Biotechnological Advances in Lycopene β-Cyclases

Zhao, Zilong; Liu, Zhen; Mao, Xiangzhao

doi:10.1021/acs.jafc.0c04814

Cited by 17 publications

(24 citation statements)

References 129 publications

(297 reference statements)

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“…Since studies about the amino acid residues responsible for catalytic sites are still lacking, a phylogenetic tree of LYC-b candidates was constructed to identify likely functional orthologs. The carotenoid genes, neoxanthin synthase (NSY) and lycopene ε-cyclase (LYC-ε), were taken as an outgroup due to their high structure similarity to LYC-b [65] (Additional File 2, Additional File 3).…”

Section: Resultsmentioning

confidence: 99%

KIPEs3: Automatic annotation of biosynthesis pathways

Rempel

Pucker

2022

Preprint

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Background: Flavonoids and carotenoids are pigments involved in stress mitigation and numerous other processes. Both pigment classes can contribute to flower and fruit coloration. Carotenoids and flavonoid aglycons are produced by a pathway that is largely conserved across land plants. Glycosylations, acylations, and methylations of the flavonoid aglycones can be species-specific and lead to a plethora of biochemically diverse flavonoids. We previously developed KIPEs for the automatic annotation of biosynthesis pathways and presented an application on the flavonoid aglycone biosynthesis. Findings: KIPEs3 is an improved version with additional features and the potential to identify not just the core biosynthesis players, but also candidates involved in the decoration steps and in the transport of flavonoids. Functionality of KIPEs3 is demonstrated through the analysis of the flavonoid biosynthesis in Arabidopsis thaliana Nd-1, Capsella grandiflora, and Dioscorea dumetorum. We demonstrate the applicability of KIPEs to other pathways by adding the carotenoid biosynthesis to the repertoire. As a proof of concept, the carotenoid biosynthesis was analyzed in the same species and Daucus carota. KIPEs3 is available as an online service to enable access without prior bioinformatics experience. Conclusion: KIPEs3 facilitates the automatic annotation and analysis of biosynthesis pathways with a consistent and high quality in a large number of plant species. Numerous genome sequencing projects are generating a huge amount of data sets that can be analyzed to identify evolutionary patterns and promising candidate genes for biotechnological and breeding applications.

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Section: Resultsmentioning

confidence: 99%

KIPEs3: Automatic annotation of biosynthesis pathways

Rempel

Pucker

2022

Preprint

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“…To date, the crystal structure of any LCYB protein of any species has not been reported [32]. Through i-TASSER, three-dimensional structure prediction can be done by multiple threading alignment and iterative structural assembly based on their similarity to other better known proteins in database [20].…”

Section: Three-dimensional Structure Of Lcyb and Lcye Putative Proteinsmentioning

confidence: 99%

In Silico Characterization of Lycopene Beta Cyclase (LCYB) and Lycopene Epsilon Cyclase (LCYE) Genes from DH-Pahang (Musa acuminata, A Genome) and DH-PKW (Musa balbisiana, B Genome)

Wiprayoga

Meitha²,

Dwivany³

2023

J.Trop.Life.Science

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Alpha (α) and beta (β)-carotene are among the nutritious contents of bananas, with the unique feature of a high ratio of α-/β-carotene. Research on the gene and protein of the key enzymes determining the ratio of α-/β-carotene in bananas, namely lycopene beta cyclase (LCYB) and lycopene epsilon cyclase (LCYE), is currently not well defined. Hence, this study aimed to compare the characters of the LCYB and LCYE genes and their putative proteins from Musa acuminata 'DH-Pahang' and Musa balbisiana 'DH-PKW'. The corresponding nucleotide sequences from both species were aligned to detect similarities in the gene structure. Their protein products were characterized at the primary and tertiary levels. The phylogenetic tree was constructed based on nucleotide and protein sequences. The result showed that the gene structure between these two species is similar in LCYB in chromosome 9 but different in LCYB in chromosome 7 and LCYE. The presence of cis-acting regulatory elements in response to light dominated the 2000 nucleotide region of the 5'UTR of LCYB and LCYE genes in both species. Based on protein alignment and domain analysis, the NADB_Rossmann superfamily domain was detected in both LCYB and LCYE. Alignment of the three-dimensional protein structure showed a significant difference between MaLCYB.c07 and MbLCYB.c07 only. The phylogenetic tree based on protein sequences indicated the distant relationship of MaLCYB.c07 and MbLCYB.c07 with other LCYB ingroup OTUs. The results of this study could provide a molecular basis related to the exploration of bananas as a promising functional food to meet the needs of provitamin A.

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“…1). 31 Later, α ‐carotene is converted into lutein. Therefore, α ‐carotene as an intermediate is difficult to accumulate in large quantities 20 .…”

Section: Biosynthesis Of α‐Carotenementioning

confidence: 99%

α‐Carotene: a valuable carotenoid in biological and medical research

Zhao

Chen

Ci³

et al. 2022

J Sci Food Agric

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α‐Carotene, one of the C40 carotenes, is a natural lipid‐soluble terpene. The chemical structure of α‐carotene is based on the unsaturated polyene chain skeleton, with an ε‐ring and a β‐ring on each side of the skeleton. α‐Carotene is widely found in dietary fruits and vegetables, and the concentration depends on the plant species. In addition, processing methods and storage conditions used in the food and medical industries can alter the concentration of α‐carotene in raw materials. This review of α‐carotene summarizes the major studies on chemical structure, source, extraction, detection, biosynthesis, processing effect, bioactivity, medicine, and biotechnology. Whether α‐carotene supplementation or a diet rich in fruits and vegetables has a positive effect on the prevention of cancer, cardiovascular disease, and other diseases is the focus of this study. © 2022 Society of Chemical Industry.

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Biotechnological Advances in Lycopene β-Cyclases

Cited by 17 publications

References 129 publications

KIPEs3: Automatic annotation of biosynthesis pathways

KIPEs3: Automatic annotation of biosynthesis pathways

In Silico Characterization of Lycopene Beta Cyclase (LCYB) and Lycopene Epsilon Cyclase (LCYE) Genes from DH-Pahang (Musa acuminata, A Genome) and DH-PKW (Musa balbisiana, B Genome)

α‐Carotene: a valuable carotenoid in biological and medical research

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