaNF-Y members of this gene family in the cucumber genome, including 7 NF-YAs, 13 NF-YBs, and 7 NF-YCs. Their chromosome locations, gene structures, conserved domains, gene duplication, and promoter regions containing stress- and hormone-responsive cis-elements were also analyzed. As reported earlier, RNA-seq data showed that the expression of some CsaNF-Y genes was tissue-specific and varied during fruit development. The qRT-PCR results showed that all the detected CsaNF-Y genes were differentially regulated by drought and salt stress. Taken together, our findings provide a comprehensive understanding of CsaNF-Y genes in the development and abiotic stress response of cucumber and lay the foundation for future crop improvement.

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“…2b, 25.00% (9/36) of ZoNF-Y genes had no introns, while the number of introns in the NF-Y subfamily genes ranged from 1 to 16. The gene structure of NF-Y genes in ginger was similar to that in Arabidopsis, Tartary buckwheat and tomoto [32,[35][36][37].…”

Section: Discussionmentioning

confidence: 65%

“…2B,C). HFM shares with low sequence identity, but high structural resemblance to all histone proteins, which consists of a short α-helix (α1) followed by a β-strand segment, a long helix (α2), another β-strand, and a short a-helix [35,38].…”

Section: Discussionmentioning

confidence: 99%

Genome-wide investigation of the Nuclear factor Y gene family in Ginger (Zingiber officinale Roscoe): evolution and expression profiling during development and abiotic stresses

Gong

et al. 2023

Preprint

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Nuclear factor Y (NF-Y) plays a vital role in numerous biological processes as well as responses to biotic and abiotic stresses, its function in ginger (Zingiber officinale Roscoe), a significant medicinal and dietary vegetable, remains largely unexplored. While the NF-Y family has been thoroughly identified in many plant species, and the function of individual NF-Y TFs has been characterized, there is a paucity of knowledge concerning this family in ginger. In this study, the ginger genome was utilized to identify 36 NF-Y genes (10 ZoNF-YAs, 16 ZoNF-YBs, and 10 ZoNF-YCs), which were renamed based on their chromosomal distribution. Ten distinct motifs were identified within the ZoNF-Y genes, with certain unique motifs being vital for gene function. Through analyzing chromosomal location, gene structure, conserved protein motifs, and gene duplication events, the evolutionary characteristics of these ZoNF-Y genes were more fully understood. Detailed analysis of ZoNF-Y gene expression patterns across various tissues, performed through RNA-seq and qRT-PCR, revealed their significant role in regulating ginger rhizome and flower growth and development. Additionally, the ZoNF-Y family genes that responded to abiotic stresses were also identified. The ZoNF-Y family in ginger was identified for the first time in the present study. Our result contributes to research on evolutionary characteristics and better understanding the molecular basis for development and abiotic stress response, as well as further functional characterization of ZoNF-Y genes with an aim of ginger crop improvement.

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Genome-wide characterization of the NUCLEAR FACTOR-Y (NF-Y) family in Citrus grandis identified CgNF-YB9 involved in the fructose and glucose accumulation

Cited by 8 publications

References 56 publications

Genome-Wide Identification and Analysis of NF-Y Gene Family Reveal Its Potential Roles in Stress-Resistance in Chrysanthemum

Genome-Wide Identification and Analysis of NF-Y Gene Family Reveal Its Potential Roles in Stress-Resistance in Chrysanthemum

In Silico Identification and Expression Analysis of Nuclear Factor Y (Nf-Y) Transcription Factors in Cucumber

Genome-wide investigation of the Nuclear factor Y gene family in Ginger (Zingiber officinale Roscoe): evolution and expression profiling during development and abiotic stresses

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