Transcriptome analysis to identify candidate genes related to chlorogenic acid biosynthesis during development of Korla fragrant pear in Xinjiang

Wen, Hao; Wang, Wenqiang; Xi, Jiang; Wu, Minyu; Bai, Haotian; Wu, Cuiyun; Shen, Lirong

doi:10.1016/j.fshw.2022.03.007

Cited by 9 publications

(10 citation statements)

References 44 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…David Chagné et al [ 36 ], for instance, demonstrated that the candidate genes Leucoanthocyanidin reductase (LAR1) and hydroxy cinnamate/quinate transferase (HCT/HQT) are likely to increase the content of polyphenolic compounds in apples, potentially facilitating the development of new apple cultivars containing fruits with higher concentrations of a variety of polyphenolic compounds with human health benefits. Furthermore, using de novo transcriptome assembly, researchers investigated the pivotal enzyme genes in the biosynthesis of chlorogenic acid in Korla fragrant pear, providing a theoretical basis for pear species selection and breeding in Xinjiang [ 11 ]. Therefore, this study focused on explaining the molecular basis of the difference between the bioactive components in ‘Ningqi No.…”

Section: Discussionmentioning

confidence: 99%

“…RNA-Seq has been utilized to discover and identify functional candidate genes involved in plant growth, development and secondary metabolite biosynthesis, as it is an affordable and trustworthy method for transcriptome analysis. For example, Wen et al [ 11 ] found some unigenes that are closely related to chlorogenic acid content, revealing the potential mechanism of chlorogenic acid biosynthesis through RNA-seq along with de novo transcriptome analysis in Korla fragrant pear grown in the Xinjiang region of China. Similarly, a comparative transcriptome analysis of Strombosiopsis tetrandra roots and leaves was performed, revealing potential genes that regulate the biosynthesis of isoquinoline alkaloids [ 12 ].…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Transcriptional deciphering of the metabolic pathways associated with the bioactive ingredients of wolfberry species with different quality characteristics

Liu,

Zheng,

Radani

et al. 2023

BMC Genomics

View full text Add to dashboard Cite

Background Wolfberry is rich in carotenoids, flavonoids, vitamins, alkaloids, betaines and other bioactive ingredients. For over 2,000 years, wolfberry has been used in China as a medicinal and edible plant resource. Nevertheless, the content of bioactive ingredients varies by cultivars, resulting in uneven quality across wolfberry cultivars and species. To date, research has revealed little about the underlying molecular mechanism of the metabolism of flavonoids, carotenoids, and other bioactive ingredients in wolfberry. Results In this context, the transcriptomes of the Lycium barbarum L. cultivar ‘Ningqi No. 1’ and Lycium chinense Miller were compared during the fruit maturity stage using the Illumina NovaSeq 6000 sequencing platform, and subsequently, the changes of the gene expression profiles in two types of wolfberries were analysed. In total, 256,228,924 clean reads were obtained, and 8817 differentially expressed genes (DEGs) were identified, then assembled by Basic Local Alignment Search Tool (BLAST) similarity searches and annotated using Gene Ontology (GO), Clusters of Orthologous Groups of proteins (KOG), and the Kyoto Encyclopedia of Genes and Genomes (KEGG). By combining these transcriptome data with data from the PubMed database, 36 DEGs related to the metabolism of bioactive ingredients and implicated in the metabolic pathway of carotenoids, flavonoids, terpenoids, alkaloids, vitamins, etc., were identified. In addition, among the 9 differentially expressed transcription factors, LbAPL, LbPHL11 and LbKAN4 have raised concerns. The protein physicochemical properties, structure prediction and phylogenetic analysis indicated that LbAPL and LbPHL11 may be good candidate genes involved in regulating the flavonoid metabolism pathway in wolfberry. Conclusions This study provides preliminary evidence for the differences in bioactive ingredient content at the transcription level among different wolfberry species, as well as a research and theoretical basis for the screening, cloning and functional analysis of key genes involved in the metabolism of bioactive ingredients in wolfberry.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Transcriptional deciphering of the metabolic pathways associated with the bioactive ingredients of wolfberry species with different quality characteristics

Liu,

Zheng,

Radani

et al. 2023

BMC Genomics

View full text Add to dashboard Cite

show abstract

“…Furthermore, the application of MutMap technology [78] has successfully identified the pathogenic gene OsRR22 in the rice salt-tolerant mutant hst1. The precise insights into gene transcript abundance are provided by RNA-seq-assisted expression profiling, which makes it easier to identify specific symptoms [79]. Pearl millet (Pennisetum glaucum), a cereal crop that is widely recognized for its exceptional heat tolerance, has been studied using a graph-based pan-genome approach in the context of genetic sequencing.…”

Section: Enhancing Crop Quality Through Molecular Breedingmentioning

confidence: 99%

The Development of Plant Genome Sequencing Technology and Its Conservation and Application in Endangered Gymnosperms

Hong,

Radian,

Manda

et al. 2023

Plants

View full text Add to dashboard Cite

Genome sequencing is widely recognized as a fundamental pillar in genetic research and legal studies of biological phenomena, providing essential insights for genetic investigations and legal analyses of biological events. The field of genome sequencing has experienced significant progress due to rapid improvements in scientific and technological developments. These advancements encompass not only significant improvements in the speed and quality of sequencing but also provide an unparalleled opportunity to explore the subtle complexities of genomes, particularly in the context of rare species. Such a wide range of possibilities has successfully supported the validation of plant gene functions and the refinement of precision breeding methodologies. This expanded scope now includes a comprehensive exploration of the current state and conservation efforts of gymnosperm gene sequencing, offering invaluable insights into their genomic landscapes. This comprehensive review elucidates the trajectory of development and the diverse applications of genome sequencing. It encompasses various domains, including crop breeding, responses to abiotic stress, species evolutionary dynamics, biodiversity, and the unique challenges faced in the conservation and utilization of gymnosperms. It highlights both ongoing challenges and the unveiling of forthcoming developmental trajectories.

show abstract

“…With the development of biotechnology, the in vivo synthesis pathway of CGA has been further studied. For example, the identification of key genes regulating CGA biosynthesis during the growth and development of edible plants such as sweet potato and pea through multi-omics and biotechnology, including key substrates and enzymes of different subtypes (PAL, C2Hs, HCTs), promotes the enrichment of CGA in plants (Yu et al, 2021;Wen et al, 2022) (Fig. 1).…”

Section: Dietary Source and Metabolism Of Chlorogenic Acidmentioning

confidence: 99%

“…The academic community generally believes that CGA is a secondary metabolite formed from phenylalanine through the shikimic acid pathway under the action of phenylalanine ammonia‐lyase in the process of plant aerobic respiration (Wang et al ., 2022). At present, there are three mainstream scientific hypotheses regarding the pathways of CGA synthesis in plants: (1) CGA is formed by condensation of quinic acid and caffeoyl‐CoA (Sonnante et al ., 2010), (2) CGA is produced by the reaction of quinic acid and caffeoyl glucose (the CGA recycling pathway in plant cells) (Wen et al ., 2022); and (3) CGA is formed by hydroxylation of coumaroylquinic acid (the secondary synthesis route of CGA) (Hoffmann et al ., 2003) (Fig. 1).…”

Section: Dietary Source and Metabolism Of Chlorogenic Acidmentioning

confidence: 99%

Recent advance in the biological activity of chlorogenic acid and its application in food industry

Niu

Chen

et al. 2023

Int J of Food Sci Tech

View full text Add to dashboard Cite

SummaryIn recent years, people have been paying more attention to food safety and dietary health. An increasing number of natural active ingredients are used in the field of food and nutrition. chlorogenic acid (CGA), as a phenolic acid compound extensive present in the diet, has been reported to have a variety of beneficial biological activities in alleviating and preventing various diet‐related chronic diseases. Moreover, it has various applications in food safety and food nutrition as a new type of food additive. In this context, this paper reviews the role of CGA as an antioxidant, antibacterial, hypotensive, hypoglycemic, anti‐obesity and gastrointestinal health agent starting from its distribution, source, in vivo metabolism and isolation. Furthermore, the practical application of chlorogenic acid in active food packaging, food quality control and nutritional dietary supplements is discussed. Finally, the future development and challenges of CGA in the field of food is described, providing new ideas for the application of CGA in food safety and dietary supplements and future research.

show abstract

Transcriptome analysis to identify candidate genes related to chlorogenic acid biosynthesis during development of Korla fragrant pear in Xinjiang

Cited by 9 publications

References 44 publications

Transcriptional deciphering of the metabolic pathways associated with the bioactive ingredients of wolfberry species with different quality characteristics

Transcriptional deciphering of the metabolic pathways associated with the bioactive ingredients of wolfberry species with different quality characteristics

The Development of Plant Genome Sequencing Technology and Its Conservation and Application in Endangered Gymnosperms

Recent advance in the biological activity of chlorogenic acid and its application in food industry

Contact Info

Product

Resources

About