Opine biosynthesis in naturally transgenic plants: Genes and products

Matveeva, T. V.; Otten, Léon

doi:10.1016/j.phytochem.2021.112813

Cited by 15 publications

(9 citation statements)

References 127 publications

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“…A fragment of this plasmid called T‐DNA (transferred DNA) is inserted into the plant genome making it naturally transgenic. Since the first discovery of this exceptional natural gene editing phenomenon T‐DNA (or cT‐DNA) was found in many plant genomes (Matveeva & Otten, 2021). Among other biosynthetic genes in those transgenic regions the most frequent ones are coding for opine dehydrogenases which are also termed opine synthases in this case (Vladimirov et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

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Opine dehydrogenases, an underexplored enzyme family for the enzymatic synthesis of chiral amines

Telek

Molnár

Vértessy

et al. 2023

Biotech & Bioengineering

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Opines and opine‐type chemicals are valuable natural products with diverse biochemical roles, and potential synthetic building blocks of bioactive compounds. Their synthesis involves reductive amination of ketoacids with amino acids. This transformation has high synthetic potential in producing enantiopure secondary amines. Nature has evolved opine dehydrogenases for this chemistry. To date, only one enzyme has been used as biocatalyst, however, analysis of the available sequence space suggests more enzymes to be exploited in synthetic organic chemistry. This review summarizes the current knowledge of this underexplored enzyme class, highlights key molecular, structural, and catalytic features with the aim to provide a comprehensive general description of opine dehydrogenases, thereby supporting future enzyme discovery and protein engineering studies.

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Section: Introductionmentioning

confidence: 99%

“…A fragment of this plasmid called T-DNA (transferred DNA) is inserted into the plant genome making it naturally transgenic. Since the first discovery of this exceptional natural gene editing phenomenon T-DNA (or cT-DNA) was found in many plant genomes (Matveeva & Otten, 2021).…”

mentioning

confidence: 99%

Opine dehydrogenases, an underexplored enzyme family for the enzymatic synthesis of chiral amines

Telek

Molnár

Vértessy

et al. 2023

Biotech & Bioengineering

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“…rolC is considered the most conserved of all rol genes and has a minor impact on root formation (Makhzoum et al, 2013). T-DNA also contains genes that encode enzymes that direct the production of opines, which are synthesized and excreted by transformed cells and consumed as a source of carbon and nitrogen by A. rhizogenes (Matveeva and Otten, 2021). The second region of T-DNA is TR-DNA which contains genes related to auxin biosynthesis, known as aux1 and aux2.…”

Section: Introductionmentioning

confidence: 99%

Using machine learning to link the influence of transferred Agrobacterium rhizogenes genes to the hormone profile and morphological traits in Centella asiatica hairy roots

et al. 2022

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Hairy roots are made after the integration of a small set of genes from Agrobacterium rhizogenes in the plant genome. Little is known about how this small set is linked to their hormone profile, which determines development, morphology, and levels of secondary metabolite production. We used C. asiatica hairy root line cultures to determine the putative links between the rol and aux gene expressions with morphological traits, a hormone profile, and centelloside production. The results obtained after 14 and 28 days of culture were processed via multivariate analysis and machine-learning processes such as random forest, supported vector machines, linear discriminant analysis, and neural networks. This allowed us to obtain models capable of discriminating highly productive root lines from their levels of genetic expression (rol and aux genes) or from their hormone profile. In total, 12 hormones were evaluated, resulting in 10 being satisfactorily detected. Within this set of hormones, abscisic acid (ABA) and cytokinin isopentenyl adenosine (IPA) were found to be critical in defining the morphological traits and centelloside content. The results showed that IPA brings more benefits to the biotechnological platform. Additionally, we determined the degree of influence of each of the evaluated genes on the individual hormone profile, finding that aux1 has a significant influence on the IPA profile, while the rol genes are closely linked to the ABA profile. Finally, we effectively verified the gene influence on these two specific hormones through feeding experiments that aimed to reverse the effect on root morphology and centelloside content.

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“…Если говорить об изучении функций генов клТ-ДНК пГМО, то наибольший успех был достигнут при исследовании именно генов опин-синтаз. В некоторых растениях удалось показать синтез опинов (Matveeva, Otten, 2021).…”

Section: Introductionunclassified

Expression sequences of opine synthase genes in natural GMOs based on analysis of their transcriptomes

Bogomaz

Matveeva

2022

Biotehnologiâ i selekciâ rastenij

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Agrobacterium is a natural genetic material delivery system that humans use to produce genetically modified plants (GMO). In nature, GMOs also occur with the participation of agrobacteria. In 2019, the list of known natural GMOs was expanded by an order of magnitude, and facts were found in favor of the expression of agrobacterial genes in natural GMOs. The frequency of this phenomenon for dicotyledon plants has been estimated at 7 percent. Opine synthase genes turned out to be the predominant ones of agrobacterial origin in natural GMOs. They probably perform important functions in natural GMOs. In 2021, an article was published with an updated list of natural GMOs, but the list of genes expressed in natural GMOs has not been updated since 2019.The aim of this work is to update the list of opine synthase genes expressed in natural GMOs. The research methods included bioinformatic search using queries based on the sequences of opine synthase proteins from Agrobacterium rhizogenes, A. tumefaciens and A. vitis, their homologues from Ipomoea and Nicotiana plants, in the TSA database of the National Center for Biotechnology Information (NCBI) using the TBLASTN algorithm with default settings.The study resulted in the addition of another 18 species to the list of natural GMOs with expressed opine synthase genes, 12 of which belong to genera where natural GMOs were not previously described (Albizia, Cenostigma, Averrhoa, Gynostemma, Eurycoma, Gypsophila, Myosoton, Camptotheca, Gustavia, Eschweilera, Cestrum, Jasminum, and Paulownia).An analysis of the diversity of the detected sequences showed that homologues of cucumopine and mikimopine synthase predominate among them. The end products of these genes are optical isomers. In the future, it makes sense to start studying the functions of opine synthases in plants from these genes.

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Opine biosynthesis in naturally transgenic plants: Genes and products

Cited by 15 publications

References 127 publications

Opine dehydrogenases, an underexplored enzyme family for the enzymatic synthesis of chiral amines

Opine dehydrogenases, an underexplored enzyme family for the enzymatic synthesis of chiral amines

Using machine learning to link the influence of transferred Agrobacterium rhizogenes genes to the hormone profile and morphological traits in Centella asiatica hairy roots

Expression sequences of opine synthase genes in natural GMOs based on analysis of their transcriptomes

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