Transcriptome sequencing and expression profiling of genes involved in daylily (<i>Hemerocallis citrina</i> Borani) flower development

Yang, Huanhuan; Zhang, Yufeng; Zhen, Xin; Guo, Deliang; Guo, Changhong; Shu, Yongjun

doi:10.1080/13102818.2020.1788420

Cited by 6 publications

(2 citation statements)

References 27 publications

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“…tools [15]. Differentially expressed genes were identified using the Cuffdiff program, and the changes were screened with the threshold |log 2 ratio| > 1 and FDR < 0.01 [16].…”

Section: Sequencing Data Analysis and Identification Of Differentially Expressed Genesmentioning

confidence: 99%

Transcriptional profiling of alkaline stress-induced defense responses in soybean (Glycine max)

Qiao

Nisa

et al. 2021

Biotechnology & Biotechnological Equipment

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Alkaline stress has been considered a major environmental threat to plant growth and agricultural production. Even though the mechanisms have been characterized in some plants, the information about the alkaline stress-induced defense responses in soybean is insufficient. To identify defense related genes, the transcriptional profiles of soybean seedlings were examined using RNA sequencing under alkaline stress. The results showed that a total of 4603 genes were up-regulated and 1659 were down-regulated compared to expression in control plants. Further, the functional enrichment analysis showed that these differentially expressed genes were significantly enriched in 43 pathways and mainly associated with catalytic activity and binding, metabolic process, cellular process and cell progress. Then, 19 transcription factors from AP2-EREBF, MYB families and isoflavone related genes were chosen and identified to be induced under alkaline stress by quantitative real-time polymerase chain reaction (qRT-PCR). Taken together, our results highlight the differentially expressed genes and identify a set of genes associated with the response to alkaline stress, which findings establish a foundation for further analyses of soybean alkaline stress tolerance mechanisms.

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“…tools [15]. Differentially expressed genes were identified using the Cuffdiff program, and the changes were screened with the threshold |log 2 ratio| > 1 and FDR < 0.01 [16].…”

Section: Sequencing Data Analysis and Identification Of Differentially Expressed Genesmentioning

confidence: 99%

Transcriptional profiling of alkaline stress-induced defense responses in soybean (Glycine max)

Qiao

Nisa

et al. 2021

Biotechnology & Biotechnological Equipment

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show abstract

“…RNA-Seq is an efficient and powerful tool for profiling the complete gene space of any organism, and it is used to study the flowering regulation mechanism in many plants, such as M. sativa , Gossypium hirsutum , Paeonia suffruticosa , and Hemerocallis citrina [ 1 , 30 , 47 , 48 ]. Metabolomics is the characterization of the metabolites that are present in an organism based on gas chromatography–mass spectrometry (GC-MS), liquid chromatography–mass spectrometry (LC-MS), and nuclear magnetic resonance platforms, and it is divided into four categories: the target analysis of metabolites, metabolic profiling, metabolomics, and metabolic fingerprint analysis [ 49 ].…”

Section: Introductionmentioning

confidence: 99%

Integrative Analyses of Transcriptomes and Metabolomes Reveal Associated Genes and Metabolites with Flowering Regulation in Common Vetch (Vicia sativa L.)

Zhou

Cui

Dong

et al. 2022

IJMS

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As an important source of protein for livestock and human consumption, Vicia sativa is cultivated worldwide, but its seed production is hampered at high altitudes because of the short frost-free period. Flowering represents the transition from a vegetative to a reproductive period, and early flowering benefits plant seed production at high altitudes. However, the molecular mechanisms of flowering regulation in V. sativa remain elusive. In the present study, two V. sativa accessions with different flowering characteristics were used: Lan3 (early-flowering) was cultivated by our laboratory, and 503 (late-flowering) was selected from 222 V. sativa accessions after three years of field experiments. The shoot samples (shoot tip length = 10 cm) of these two accessions were collected 63, 70, and 77 days after sowing, and the molecular regulatory mechanism of the flowering process was identified by integrative analyses of the transcriptomes and metabolomes. Kyoto Encyclopedia of Genes and Genomes enrichment showed that the synthesis and signal transduction of plant hormone pathways were the most enriched pathways in 4,274 differentially expressed genes (DEGs) and in 259 differential metabolites between Lan3 and 503. Moreover, the contents of three metabolites related to salicylic acid biosynthesis and the transcription levels of two DEGs related to salicylic acid signal transduction in Lan3 were higher than those in 503. Further verification in various accessions indicated that salicylic acid metabolism may be involved in the flowering regulation process of V. sativa. These findings provide valuable information for understanding the flowering mechanism and for promoting breeding research in V. sativa.

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Integrated metabolomic and transcriptomic analysis revealed the transition of functional components in edible flower buds of Hemerocallis citrina Baroni

Jiang,

Zhang,

Zhang

et al. 2024

Food Chemistry: X

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Transcriptome sequencing and expression profiling of genes involved in daylily (Hemerocallis citrina Borani) flower development

Cited by 6 publications

References 27 publications

Transcriptional profiling of alkaline stress-induced defense responses in soybean (Glycine max)

Transcriptional profiling of alkaline stress-induced defense responses in soybean (Glycine max)

Integrative Analyses of Transcriptomes and Metabolomes Reveal Associated Genes and Metabolites with Flowering Regulation in Common Vetch (Vicia sativa L.)

Integrated metabolomic and transcriptomic analysis revealed the transition of functional components in edible flower buds of Hemerocallis citrina Baroni

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