Transcriptome Profiling Analysis Reveals Co-Regulation of Hormone Pathways in Foxtail Millet during Sclerospora graminicola Infection

Li, Renjian; Han, Yanqing; Zhang, Qi; Chang, Guorong; Han, Yuanhuai; Li, Xukai; Zhang, Baojun

doi:10.3390/ijms21041226

Cited by 18 publications

(17 citation statements)

References 32 publications

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“…causes 20–30% of downey mildew cases in foxtail millet cultivated in China and results in the deterioration of yield and quality [ 37 ]. It is also prevalent in India, Japan, and Russia [ 37 , 38 ]. We investigated the expression of SiHAT s in our transcriptome sequencing data obtained after S. graminicola infection.…”

Section: Resultsmentioning

confidence: 99%

Genome-wide investigation of histone acetyltransferase gene family and its responses to biotic and abiotic stress in foxtail millet (Setaria italica [L.] P. Beauv)

Xing

Jin

et al. 2022

BMC Plant Biol

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Background Modification of histone acetylation is a ubiquitous and reversible process in eukaryotes and prokaryotes and plays crucial roles in the regulation of gene expression during plant development and stress responses. Histone acetylation is co-regulated by histone acetyltransferase (HAT) and histone deacetylase (HDAC). HAT plays an essential regulatory role in various growth and development processes by modifying the chromatin structure through interactions with other histone modifications and transcription factors in eukaryotic cells, affecting the transcription of genes. Comprehensive analyses of HAT genes have been performed in Arabidopsis thaliana and Oryza sativa. However, little information is available on the HAT genes in foxtail millet (Setaria italica [L.] P. Beauv). Results In this study, 24 HAT genes (SiHATs) were identified and divided into four groups with conserved gene structures via motif composition analysis. Phylogenetic analysis of the genes was performed to predict functional similarities between Arabidopsis thaliana, Oryza sativa, and foxtail millet; 19 and 2 orthologous gene pairs were individually identified. Moreover, all identified HAT gene pairs likely underwent purified selection based on their non-synonymous/synonymous nucleotide substitutions. Using published transcriptome data, we found that SiHAT genes were preferentially expressed in some tissues and organs. Stress responses were also examined, and data showed that SiHAT gene transcription was influenced by drought, salt, low nitrogen, and low phosphorus stress, and that the expression of four SiHATs was altered as a result of infection by Sclerospora graminicola. Conclusions Results indicated that histone acetylation may play an important role in plant growth and development and stress adaptations. These findings suggest that SiHATs play specific roles in the response to abiotic stress and viral infection. This study lays a foundation for further analysis of the biological functions of SiHATs in foxtail millet.

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Section: Resultsmentioning

confidence: 99%

Genome-wide investigation of histone acetyltransferase gene family and its responses to biotic and abiotic stress in foxtail millet (Setaria italica [L.] P. Beauv)

Xing

Jin

et al. 2022

BMC Plant Biol

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“…In this aspect, foxtail millet transcriptome was the first to be released, where Zhang et al [194] had sequenced the total RNA of root, stem, leaf and spike of the strain 'Zhang gu'. Recently, Li et al [99] had sequenced the transcriptome of foxtail millet during Sclerospora graminicola infection, and identified several candidate genes for further functional characterization. Notably, the study pinpointed an amidase encoding gene, Seita.2G313400, that showed 30-fold upregulation during the infection.…”

Section: Transcriptomicsmentioning

confidence: 99%

Genetic and genomic resources, and breeding for accelerating improvement of small millets: current status and future interventions

Vetriventhan

Azevedo

Upadhyaya

et al. 2020

Nucleus

120

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Current agricultural and food systems encourage research and development on major crops, neglecting regionally important minor crops. Small millets include a group of small-seeded cereal crops of the grass family Poaceae. This includes finger millet, foxtail millet, proso millet, barnyard millet, kodo millet, little millet, teff, fonio, job's tears, guinea millet, and browntop millet. Small millets are an excellent choice to supplement major staple foods for crop and dietary diversity because of their diverse adaptation on marginal lands, less water requirement, lesser susceptibility to stresses, and nutritional superiority compared to major cereal staples. Growing interest among consumers about healthy diets together with climate-resilient features of small millets underline the necessity of directing more research and development towards these crops. Except for finger millet and foxtail millet, and to some extent proso millet and teff, other small millets have received minimal research attention in terms of development of genetic and genomic resources and breeding for yield enhancement. Considerable breeding efforts were made in finger millet and foxtail millet in India and China, respectively, proso millet in the United States of America, and teff in Ethiopia. So far, five genomes, namely foxtail millet, finger millet, proso millet, teff, and Japanese barnyard millet, have been sequenced, and genome of foxtail millet is the smallest (423-510 Mb) while the largest one is finger millet (1.5 Gb). Recent advances in phenotyping and genomics technologies, together with available germplasm diversity, could be utilized in small millets improvement. This review provides a comprehensive insight into the importance of small millets, the global status of their germplasm, diversity, promising germplasm resources, and breeding approaches (conventional and genomic approaches) to accelerate climate-resilient and nutrient-dense small millets for sustainable agriculture, environment, and healthy food systems.

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“…JA and SA were also related to pathogen resistance, both of which were response of plant responsed to external damage (machinery, herbivores, insects) and pathogen infection to induced the expression of resistance genes. The signal transduction pathway mediated by JA and SA was closely related to plant resistance [40]. Therefore, the effect of Foln infection on endogenous hormones of flax was maybe an important cause of flax fusarium wilt.…”

Section: Role Of Transcription Factors Myc and Tify In Plant Disease Resistancementioning

confidence: 99%

Differential Gene Expression Analysis of Resistant and Susceptible Flax Cultivars in Response to Fusarium oxysporum Stress

He¹,

Chen²,

Ming³

2021

Preprint

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A plant’s early response to pathogen stress is a vital indicator of its disease resistance. In order to study the response mechanism of resistant and susceptible flax cultivars to Fusarium oxysporum f. sp. lini (Foln), we applied RNA-sequencing to analyze transcriptomes of flax with Foln 0.5, 2 and 8 hours post inoculation (hpi). We found a significant difference in the number of differential expression genes (DEGs) between resistant and susceptible flax clutivars. The number of DEGs in the Fusarium-resistant cultivar increased dramatically at 2 hpi, and a large number of DEGs participated in the Fusarium-susceptible cultivar response to Foln infection 0.5 hpi. GO enrichment analysis determined that the up-regulated DEGs of both flax cultivars were enriched such as oxidoreductase activity and oxidation-reduction process. At the same time, the genes involved in diterpenoid synthesis were up-regulated in resistant cultivar, while those involved in extracellular region, cell wall and organophosphate ester transport were down-regulated in susceptible cultivar. KEGG enrichment analysis showed the genes encoded WRKY 22 and WRKY33 which involved in MAPK signaling pathway were up-regulated expressed in S-29 and down-regulated expressed in R-7, negatively regulated the disease resistance of flax; The genes encoded Hsp 90 family which in involved in plant pathogen interaction pathway were up-regulated in R-7 and down-regulated in S-29, which positively regulated the disease resistance of flax; The genes encoded MYC2 transcription factor and TIFY proteins which involved in plant hormone signaling pathway were up-regulated in R-7, and regulated the jasmonic acid metabolism of flax and the signal transduction of plant hormones. Meanwhile seven regulatory genes with the most correlation were screened out, Among Lus10025000.g and Lus10026447.g regulated other genes expressed both in plant hormone signal transduction pathway and MAPK signal pathway. In conclusion, these findings will facilitate further studies on the function of these candidate genes in flax of response to Fusarium stress, and the breeding of disease-resistant flax cultivar.

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Transcriptome Profiling Analysis Reveals Co-Regulation of Hormone Pathways in Foxtail Millet during Sclerospora graminicola Infection

Cited by 18 publications

References 32 publications

Genome-wide investigation of histone acetyltransferase gene family and its responses to biotic and abiotic stress in foxtail millet (Setaria italica [L.] P. Beauv)

Genome-wide investigation of histone acetyltransferase gene family and its responses to biotic and abiotic stress in foxtail millet (Setaria italica [L.] P. Beauv)

Genetic and genomic resources, and breeding for accelerating improvement of small millets: current status and future interventions

Differential Gene Expression Analysis of Resistant and Susceptible Flax Cultivars in Response to Fusarium oxysporum Stress

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