ArticleBMC bioinformatics2012
Comparative genomic analysis of NAC transcriptional factors to dissect the regulatory mechanisms for cell wall biosynthesis.
Article in BMC bioinformatics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed, 34 citations in OpenAlex.
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- The Chloranthus sessilifolius genome provides insight into early diversification of angiosperms.Nature communications · 2021Article
- A regulatory network driving shoot lignification in rapidly growing bamboo.Plant physiology · 2021Article
- Identification and Characterization of Secondary Wall-Associated NAC Genes and Their Involvement in Hormonal Responses in Tobacco (Frontiers in plant science · 2021Article
- Genome-wide analysis of the NAC transcription factor family in broomcorn millet (Panicum miliaceum L.) and expression analysis under drought stress.BMC genomics · 2020Article
- Genome-wide investigation and expression profiling of APX gene family in Gossypium hirsutum provide new insights in redox homeostasis maintenance during different fiber development stages.Molecular genetics and genomics : MGG · 2018Article
- Secondary Wall Regulating NACs Differentially Bind at the Promoter at aFrontiers in plant science · 2018Article
- Current Models for Transcriptional Regulation of Secondary Cell Wall Biosynthesis in Grasses.Frontiers in plant science · 2018Review
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- NTL8 Regulates Trichome Formation in Arabidopsis by Directly Activating R3 MYB GenesPlant physiology · 2017Article
- Ectopic expression of a cyanobacterial flavodoxin in creeping bentgrass impacts plant development and confers broad abiotic stress tolerance.Plant biotechnology journal · 2017Article
- Arabidopsis ANAC069 binds to C[A/G]CG[T/G] sequences to negatively regulate salt and osmotic stress tolerance.Plant molecular biology · 2017Article
- The Dynamics of Transcript Abundance during Cellularization of Developing Barley Endosperm.Plant physiology · 2016Article
- Article
- Genome-Wide Identification and Expression Analysis of the NAC Transcription Factor Family in Cassava.PloS one · 2015Article
- NAC transcription factor genes: genome-wide identification, phylogenetic, motif and cis-regulatory element analysis in pigeonpea (Cajanus cajan (L.) Millsp.).Molecular biology reports · 2014Article
- Proceedings of the 2012 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. Introduction.BMC bioinformatics · 2012Article
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Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundNAC domain transcription factors are important transcriptional regulators involved in plant growth, development and stress responses. Recent studies have revealed several classes of NAC transcriptional factors crucial for controlling secondary cell wall biosynthesis. These transcriptional factors mainly include three classes, SND, NST and VND. Despite progress, most current analysis is carried out in the model plant Arabidopsis. Moreover, many downstream genes regulated by these transcriptional factors are still not clear.
methodsIn order to identify the key homologue genes across species and discover the network controlling cell wall biosynthesis, we carried out comparative genome analysis of NST, VND and SND genes across 19 higher plant species along with computational modelling of genes regulated or co-regulated with these transcriptional factors.
resultsThe comparative genome analysis revealed that evolutionarily the secondary-wall-associated NAC domain transcription factors first appeared in Selaginella moellendorffii. In fact, among the three groups, only VND genes appeared in S. moellendorffii, which is evolutionarily earlier than the other two groups. The Arabidopsis and rice gene expression analysis showed specific patterns of the secondary cell wall-associated NAC genes (SND, NST and VND). Most of them were preferentially expressed in the stem, especially the second internodes. Furthermore, comprehensive co-regulatory network analysis revealed that the SND and MYB genes were co-regulated, which indicated the coordinative function of these transcriptional factors in modulating cell wall biosynthesis. In addition, the co-regulatory network analysis revealed many novel genes and pathways that could be involved in cell wall biosynthesis and its regulation. The gene ontology analysis also indicated that processes like carbohydrate synthesis, transport and stress response, are coordinately regulated toward cell wall biosynthesis.
conclusionsOverall, we provided a new insight into the evolution and the gene regulatory network of a subgroup of the NAC gene family controlling cell wall composition through bioinformatics data mining and bench validation. Our work might benefit to elucidate the possible molecular mechanism underlying the regulation network of secondary cell wall biosynthesis.
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