Transcriptional profiling of <i>Impatiens walleriana</i> genes through different stages of downy mildew infection reveals novel genes involved in disease susceptibility

Suarez, S. N.; Za, Naveed; Gs, Ali

doi:10.1101/622480

Cited by 4 publications

(3 citation statements)

References 11 publications

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“…Number of published reference transcriptomes for this genus is very limited. Transcriptome of I. walleriana (64) was also previously sequenced and its transcriptome size (121 497 contigs) is comparable with our results. As all our species were cultivated in identical conditions, the differences in transcriptome size between species can be caused by different habitats of plant origin and history of each species which cause changes in gene expression due to gene expression regulation, epigenetic mechanisms, transposon activation, sequence changes, different combinations of regulatory factors and/or increased gene dosage.…”

Section: Discussionsupporting

confidence: 85%

Comparative transcriptomics of sevenImpatiensspecies

Šurinová

Stočes²,

Dostálek

et al. 2021

Preprint

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Impatiens is a genus containing more than 1000 species. Thanks to its size, it is a unique system for studying species diversification in natural populations. This study focused on the characterization of novel transcriptomes from seven Impatiens species originating from Nepal. Leave transcriptome of Impatines balsamina L. , I. racemosa DC. , I. bicornuta Wall , I. falcifer Hook , I. devendrae Pusalkar, I. scullyi Hook and I. scabrida DC were sequenced and compared. Reads were de novo assembled and aligned to 92 035-226 081 contigs. We identified 14 728 orthology groups shared among all the species and 3 020 which were unique to a single species. In single species, 2536-3009 orthology groups were under selection from which 767 were common for all species. Six of the seven investigated species shared 77% of gene families with I. bicornuta being the most distinct species. Specific gene families involved in response to different environmental stimuli were closely described. Impatiens bicornuta selection profile shared selection on zing finger protein structures and flowering regulation and stress response proteins with the other investigated species. Overall, the study showed substantial similarity in patterns of selections on transcribed genes across the species suggesting similar evolutionary pressures. This suggests that the species group may have evolved via adaptive radiation.

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Section: Discussionsupporting

confidence: 85%

Comparative transcriptomics of sevenImpatiensspecies

Šurinová

Stočes²,

Dostálek

et al. 2021

Preprint

View full text Add to dashboard Cite

show abstract

“…High-throughput RNA sequencing has gained popularity for exploring gene expression changes in plants during oomycete pathogen infections [23,24]. This technology provides insight into expression changes during the basic defence response and helps to elucidate the complex resistance mechanism in plants by comparing the gene expression between susceptible and resistant varieties after infection.…”

Section: Introductionmentioning

confidence: 99%

Comparative transcriptome profiling of resistant and susceptible foxtail millet responses to Sclerospora graminicola infection

Wang

Han

et al. 2022

Preprint

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Background: Downy mildew of foxtail millet, which is caused by the biotrophic oomycetes Sclerospora graminicola (Sacc.) Schroeter, is one of the most disruptive diseases in foxtail millet. The foxtail millet-S. gramnicola interaction is very poor and largely unexplored. Transcriptome sequencing technology is helpful to reveal the interaction mechanism between foxtail millet and pathogen. Results: In this study, Transmission electron microscopy observation of leaves infected by S. gramnicola showed that the structures of organelles in the host cells were gradually deformed and damaged, or even disappeared from 3- to 7-leaf stages. However, organelles in leaves of resistant varieties were rarely damaged. Meanwhile, the activities of seven cell wall degrading enzymes in resistant and susceptible varieties were also quite different after pathogen induced. Subsequently, we have compared the transcriptional profiles between resistant G1 and high susceptible variety Jingu21 in response to S.graminicola infection at 3, 5, 7 leave stages using the RNA-Seq technology. 473 and 1433 differentially expressed genes (DEGs) were identified in resistance and susceptible varieties, respectively. The pathway analysis of DEGs showed that the highly enriched categories were related to glutathione metabolism, plant hormone signaling, phenylalanine metabolism and cutin, suberine and wax biosynthetic. Some defence-related genes were also revealed in the DEGs, including leucine-rich protein kinase, Ser/Thr protein kinase, peroxidase, cell wall degrading enzymes, laccases and auxin response genes. Equally notable is that the pathyway of starch and sucrose metabolism was enrichment in three infected stages, most of the genes were specifically up-regulated at 5L in susceptible variety, indicating that the expression of genes might be beneficial to and promote the interaction between host and pathogen. Conclusions: Transcriptome sequencing was revealed that host resistance to S. graminicola was likely due to the activation of defense related genes, such as leucine-rich protein kinase, Ser/Thr protein kinase, and alteration of signaling pathways related to hormome. Our study identified pathyway and genes were contributed to the understanding at transcriptomic level of the interaction between foxtail millet and S.graminicola. The results will help to better understand downy mildew of foxtail millet resistance mechanism against S. graminicola.

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“…High-throughput RNA sequencing has gained popularity for exploring gene expression changes in plants during oomycete pathogen infections [ 24 , 25 ]. This technology provides insight into expression changes during the basic defence response and helps to elucidate the complex resistance mechanism in plants by comparing the gene expression between susceptible and resistant varieties after infection.…”

Section: Introductionmentioning

confidence: 99%

Comparative transcriptome profiling of resistant and susceptible foxtail millet responses to Sclerospora graminicola infection

Wang

Han

et al. 2022

BMC Plant Biol

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Background Downy mildew of foxtail millet, which is caused by the biotrophic oomycete Sclerospora graminicola (Sacc.) Schroeter, is one of the most disruptive diseases. The foxtail millet-S. graminicola interaction is largely unexplored. Transcriptome sequencing technology can help to reveal the interaction mechanism between foxtail millet and its pathogens. Results Transmission electron microscopy observations of leaves infected with S. graminicola showed that the structures of organelles in the host cells gradually became deformed and damaged, or even disappeared from the 3- to 7-leaf stages. However, organelles in the leaves of resistant variety were rarely damaged. Moreover, the activities of seven cell wall degrading enzymes in resistant and susceptible varieties were also quite different after pathogen induction and most of enzymes activities were significantly higher in the susceptible variety JG21 than in the resistant variety G1 at all stages. Subsequently, we compared the transcriptional profiles between the G1 and JG21 in response to S. graminicola infection at 3-, 5-, and 7-leaf stages using RNA-Seq technology. A total of 473 and 1433 differentially expressed genes (DEGs) were identified in the resistant and susceptible varieties, respectively. The pathway analysis of the DEGs showed that the highly enriched categories were related to glutathione metabolism, plant hormone signalling, phenylalanine metabolism, and cutin, suberin and wax biosynthesis. Some defence-related genes were also revealed in the DEGs, including leucine-rich protein kinase, Ser/Thr protein kinase, peroxidase, cell wall degrading enzymes, laccases and auxin response genes. Our results also confirmed the linkage of transcriptomic data with qRT-PCR data. In particular, LRR protein kinase encoded by Seita.8G131800, Ser/Thr protein kinase encoded by Seita.2G024900 and Seita. 2G024800, which have played an essential resistant role during the infection by S. graminicola. Conclusions Transcriptome sequencing revealed that host resistance to S. graminicola was likely due to the activation of defence-related genes, such as leucine-rich protein kinase and Ser/Thr protein kinase. Our study identified pathways and genes that contribute to the understanding of the interaction between foxtail millet and S. graminicola at the transcriptomic level. The results will help us better understand the resistance mechanism of foxtail millet against S. graminicola.

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Transcriptional profiling of Impatiens walleriana genes through different stages of downy mildew infection reveals novel genes involved in disease susceptibility

Cited by 4 publications

References 11 publications

Comparative transcriptomics of sevenImpatiensspecies

Comparative transcriptomics of sevenImpatiensspecies

Comparative transcriptome profiling of resistant and susceptible foxtail millet responses to Sclerospora graminicola infection

Comparative transcriptome profiling of resistant and susceptible foxtail millet responses to Sclerospora graminicola infection

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