Identification and Analysis of microRNAs in the SAM and Leaves of Populus tomentosa

Cui, Jiawen; Lü, Wei; Lu, Zhaogeng; Ren, Shixiong; Zhao, Beibei; Wang, Li; Teng, Nianjun; Jin, Biao

doi:10.3390/f10020130

Cited by 11 publications

(9 citation statements)

References 63 publications

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“…Particularly, an integrated metabolomic and transcriptomic analysis can provide comprehensive information on the molecular regulatory networks involved in the response to heat stress. Populus tomentosa, an economically important tree species, is widely distributed in China [20]. It is fast growing and highly resistant to environmental stresses, especially to high temperature stress.…”

Section: Introductionmentioning

confidence: 99%

Transcriptomic and Metabolomic Analysis of the Heat-Stress Response of Populus tomentosa Carr.

Ren

et al. 2019

Forests

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Plants have evolved mechanisms of stress tolerance responses to heat stress. However, little is known about metabolic responses to heat stress in trees. In this study, we exposed Populus tomentosa Carr. to control (25 °C) and heat stress (45 °C) treatments and analyzed the metabolic and transcriptomic effects. Heat stress increased the cellular concentration of H2O2 and the activities of antioxidant enzymes. The levels of proline, raffinose, and melibiose were increased by heat stress, whereas those of pyruvate, fumarate, and myo-inositol were decreased. The expression levels of most genes (PSB27, PSB28, LHCA5, PETB, and PETC) related to the light-harvesting complexes and photosynthetic electron transport system were downregulated by heat stress. Association analysis between key genes and altered metabolites indicated that glycolysis was enhanced, whereas the tricarboxylic acid (TCA) cycle was suppressed. The inositol phosphate; galactose; valine, leucine, and isoleucine; and arginine and proline metabolic pathways were significantly affected by heat stress. In addition, several transcription factors, including HSFA2, HSFA3, HSFA9, HSF4, MYB27, MYB4R1, and bZIP60 were upregulated, whereas WRKY13 and WRKY50 were downregulated by heat stress. Interestingly, under heat stress, the expression of DREB1, DREB2, DREB2E, and DREB5 was dramatically upregulated at 12 h. Our results suggest that proline, raffinose, melibiose, and several genes (e.g., PSB27, LHCA5, and PETB) and transcription factors (e.g., HSFAs and DREBs) are involved in the response to heat stress in P. tomentosa.

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Section: Introductionmentioning

confidence: 99%

Transcriptomic and Metabolomic Analysis of the Heat-Stress Response of Populus tomentosa Carr.

Ren

et al. 2019

Forests

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“…[44], Gossypium hirsutum L. [45], and Camellia sinensis (L.) O. Kuntze [46], major peaks at 24-nt were also seen in sRNA length distribution patterns. Other studies, in different plants, identified 21-nt sRNAs as the most abundant class [47,48]. Additionally, differences in distribution patterns have also been observed in different lines of the same plant [49] and different developmental stages [50].…”

Section: Mirna Population Identified In Pecanmentioning

confidence: 88%

Identification of Grafting-Responsive MicroRNAs Associated with Growth Regulation in Pecan [Carya illinoinensis (Wangenh.) K. Koch]

Liu

Peng

et al. 2020

Forests

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Pecan [Carya illinoinensis (Wangenh.) K. Koch] is an economically important nut tree and grafting is often used for clonal propagation of cultivars. However, there is a lack of research on the effects of rootstocks on scions, which are meaningful targets for directed breeding of pecan grafts. MicroRNAs (miRNAs) play an important role in many biological processes, but the mechanism underlying the involvement of miRNAs in grafting-conferred physiological changes is unclear. To identify the grafting-responsive miRNAs that may be involved in the regulation of growth in grafted pecan, six small RNA libraries were constructed from the phloem of two groups of grafts with significantly different growth performance on short and tall rootstocks. A total of 441 conserved miRNAs belonging to 42 miRNA families and 603 novel miRNAs were identified. Among the identified miRNAs, 24 (seven conserved and 17 novel) were significantly differentially expressed by the different grafts, implying that they might be responsive to grafting and potentially involved in the regulation of graft growth. Ninety-five target genes were predicted for the differentially expressed miRNAs; gene annotation was available for 33 of these. Analysis of their targets suggested that the miRNAs may regulate auxin transport, cell activity, and inorganic phosphate (Pi) acquisition, and thereby, mediate pecan graft growth. Use of the recently-published pecan genome enabled identification of a substantial population of miRNAs, which are now available for further research. We also identified the grafting-responsive miRNAs and their potential roles in pecan graft growth, providing a basis for research on long-distance regulation in grafted pecan.

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“…These TFs are also promoted by the up-regulated activities of targeted SPLs genes and further coordinate actions of flowermaking genes, and finally, cause suppression of the FT gene involved in the floral development process in poplar (see. Table 1) [19].…”

Section: The Mir156 Master Regulator To Synchronize Complex Biologicmentioning

confidence: 99%

“…Since, plant miRNAs are implicated in virtually all biological functions in plants especially, to control growth and development under adverse environmental conditions [14]. Recently hundreds of miRNAs families have been identified in various crop plants [19][20][21] that deposited in various microRNAs repositories [22,23]. These databases provide a great wealth of knowledge related to miRNAs, and their biogenesis, structures, functions, and evolutionary origins.…”

Section: Introductionmentioning

confidence: 99%

The miR156: A Master Regulator to Harmonize Complex Biofuel Traits in Lignocellulosic Biomass Crops

Singh¹

2020

Preprint

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Currently, energy security and environmental degradation are the two biggest challenges before humanity that can be surmounted with the use of green and sustainable biofuels produced from lignocellulosic crops. In the future, to ensure adequate and cost-effective supply of biofuels, it requires a sufficient amount of amenable and quality lignocellulosic feedstocks. Therefore, agricultural yields of lignocellulosic biomass crops should be substantially increased by intense genetic maneuvering of key gene regulatory mechanisms and signaling pathways that control plant biomass yield. Recently, numerous miRNAs families are identified, characterized, and validated across the plant kingdom. Plant microRNAs (miRNAs) are 21 to 24 nucleotides long, non-coding small RNAs, act as regulators of their target genes via inducing modifications in transcription, translation, and epigenome. MiRNAs represent many hallmark characteristics like sequence-specific regulation, tissue, and species-specific expression, evolutionary conservation, and functional diversity. They coordinate well physiological and life cycle processes in plants under adverse environmental conditions. Hence, miRNAs offer accurate, precise, and efficient regulatory switches in the miRNA-targeted genetic networks. It is evident from the study of the miR156 family and its target SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) genes network that controls highly significant agronomic traits in crop plants. The miR156/SPL module acts as a master circuit that synchronizes many intricate complex biological functions such as growth and development, and metabolic processes by sensing internal and external environmental signals in plants. Therefore, miR156 can prove a potential target for miRNAs based plant biotechnology to harmonize complex biofuel traits and improve biomass yield in lignocellulosic biomass crops.

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Identification and Analysis of microRNAs in the SAM and Leaves of Populus tomentosa

Cited by 11 publications

References 63 publications

Transcriptomic and Metabolomic Analysis of the Heat-Stress Response of Populus tomentosa Carr.

Transcriptomic and Metabolomic Analysis of the Heat-Stress Response of Populus tomentosa Carr.

Identification of Grafting-Responsive MicroRNAs Associated with Growth Regulation in Pecan [Carya illinoinensis (Wangenh.) K. Koch]

The miR156: A Master Regulator to Harmonize Complex Biofuel Traits in Lignocellulosic Biomass Crops

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