Genomic analysis of NAC transcription factors in banana (Musa acuminata) and definition of NAC orthologous groups for monocots and dicots

Cenci, Alberto; Guignon, Valentin; Roux, Nicolás; Rouard, Mathieu

doi:10.1007/s11103-013-0169-2

Cited by 87 publications

(101 citation statements)

References 81 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This expansion of NAC-TFs may result from WGD events, followed by multiple segmental and tandem duplication events (Wang et al, 2012;Shang et al, 2013;). This conclusion is consistent with findings of previous reports on poplar (Hu et al, 2010;Cenci et al, 2014;Hussey et al, 2015).…”

Section: Discussionsupporting

confidence: 94%

“…They also play an important role in plant development, and are involved in osmotic stress and various plant developmental processes. In recent years, genomic analyses of the NAC gene family have been conducted in angiosperms such as Arabidopsis thaliana (Ooka et al, 2003), Oryza sativa (Fang et al, 2008;Nuruzzaman et al, 2010), Vitis vinifera (Wang et al, 2013), Populus trichocarpa (Hu et al, 2010), Glycine soja , Setaria italic (Puranik et al, 2013), Gossypium raimondii (Shang et al, 2013), and Musa acuminata (Cenci et al, 2014). As one of the largest groups of plant transcription factors (TFs), the NAC-TF family consists of several genes in plants.…”

Section: Introductionmentioning

confidence: 99%

“…For example, there are 105 TF genes in Arabidopsis (Ooka et al, 2003), 140 genes in rice (Fang et al, 2008;Nuruzzaman et al, 2010), 101 genes in soybean (Pinheiro et al, 2009), 163 in poplar (Hu et al, 2010), and 145 in G. raimondii (Shang et al, 2013). The gene structure, phylogeny, expression, and functional diversification of the NAC-TF family have been systematically examined (Ooka et al, 2003;Fang et al, 2008;Zhang et al, 2008;Pinheiro et al, 2009;Nuruzzaman et al, 2010;Hu et al, 2010;Wang et al, 2013;Puranik et al, 2013;Shang et al, 2013;Cenci et al, 2014) Genomic analyses indicate that segmental duplications have significantly contributed to the expansion of the NAC gene family in specific angiosperms (Fang et al, 2008;Nuruzzaman et al, 2010;Hu et al, 2010;Wang et al, 2013;Shang et al, 2013;Singh et al, 2013). Expression analyses have also provided insight into the functional divergence among members of the NAC gene family (Hu et al, 2010;Lee et al, 2012;Wang et al, 2013;Shang et al, 2013;Singh et al, 2013;Hussey et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Comprehensive analysis of NAC transcription factors in diploid Gossypium: sequence conservation and expression analysis uncover their roles during fiber development

Shāng

Wang

Zou

et al. 2016

Sci. China Life Sci.

View full text Add to dashboard Cite

Determining how function evolves following gene duplication is necessary for understanding gene expansion. Transcription factors (TFs) are a class of proteins that regulate gene expression by binding to specific cis-acting elements in the promoters of target genes, subsequently activating or repressing their transcription. In the present study, we systematically examined the functional diversification of the NAC transcription factor (NAC-TFs) family by analyzing their chromosomal location, structure, phylogeny, and expression pattern in Gossypium raimondii (Gr) and G. arboreum (Ga). The 145 and 141 NAC genes identified in the Gr and Ga genomes, respectively, were annotated and divided into 18 subfamilies, which showed distinct divergence in gene structure and expression patterns during fiber development. In addition, when the functional parameters were examined, clear divergence was observed within tandem clusters, which suggested that subfunctionalization had occurred among duplicate genes. The expression patterns of homologous gene pairs also changed, suggestive of the diversification of gene function during the evolution of diploid cotton. These findings provide insights into the mechanisms underlying the functional differentiation of duplicated NAC-TFs genes in two diploid cotton species. cotton, NAC gene family, phylogeny, expression patterns Citation:Shang, H., Wang, Z., Zou, C., Zhang, Z., Li, W., Li, J., Shi, Y., Gong, W., Chen, T., Liu, A., Gong, J., Ge, Q., Yuan, Y. (2016). Comprehensive analysis of NAC transcription factors in diploid Gossypium: sequence conservation and expression analysis uncover their roles during fiber development. Sci China Life Sci 59, 142 -153.

show abstract

Section: Discussionsupporting

confidence: 94%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Comprehensive analysis of NAC transcription factors in diploid Gossypium: sequence conservation and expression analysis uncover their roles during fiber development

Shāng

Wang

Zou

et al. 2016

Sci. China Life Sci.

View full text Add to dashboard Cite

show abstract

“…1). These members were widely distributed in different groups, but only B5 contained OsNACs (Cenci et al 2014). Soybean showed similar results, which confirmed that differences appeared between monocots and dicots in the course of their evolutionary history (Le et al 2011).…”

Section: Discussionsupporting

confidence: 63%

Genome-wide analysis and expression patterns of the NAC transcription factor family in Medicago truncatula

Ling

Song

Wang

et al. 2017

Physiol Mol Biol Plants

View full text Add to dashboard Cite

NAC transcription factor (TF) family proteins are expressed in various developmental stages and following various stresses. NAC TFs are involved in mediating various physiological functions of plants and participate in various signaling pathways under biotic or abiotic stress. The present study provided a comprehensive functional analysis of members of the MtNAC TF family. Via screening of Medicago truncatula genome information, we identified 97 MtNAC TFs in M. truncatula and compared the phylogenetic analysis of 14 conserved groups with their Arabidopsis and rice counterparts. The NAC TFs were categorized into 14 groups based on their conserved motifs and gene structure. The predicted M. truncatula NAC genes were distributed among eight chromosomes, and in addition, we found that these genes showed mass gene duplication. Through expression profiling of RNA-seq data analysis, we determined that NAC family members were expressed significantly under different abiotic stresses. This indicates that the NAC TF shows different functions in M. truncatula. Together, this genome-wide analysis of the NAC gene family in M. truncatula, could be applied to improving stress tolerance in plants.

show abstract

“…The genomes of Arabidopsis thaliana (117), Populustrichocarpa (120), Glycine max (152), Oryza sativa (151), grapevine (79) and banana (167) contain numerous NAC genes respectively [5,15]. The frequency of transcription factor indicates the genome multiplication.…”

Section: Introductionmentioning

confidence: 99%

Promoter Analysis of a Powdery Mildew Induced Vitis vinifera NAC Transcription Factor Gene

Gebrie¹

2017

Adv Crop Sci Tech

View full text Add to dashboard Cite

Grapevine is an economically important crop throughout the world. However commonly cultivated species Vitis vinifera is susceptible to powdery mildew fungi. The objective of this study was to analyze the promoter of VvNAC36 transcription factor gene, which was induced by powdery mildew infection, as it was shown by previous microarray results. Analysis of VvNAC36 transcription factor promoter allows identifying the important cis-elements, which are responsible for gene regulation during infection. Knowing that the responsible cis-element of the gene is crucial for further study, the role of this gene is in powdery mildew infected grapevine. The study was performed using circumspect methodology. To confirm the presence of transgene in transgenic plants the PCR and glufosinate total herbicide application was used. The transplanted transgenic seedlings were infected with Golovinomyces orontii. To detect the GUS reporter gene expression, histochemical GUS staining and spectrophotometric assays were applied in each deletion variant. Finally the promoter sequence was analyzed by the PLACE (a database for PLAntCisacting Elements) program for identifying cis-elements. The results of the study showed significant difference in mock treated and induced expression in transgenic plants transformed with VvNAC36 promoter segments of different lengths, fused to GUS reporter gene. In basal expression level, the deletion variants 1178 bp and 257 bp differed significantly. Powdery mildew infection significantly increased the expression in all promoter variants, except the two shortest fragments. Based on the promoter motif analysis, it can be concluded, that the GT1-box (GAAAAA) supposed to have crucial role in regulating of VvNAC36 transcription factor gene during powdery mildew infection.

show abstract

Genomic analysis of NAC transcription factors in banana (Musa acuminata) and definition of NAC orthologous groups for monocots and dicots

Cited by 87 publications

References 81 publications

Comprehensive analysis of NAC transcription factors in diploid Gossypium: sequence conservation and expression analysis uncover their roles during fiber development

Comprehensive analysis of NAC transcription factors in diploid Gossypium: sequence conservation and expression analysis uncover their roles during fiber development

Genome-wide analysis and expression patterns of the NAC transcription factor family in Medicago truncatula

Promoter Analysis of a Powdery Mildew Induced Vitis vinifera NAC Transcription Factor Gene

Contact Info

Product

Resources

About