Transcriptional variation in glucosinolate biosynthetic genes and inducible responses to aphid herbivory on field-grown<i>Arabidopsis thaliana</i>

Sato, Yasuhiro; Tezuka, Ayumi; Kashima, Makoto; Deguchi, Ayumi; Shimizu‐Inatsugi, Rie; Yamazaki, Misako; Shimizu, Kentaro; Nagano, Atsushi J.

doi:10.1101/563486

Cited by 6 publications

(6 citation statements)

References 79 publications

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“…This enzymatic activity transfers a methyl group to a wide range of substrates, including several low molecular weight metabolites acting as plant hormones, and is key in phenylpropanoid, flavonoid and glucosinolate plant metabolic pathways 38 , 39 . Another notable expansion was found in orthogroup OG0007231, which contains seven genes in Moringa, five in Arabidopsis and none in the rest of species, encoding for members of the large family of GDSL-type esterases/lipases, formed by hydrolytic enzymes with multifunctional properties such as broad substrate specificity 40 , including Arabidopsis epithiospecifier modifier 1 (ESM1), which represses nitrile formation and favors isothiocyanate production during glucosinolate hydrolysis 41 , 42 .…”

Section: Resultsmentioning

confidence: 99%

Evolutionary analysis of the Moringa oleifera genome reveals a recent burst of plastid to nucleus gene duplications

Ojeda-López

Marczuk‐Rojas

Polushkina

et al. 2020

Sci Rep

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It is necessary to identify suitable alternative crops to ensure the nutritional demands of a growing global population. The genome of Moringa oleifera, a fast-growing drought-tolerant orphan crop with highly valuable agronomical, nutritional and pharmaceutical properties, has recently been reported. We model here gene family evolution in Moringa as compared with ten other flowering plant species. Despite the reduced number of genes in the compact Moringa genome, 101 gene families, grouping 957 genes, were found as significantly expanded. Expanded families were highly enriched for chloroplastidic and photosynthetic functions. Indeed, almost half of the genes belonging to Moringa expanded families grouped with their Arabidopsis thaliana plastid encoded orthologs. Microsynteny analysis together with modeling the distribution of synonymous substitutions rates, supported most plastid duplicated genes originated recently through a burst of simultaneous insertions of large regions of plastid DNA into the nuclear genome. These, together with abundant short insertions of plastid DNA, contributed to the occurrence of massive amounts of plastid DNA in the Moringa nuclear genome, representing 4.71%, the largest reported so far. Our study provides key genetic resources for future breeding programs and highlights the potential of plastid DNA to impact the structure and function of nuclear genes and genomes.

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Section: Resultsmentioning

confidence: 99%

Evolutionary analysis of the Moringa oleifera genome reveals a recent burst of plastid to nucleus gene duplications

Ojeda-López

Marczuk‐Rojas

Polushkina

et al. 2020

Sci Rep

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“…In contrast, no AOP3 loss-of-function mutant has been reported to date, which might be linked to specific defensive properties of AOP3-modified GSL present in the seeds and thus the seedlings of all A. thaliana genotypes. Constitutive expression of AOP3 in leaves does not occur in all accessions but can be induced upon attack 50 .…”

Section: Discussionmentioning

confidence: 97%

Repeated rearrangement of the GSL‐AOP locus contributed to spatio‐temporal variation in defense chemistry in Arabidopsis

Weber¹,

Krych²,

Burow³

2020

Preprint

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Plants coordinate metabolic and developmental processes with the help of genetically variable, interconnected regulatory networks. The GSL-AOP locus in Arabidopsis thaliana encodes enzymes involved in the biosynthesis of glucosinolate defense compounds and has been attributed regulatory functions e.g. in flowering time control. To correlate genetic and phenotypic variation linked to GSL-AOP, we conducted a phylogenetic analysis across 1135 accessions and found that the available short-read sequencing data does not fully resolve the structural diversity in the locus. We analyzed a selection of 74 accessions for glucosinolate profiles and flowering time under different conditions and acquired long-read sequence information for glucosinolate and flowering time loci. Especially in the Caucasus region, structural variation in GSL-AOP was associated with conditional, tissue-specific glucosinolate profiles. Variation in FLC among the Caucasian accessions correlated with variation in the flowering time response to vernalization, suggesting that local adaptation has shaped defense and development in an orchestrated manner.

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“…To further identify their biological functions, these DEGs were subjected to GO enrichment analysis. GO is a model biological framework that defines concepts used to describe gene function, and relationships between these concepts (Ana et al 2005;Sato et al 2019;Wang et al 2019). Based on sequence homology, DEGs were assigned to three general categories: cellular component (CC), molecular function (MF), and biological process (BP).…”

Section: Functional Annotation Of Degsmentioning

confidence: 99%

Comparative analysis of transcriptome and metabolome uncovers the metabolic differences between Dendrobium officinale protocorms and mature stems

Mai

Yang

et al. 2020

All Life

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Dendrobium officinale caulis is the dried mature stems (Mat) of D. officinale Kimura et Migo. D. officinale protocorms (DOPs) are the conical embryonic tissues formed after seed germination. Previous studies suggest that these different plant parts possess similar pharmacological activities. However, the metabolic profiles and gene expression across different growth stages of D. officinale remain unknown. In this study, metabolome analysis based on GC and LC/MS/MS was carried out to assess the metabolic profile of both DOPs and Mat. Transcriptome analysis was used to reveal internal relationships between metabolites and the differing gene regulation. The results indicated that although DOPs and Mat had a similar chemical composition, they exhibited different patterns of content. GO classification and KEGG clustering of the differentially expressed genes (DEGs) between DOPs and Mat demonstrated that gene enrichment was mainly related to flavonoid biosynthetic and metabolic processes, carbohydrate metabolic processes, and polysaccharide catabolic processes. An alteration in gene expression related to specific metabolic pathways offered a probable explanation for the observed differences in metabolites between DOPs and Mat. This work provides a foundation for subsequent studies regarding the biosynthetic pathways of related metabolites from D. officinalis.

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Transcriptional variation in glucosinolate biosynthetic genes and inducible responses to aphid herbivory on field-grownArabidopsis thaliana

Cited by 6 publications

References 79 publications

Evolutionary analysis of the Moringa oleifera genome reveals a recent burst of plastid to nucleus gene duplications

Evolutionary analysis of the Moringa oleifera genome reveals a recent burst of plastid to nucleus gene duplications

Repeated rearrangement of the GSL‐AOP locus contributed to spatio‐temporal variation in defense chemistry in Arabidopsis

Comparative analysis of transcriptome and metabolome uncovers the metabolic differences between Dendrobium officinale protocorms and mature stems

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