Transcriptome Analysis Reveals Key Seed-Development Genes in Common Buckwheat (Fagopyrum esculentum)

Li, Hongyou; Lv, Qiuyu; Deng, Jiao; Huang, Juan; Cai, Fang; Liang, Chenggang; Chen, Qijiao; Wang, Yan; Zhu, Lingjun; Zhang, Xiaona

doi:10.3390/ijms20174303

Cited by 19 publications

(16 citation statements)

References 63 publications

(98 reference statements)

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“…The enzymes involved in this process, such as for sucrose degradation and starch synthesis, are considered to be key [ 20 , 34 ]. These enzymes include SuSase (EC 2.4.1.13), AGPase (EC 2.7.7.27), StSase (EC 2.4.1.21), SBE (EC 2.4.1.18), UGPase (EC 2.7.7.9), DBE (EC 3.2.1.68), and GBSS (EC 2.4.1.242) [ 18 , 35 ]. In this study, we identified 22 differentially expressed genes that encoded enzymes associated with starch and sucrose metabolism.…”

Section: Discussionmentioning

confidence: 99%

“…Some studies showed that cytokinin is involved in regulating grain production [ 41 , 42 ]. Other plant hormones, including BR, ET, JA, and SA, also play a crucial role in seed development and grain production [ 5 , 17 , 18 , 43 , 44 , 45 ]. In this study, we observed that many differentially expressed genes were related to plant hormone biosynthesis and/or signaling pathways; these genes included PYLs (abscisic acid receptor), ABI5 (ABSCISIC ACID-INSENSITIVE 5), PP2C (probable protein phosphatase 2C), SAPKs (serine/threonine-protein kinase), SAURs (auxin-responsive protein), JAR (jasmonic acid-amido synthetase), EIN2 (ETHYLENE-INSENSITIVE 2), and TIFY ( Table S2 ).…”

Section: Discussionmentioning

confidence: 99%

“…A recent study showed that miR1432 regulated the grain filling in rice through targeting the expression of OsACOT [ 16 ]. With the development of high-throughput sequencing technology, transcriptome sequencing has become an effective approach to study the dynamic changes in gene expression during grain filling in different plant species [ 17 , 18 , 19 , 20 ].…”

Section: Introductionmentioning

confidence: 99%

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Transcriptome Analysis Provides Insights into Grain Filling in Foxtail Millet (Setaria italica L.)

Wang

Song

et al. 2020

IJMS

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Grain filling is an importantly developmental process which is associated with the yield and quality of foxtail millet (Setaria italic L.). However, the molecular mechanisms of grain filling are rarely reported in foxtail millet. In our study, RNA-seq was performed to investigate the transcriptional dynamics and identify the key genes involved in grain filling in foxtail millet at five different developmental stages. A total of 11,399 differentially expressed genes (DEGs), including 902 transcription factors (TFs), were identified. Certain important genes involved in grain filling were discovered through a function annotation and temporal expression patterns analysis. These genes included genes associated with starch biosynthesis, cell-wall invertases, hormone signal transduction, and polyamine metabolism pathways. The expression levels of seven randomly selected DEGs were validated by a quantitative real-time polymerase chain reaction (qRT-PCR). This study provides the first insight into the changes in the gene expression of grain filling at different developmental stages in foxtail millet. These results could help understand the complex molecular mechanisms of the panicle formation in foxtail millet and other cereal crops.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Transcriptome Analysis Provides Insights into Grain Filling in Foxtail Millet (Setaria italica L.)

Wang

Song

et al. 2020

IJMS

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“…However, classical breeding treatments such as the one described in this study shed a light on the mechanisms involved in seed production of F. esculentum . Key genes involved in seed development are already recognized, and they are genes responsible for Ca 2+ signal transduction pathway, hormone signal transduction pathways, and coding transcription factors (TFs), as well as starch biosynthesis-related genes [ 17 ]. Regarding seed size, AP2 and bZIP transcription factors, BR-signal, and ABA are considered the most important regulators [ 18 ].…”

Section: Discussionmentioning

confidence: 99%

Reducing Flower Competition for Assimilates by Half Results in Higher Yield of Fagopyrum esculentum

Hornyák

Słomka

Sychta

et al. 2020

IJMS

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Despite abundant flowering throughout the season, common buckwheat develops a very low number of kernels probably due to competition for assimilates. We hypothesized that plants with a shorter flowering period may give a higher seed yield. To verify the hypothesis, we studied nutrient stress in vitro and in planta and analyzed different embryological and yield parameters, including hormone profile in the flowers. In vitro cultivated flowers on media with strongly reduced nutrient content demonstrated a drastic increase in degenerated embryo sacs. In in planta experiments, where 50% or 75% of flowers or all lateral ramifications were removed, the reduction of the flower competition by half turned out to be the most promising treatment for improving yield. This treatment increased the frequency of properly developed embryo sacs, the average number of mature seeds per plant, and their mass. Strong seed compensation under 50% inflorescence removal could result from increased production of salicylic and jasmonic acid that both favor more effective pollinator attraction. Plants in single-shoot cultivation finished their vegetation earlier, and they demonstrated greater single seed mass per plant than in control. This result suggests that plants of common buckwheat with shorter blooming period could deliver higher seed yield.

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“…In addition, the expression of three hub TFs from the 17 selected key genes, which were the first-layer regulators of SCW biosynthesis, were also tested in the hulls of other three normal tartary buckwheat cultivars. qRT-PCR analysis was performed as described by Li et al [ 48 ]. The tartary buckwheat actin7 gene was used as the internal control.…”

Section: Methodsmentioning

confidence: 99%

Comparative cellular, physiological and transcriptome analyses reveal the potential easy dehulling mechanism of rice-tartary buckwheat (Fagopyrum Tararicum)

et al. 2020

BMC Plant Biol

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Background Tartary buckwheat has gained popularity in the food marketplace due to its abundant nutrients and high bioactive flavonoid content. However, its difficult dehulling process has severely restricted its food processing industry development. Rice-tartary buckwheat, a rare local variety, is very easily dehulled, but the cellular, physiological and molecular mechanisms responsible for this easy dehulling remains largely unclear. Results In this study, we integrated analyses of the comparative cellular, physiological, transcriptome, and gene coexpression network to insight into the reason that rice-tartary buckwheat is easy to dehull. Compared to normal tartary buckwheat, rice-tartary buckwheat has significantly brittler and thinner hull, and thinner cell wall in hull sclerenchyma cells. Furthermore, the cellulose, hemicellulose, and lignin contents of rice-tartary buckwheat hull were significantly lower than those in all or part of the tested normal tartary buckwheat cultivars, respectively, and the significant difference in cellulose and hemicellulose contents between rice-tartary buckwheat and normal tartary buckwheat began at 10 days after pollination (DAP). Comparative transcriptome analysis identified a total of 9250 differentially expressed genes (DEGs) between the rice- and normal-tartary buckwheat hulls at four different development stages. Weighted gene coexpression network analysis (WGCNA) of all DEGs identified a key module associated with the formation of the hull difference between rice- and normal-tartary buckwheat. In this specific module, many secondary cell wall (SCW) biosynthesis regulatory and structural genes, which involved in cellulose and hemicellulose biosynthesis, were identified as hub genes and displayed coexpression. These identified hub genes of SCW biosynthesis were significantly lower expression in rice-tartary buckwheat hull than in normal tartary buckwheat at the early hull development stages. Among them, the expression of 17 SCW biosynthesis relative-hub genes were further verified by quantitative real-time polymerase chain reaction (qRT-PCR). Conclusions Our results showed that the lower expression of SCW biosynthesis regulatory and structural genes in rice-tartary buckwheat hull in the early development stages contributes to its easy dehulling by reducing the content of cell wall chemical components, which further effects the cell wall thickness of hull sclerenchyma cells, and hull thickness and mechanical strength.

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Transcriptome Analysis Reveals Key Seed-Development Genes in Common Buckwheat (Fagopyrum esculentum)

Cited by 19 publications

References 63 publications

Transcriptome Analysis Provides Insights into Grain Filling in Foxtail Millet (Setaria italica L.)

Transcriptome Analysis Provides Insights into Grain Filling in Foxtail Millet (Setaria italica L.)

Reducing Flower Competition for Assimilates by Half Results in Higher Yield of Fagopyrum esculentum

Comparative cellular, physiological and transcriptome analyses reveal the potential easy dehulling mechanism of rice-tartary buckwheat (Fagopyrum Tararicum)

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