RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida

Munir, Nigarish; Cheng, Chunzhen; Xia, Chaoshui; Xu, Xuming; Nawaz, Muhammad Azher; Iftikhar, Junaid; Chen, Yukun; Lin, Yuling; Zhang, Lai

doi:10.1371/journal.pone.0223519

Cited by 20 publications

(7 citation statements)

References 76 publications

(84 reference statements)

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“…As for the other metabolites discussed, a role of these alkaloids in the protection against P. cinnamomi can be suggested. Our results agree with those of Munir et al [ 80 ] on Gerbera hybrida , pointing out the role of the tyrosine metabolic pathway in response to the Phytophthora cryptogea root-rot-causing agent.…”

Section: Discussionsupporting

confidence: 93%

A Metabolome Analysis and the Immunity of Phlomis purpurea against Phytophthora cinnamomi

Neves

Figueiredo

Maia

et al. 2023

Plants

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Phlomis purpurea grows spontaneously in the southern Iberian Peninsula, namely in cork oak (Quercus suber) forests. In a previous transcriptome analysis, we reported on its immunity against Phytophthora cinnamomi. However, little is known about the involvement of secondary metabolites in the P. purpurea defense response. It is known, though, that root exudates are toxic to this pathogen. To understand the involvement of secondary metabolites in the defense of P. purpurea, a metabolome analysis was performed using the leaves and roots of plants challenged with the pathogen for over 72 h. The putatively identified compounds were constitutively produced. Alkaloids, fatty acids, flavonoids, glucosinolates, polyketides, prenol lipids, phenylpropanoids, sterols, and terpenoids were differentially produced in these leaves and roots along the experiment timescale. It must be emphasized that the constitutive production of taurine in leaves and its increase soon after challenging suggests its role in P. purpurea immunity against the stress imposed by the oomycete. The rapid increase in secondary metabolite production by this plant species accounts for a concerted action of multiple compounds and genes on the innate protection of Phlomis purpurea against Phytophthora cinnamomi. The combination of the metabolome with the transcriptome data previously disclosed confirms the mentioned innate immunity of this plant against a devastating pathogen. It suggests its potential as an antagonist in phytopathogens’ biological control. Its application in green forestry/agriculture is therefore possible.

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Section: Discussionsupporting

confidence: 93%

A Metabolome Analysis and the Immunity of Phlomis purpurea against Phytophthora cinnamomi

Neves

Figueiredo

Maia

et al. 2023

Plants

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“…SIN_1023218 encodes alanine glyoxylate aminotransferase 2, which is involved in the transfer and catalysis of amino acids (Liepman and Olsen, 2003). SIN_1023221 and SIN_1023287 encode 2-oxoglutarate-dependent dioxygenase and beta-glucosidase, respectively, which are essential enzymes in flavonoid and phenylpropanoid biosynthesis (Farrow and Facchini, 2014;Munir et al, 2019). These are all potential regulatory pathways related to seed coat pigment accumulation.…”

Section: Discussionmentioning

confidence: 99%

Genetic mapping of QTLs controlling brown seed coat traits by genome resequencing in sesame (Sesamum indicum L.)

Wang

Cui²,

Liu³

et al. 2023

Front. Plant Sci.

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IntroductionSesame seeds have become an irreplaceable source of edible oils and food products with rich nutrients and a unique flavor, and their metabolite contents and physiological functions vary widely across different seed coat colors. Although the quantitative trait loci (QTLs) for genetic variation in seed coat color have been extensively investigated, the identification of unique genetic loci for intermediate colors such as brown has not been reported due to their complexity.MethodsHere, we crossed the white sesame ‘Yuzhi No. 8’ (YZ8) and the brown sesame ‘Yanzhou Erhongpi’ (YZEHP) to construct a recombinant inbred line (RIL) population with consecutive self-fertilization for ten generations.ResultsThe selfed F1 seeds were brown which was controlled by a dominant gene. Based on the genotyping by whole-genome resequencing of the RILs, a major-effect QTL for brown coat color was identified through both bulk segregant analysis (BSA) and genetic linkage mapping in sesame, which was located within a 1.19 Mb interval on chromosome 6 (qBSCchr6). Moreover, we found that the YZEHP seed coat initially became pigmented at 20 days post-anthesis (DPA) and was substantially colored at 30 DPA. We screened 13 possible candidate genes based on the effects of genetic variants on protein coding and predicted gene functions. Furthermore, qRT‒PCR was used to verify the expression patterns of these genes in different post-anthesis developmental periods. We noted that in comparison to YZ8 seeds, YZEHP seeds had expression of SIN_1023239 that was significantly up-regulated 2.5-, 9.41-, 6.0-, and 5.9-fold at 15, 20, 25, and 30 DPA, respectively, which was consistent with the pattern of brown seed coat pigment accumulation.DiscussionThis study identified the first major-effect QTL for the control of the brown seed coat trait in sesame. This finding lays the foundation for further fine mapping and cloning as well as investigating the regulatory mechanism of seed coat color in sesame.

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“…The first step in the biosynthesis of ubiquinone and other terpenoid quinones is the generation of 4-coumaric acid from trans-cinnamic acid ester catalyzed by trans-cinnamic acid 4-monooxygenase, which is hydroxylated by 4-coumaric acid-coenzyme A ligase (4Cl) to generate β-coumaric acid-coenzyme A, which is involved in the flavonoid biosynthetic pathway [ 56 ]. Meanwhile, 4Cl plays an important role in plant biosynthesis and affects the accumulation of phenylpropane in plants [ 57 ]. In this study, some DEPs were found to be enriched in a large number of secondary metabolism-related pathways after drought stress, including flavonoid biosynthesis, terpene skeleton biosynthesis, carotenoid biosynthesis, sesquiterpene and triterpene biosynthesis, and phenol propane biosynthesis ( Table S 3 ).…”

Section: Discussionmentioning

confidence: 99%

TMT-based proteomic analysis of liquorice root in response to drought stress

et al. 2022

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Background Drought stress is a serious threat to land use efficiency and crop yields worldwide. Understanding the mechanisms that plants use to withstand drought stress will help breeders to develop drought-tolerant medicinal crops. Liquorice (Glycyrrhiza uralensis Fisch.) is an important medicinal crop in the legume family and is currently grown mostly in northwest China, it is highly tolerant to drought. Given this, it is considered an ideal crop to study plant stress tolerance and can be used to identify drought-resistant proteins. Therefore, to understand the effects of drought stress on protein levels of liquorice, we undertook a comparative proteomic analysis of liquorice seedlings grown for 10 days in soil with different relative water content (SRWC of 80%, 65%, 50% and 35%, respectively). We used an integrated approach of Tandem Mass Tag labeling in conjunction with LC–MS/MS. Results A total of 7409 proteins were identified in this study, of which 7305 total proteins could be quantified. There were 837 differentially expressed proteins (DEPs) identified after different drought stresses. Compared with CK, 123 DEPs (80 up-regulated and 43 down-regulated) were found in LS; 353 DEPs (254 up-regulated and 99 down-regulated) in MS; and 564 DEPs (312 up-regulated and 252 down-regulated) in SS.The number of differentially expressed proteins increased with increasing water stress, and the number of up-regulated proteins was higher than that of down-regulated proteins in the different drought stress treatments compared with the CK. Used systematic bioinformatics analysis of these data to identify informative proteins we showed that osmolytes such as cottonseed sugars and proline accumulated under light drought stress and improved resistance. Under moderate and severe drought stress, oxidation of unsaturated fatty acids and accumulation of glucose and galactose increased in response to drought stress. Under moderate and severe drought stress synthesis of the terpene precursors, pentacene 2,3-epoxide and β-coumarin, was inhibited and accumulation of triterpenoids (glycyrrhetinic acid) was also affected. Conclusions These data provide a baseline reference for further study of the downstream liquorice proteome in response to drought stress. Our data show that liquorice roots exhibit specific response mechanisms to different drought stresses.

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RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida

Cited by 20 publications

References 76 publications

A Metabolome Analysis and the Immunity of Phlomis purpurea against Phytophthora cinnamomi

A Metabolome Analysis and the Immunity of Phlomis purpurea against Phytophthora cinnamomi

Genetic mapping of QTLs controlling brown seed coat traits by genome resequencing in sesame (Sesamum indicum L.)

TMT-based proteomic analysis of liquorice root in response to drought stress

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