Transcriptome landscapes of multiple tissues highlight the genes involved in the flavor metabolic pathway in Chinese chive (Allium tuberosum)

Liu, Ning; Tong, Jing; Hu, Manman; Ji, Yanhai; Wang, Baoju; Liang, Hao; Liu, Mingchi; Wu, Zhanhui

doi:10.1016/j.ygeno.2021.05.005

Cited by 15 publications

(14 citation statements)

References 56 publications

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“…This is because Chinese chive can produce sulfurcontaining metabolites-S-alk(alkene) cysteine sulfoxides (CSOs), which have an extremely high nutritional and medicinal value (Rabinowitch and Currah, 2002). CSOs are the main flavor precursors of Allium vegetables (Liu et al, 2021). The flavor of Allium plants is produced by the hydrolysis of CSOs by alliinase when the cells are ruptured, and the amount of pyruvate produced in the hydrolysis reaction is equivalent to that of CSOs, which can be used to evaluate the flavor of Chinese chive (Wall and Corgan, 1992).…”

Section: Introductionmentioning

confidence: 99%

Effects of Preharvest Methyl Jasmonate and Salicylic Acid Treatments on Growth, Quality, Volatile Components, and Antioxidant Systems of Chinese Chives

et al. 2022

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Methyl jasmonate (MeJA) and salicylic acid (SA) regulate the production of biologically active compounds in plants and stimulate the accumulation of plant aromatic substances. However, the underlying mechanisms of how MeJA and SA influence characteristic flavor compounds and the antioxidant activity of vegetables are poorly understood. Five MeJA and SA concentrations were used to investigate the dose-dependent effects of these phytohormones on the dry and fresh weight; chlorophyll abundance; the contents of vitamin C, soluble protein, and sugar, nitrate, total phenols, flavonoids, volatile components, and enzymatically produced pyruvic acid; and antioxidant activity in Chinese chive. We found that MeJA and SA at concentrations of 500 and 150 μM, respectively, significantly increased the levels of total chlorophyll, phenols and flavonoids, vitamin C, and volatile components and significantly reduced the accumulation of nitrate. In addition, compared with the control, 500 μM of MeJA significantly increased the soluble sugar and protein content, and 150 μM SA significantly increased the dry and fresh weight of Chinese chive. Furthermore, these concentrations of MeJA and SA significantly increased the enzymatic pyruvate content and the amount of sulfide and aromatic volatile compounds and improved the characteristic flavor compounds. The 2,2-diphenyl-1-picrylhydrazyl radical scavenging capacity, Trolox-equivalent antioxidant capacity, and ferric-reducing antioxidant capacity were significantly improved after a preharvest treatment with 500 μM MeJA and 150 μM SA, which could improve the antioxidant activity, thus improving the postharvest quality and preservation characteristics of Chinese chives. Taken together, a preharvest treatment with 500 μM MeJA and 150 μM SA is optimal to improve the growth, quality, antioxidant activity, and flavor of Chinese chive, thereby enhancing its commercial value.

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Section: Introductionmentioning

confidence: 99%

Effects of Preharvest Methyl Jasmonate and Salicylic Acid Treatments on Growth, Quality, Volatile Components, and Antioxidant Systems of Chinese Chives

et al. 2022

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“…In a previous study, 18 RNA-Seq libraries representing leaf, root, rhizome, mature flower, inflorescence stalk with its associated flower buds, and seed tissues of A. tuberosum were sequenced with Illumina Hiseq4000 platform. The raw data of all RNA-Seq samples obtained in this study were deposited in the NCBI Sequence Read Archive under the project with identification number PRJNA67394520 7 . After removal of low-quality reads, ambiguous reads, and adaptor sequences, de novo assembled transcriptome was annotated using Nr (NCBI non-redundant protein) database, which enables the identification of 223,529 tentative transcripts in A. tuberosum 7 .…”

Section: Resultsmentioning

confidence: 99%

“…The raw data of all RNA-Seq samples obtained in this study were deposited in the NCBI Sequence Read Archive under the project with identification number PRJNA67394520 7 . After removal of low-quality reads, ambiguous reads, and adaptor sequences, de novo assembled transcriptome was annotated using Nr (NCBI non-redundant protein) database, which enables the identification of 223,529 tentative transcripts in A. tuberosum 7 .…”

Section: Resultsmentioning

confidence: 99%

“…After 2-month growth, seedlings were transferred to a hydroponic cultivation system in a controlled greenhouse located in the BVRC. The plants were supplied with the nutrient solution, and the composition formula as previously described 7 . Tissue samples of 3-year-old seedlings were harvested from the mature leaves, roots, rhizome, mature flowers, inflorescences, and seeds.…”

Section: Methodsmentioning

confidence: 99%

“…Next-generation sequencing technology identified a number of genes linked with flavor biosynthesis as well as other metabolic processes in A. tuberosum 6 , 7 . Understanding the precise roles of these genes requires investigations on their expression profiles across different tissues and organs.…”

Section: Introductionmentioning

confidence: 99%

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Determination of reliable reference genes for gene expression studies in Chinese chive (Allium tuberosum) based on the transcriptome profiling

Tong

Han

et al. 2021

Sci Rep

Self Cite

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Chinese chive (Allium tuberosum) is widely cultivated around the world for its unique flavor, nutrient, and medicinal values, yet its molecular mechanism on flavor formation and other metabolic pathways remains intangible. The elucidation of these complex processes begins with investigating the expression of the genes of interest, however the appropriate reference genes (RGs) for normalizing the gene expression are still unavailable in A. tuberosum. To fill this lacuna, transcriptome-wide screening was undertaken to identify the most stable genes according to the analysis of their FPKM values. The expression stability of the RGs was further evaluated using geNorm, NormFinder, BestKeeper, and RefFinder algorithms. The comprehensive analysis showed that GLY1 and SKP1, instead of two traditionally used RGs (eIF1α and ACT2), were the most stable genes across diverse A. tuberosum tissues, indicating the necessity to carefully validate the stability of RGs prior to their use for normalizations. As indicated by geNorm, the normalizations with at least two RGs could give more accurate results. qRT-PCR experiments were conducted with randomly selected genes, demonstrating that normalization with a combination of GLY1 and SKP1 resulted in reliable normalization results. Our finding represents the first attempt toward establishing a standardized qRT-PCR analysis in this economically important vegetable.

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Karyotype analysis of Chinese chive germplasms with different ploidy levels and their evolutionary relationships

Yao,

Chen,

et al. 2023

Genet Resour Crop Evol

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Diploids, triploids and tetraploids were screened from the germplasm garden of Chinese chive in this study using ow cytometry and chromosome counting technologies. Their evolutionary status was analysed by karyotype comparison and microsporogenesis observation. Their relationships were determined and discussed. The karyotype formula of the diploids was 2n = 2x = 16 = 14m + 2sm (2SAT).The asymmetrical karyotype coe cient (As. K. C) was 57.02%, which indicates the 2A type. The karyotype formula of triploids was 2n = 3x= 24 = 18m + 6sm (2SAT), and the As. K. C was 57.49%, which indicates the 2A type. The karyotype formula of tetraploids was 2n = 4x = 32 = 26m + 4sm + 2st (2SAT), and the As. K. C was 57.80%, which indicates the 2A type. The karyotyping results suggested that the evolutionary status increased with increasing ploidy in Chinese chive. Abnormal chromosome synapsis and separation during microsporogenesis result in the formation of pollen of different sizes in triploids, suggesting that 2n gametes more easily form in triploids. Therefore, we speculate that tetraploids were formed by the combination of 2n gametes of a triploid and n gametes of a diploid. In this process, triploids are the most likely bridge for the formation of tetraploids in Chinese chive.

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Transcriptome landscapes of multiple tissues highlight the genes involved in the flavor metabolic pathway in Chinese chive (Allium tuberosum)

Cited by 15 publications

References 56 publications

Effects of Preharvest Methyl Jasmonate and Salicylic Acid Treatments on Growth, Quality, Volatile Components, and Antioxidant Systems of Chinese Chives

Effects of Preharvest Methyl Jasmonate and Salicylic Acid Treatments on Growth, Quality, Volatile Components, and Antioxidant Systems of Chinese Chives

Determination of reliable reference genes for gene expression studies in Chinese chive (Allium tuberosum) based on the transcriptome profiling

Karyotype analysis of Chinese chive germplasms with different ploidy levels and their evolutionary relationships

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