Integration of transcriptome and proteome analyses reveal molecular mechanisms for formation of replant disease in <i>Nelumbo nucifera</i>

Chen, Dong; Wang, Ran; Zheng, Xianwei; Jin, Lifeng; Wang, Hongjiao; Chen, Shuang; Shi, Yannan; Wang, Mengqi; Liu, Die; Yang, Yanhui; Hu, Zhongli

doi:10.1039/c8ra06503a

Cited by 11 publications

(7 citation statements)

References 41 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…DEGs were enriched in plant hormone signal transduction, MAPK signaling pathway-plant, phenylalanine metabolism and plant pathogen interactions under cinnamic acid treatment. Dong C. et al (2018) found that phenylpropanoid biosynthesis, flavonoid biosynthesis, metabolic pathways and plant MAPK signaling pathways were significantly activated in the roots of Nelumbo nucifera . In this study, it was found that the DEGs of patchouli were significantly enriched in GO terms such as metabolic process, stress response, transporter activity, structural and molecular activity.…”

Section: Discussionmentioning

confidence: 97%

Combined physiological and transcriptome analysis revealed the response mechanism of Pogostemon cablin roots to p-hydroxybenzoic acid

et al. 2022

View full text Add to dashboard Cite

Pogostemon cablin (patchouli) cultivation is challenged by serious soil sickness, of which autotoxins accumulation is a major cause. p-hydroxybenzoic acid (p-HBA) is one of the main autotoxins of patchouli. However, the molecular mechanism underlying the response of patchouli to p-HBA remains unclear. In this study, RNA-sequencing combined with physiological analysis was used to monitor the dynamic transcriptomic and physiological changes in patchouli seedlings 0, 6, 12, 24, 48, and 96 h after p-HBA treatment. p-HBA stress inhibited root biomass accumulation, induced excessive hydrogen peroxide accumulation and lipid peroxidation, and activated most antioxidant enzymes. Compared with that of the control, the osmotic adjustment substance content was elevated with treatment. Subsequently, 15,532, 8,217, 8,946, 2,489, and 5,843 differentially expressed genes (DEGs) at 6, 12, 24, 48, and 96 h after p-HBA treatment, respectively, were identified in patchouli roots. GO functional enrichment analysis showed that the DEGs were enriched mainly in plasma membrane, defense response, response to chitin, DNA-binding transcription factor activity and abscisic acid-activated signaling pathway. The upregulated genes were involved in glycolysis/gluconeogenesis, cysteine and methionine metabolism, starch and sucrose metabolism, biosynthesis of unsaturated fatty acids, and linoleic acid metabolism. Genes associated with MAPK signaling pathway-plant, plant-pathogen interaction, plant hormone signal transduction were downregulated with p-HBA treatment. These pathways are related to root browning and rotting, leading to plant death.

show abstract

Section: Discussionmentioning

confidence: 97%

Combined physiological and transcriptome analysis revealed the response mechanism of Pogostemon cablin roots to p-hydroxybenzoic acid

et al. 2022

View full text Add to dashboard Cite

show abstract

“…This phenomenon led directly to a decline in the ability of patchouli roots to absorb nutrients and water under continuous cropping, thereby reducing crop yield and quality. Furthermore, studies have revealed that continuous cropping aggravates the degree of cell membrane lipid peroxidation, enhances or inhibits the activities of the plant protective enzymes POD, SOD, and CAT, increases the level of MDA, and damages the normal structure and function of the membrane (Zhang et al, 2010(Zhang et al, , 2011Dong et al, 2018). In this study, we examined the influence of continuous cropping on some physiological and biochemical characteristics of patchouli.…”

Section: Continuous Cropping Significantly Changes the Physiological ...mentioning

confidence: 97%

Integrated Analysis of Physiological, mRNA Sequencing, and miRNA Sequencing Data Reveals a Specific Mechanism for the Response to Continuous Cropping Obstacles in Pogostemon cablin Roots

Yan

Cao

et al. 2022

Front. Plant Sci.

View full text Add to dashboard Cite

Pogostemon cablin (patchouli) is a commercially important medicinal and industrial crop grown worldwide for its medicinal and aromatic properties. Patchoulol and pogostone, derived from the essential oil of patchouli, are considered valuable components in the cosmetic and pharmaceutical industries. Due to its high application value in the clinic and industry, the demand for patchouli is constantly growing. Unfortunately, patchouli cultivation has suffered due to severe continuous cropping obstacles, resulting in a significant decline in yield and quality. Moreover, the physiological and transcriptional changes in patchouli in response to continuous cropping obstacles remain unclear. This has greatly restricted the development of the patchouli industry. To explore the mechanism underlying the rapid response of patchouli roots to continuous cropping stress, integrated analysis of the transcriptome and miRNA profiles of patchouli roots under continuous and noncontinuous cropping conditions in different growth periods was conducted using RNA sequencing (RNA-seq) and miRNA-seq and complemented with physiological data. The physiological and biochemical results showed that continuous cropping significantly inhibited root growth, decreased root activity, and increased the activity of antioxidant enzymes (superoxide dismutase, peroxidase, and catalase) and the levels of osmoregulators (malondialdehyde, soluble protein, soluble sugar, and proline). Subsequently, we found 4,238, 3,494, and 7,290 upregulated and 4,176, 3,202, and 8,599 downregulated differentially expressed genes (DEGs) in the three growth periods of continuously cropped patchouli, many of which were associated with primary carbon and nitrogen metabolism, defense responses, secondary metabolite biosynthesis, and transcription factors. Based on miRNA-seq, 927 known miRNAs and 130 novel miRNAs were identified, among which 67 differentially expressed miRNAs (DEMIs) belonging to 24 miRNA families were induced or repressed by continuous cropping. By combining transcriptome and miRNA profiling, we obtained 47 miRNA-target gene pairs, consisting of 18 DEMIs and 43 DEGs, that likely play important roles in the continuous cropping response of patchouli. The information provided in this study will contribute to clarifying the intricate mechanism underlying the patchouli response to continuous cropping obstacles. In addition, the candidate miRNAs and genes can provide a new strategy for breeding continuous cropping-tolerant patchouli.

show abstract

“…The F. commune in the soil initially invades the roots asymptomatically, and then colonizes the vascular tissues, causing wilting, necrosis, and yellowing of the above-ground parts. Cultivating a single crop for a long period on the same plot easily leads to the accumulation of pathogens and aggravates the occurrence of Fusarium wilt ( 8 ). Rhizome rot was first reported to be caused by F. oxysporum Schl.…”

Section: Introductionmentioning

confidence: 99%

Genome and Transcriptome Sequencing Analysis of Fusarium commune Provides Insights into the Pathogenic Mechanisms of the Lotus Rhizome Rot

Kuang

Zhang

et al. 2022

Microbiol Spectr

View full text Add to dashboard Cite

show abstract

Integration of transcriptome and proteome analyses reveal molecular mechanisms for formation of replant disease in Nelumbo nucifera

Abstract: Complementary transcriptomic and proteomic analyses unveiled the mechanism of replant disease in Nelumbo nucifera, a widely planted aquatic crop in Asia.

Cited by 11 publications

References 41 publications

Combined physiological and transcriptome analysis revealed the response mechanism of Pogostemon cablin roots to p-hydroxybenzoic acid

Combined physiological and transcriptome analysis revealed the response mechanism of Pogostemon cablin roots to p-hydroxybenzoic acid

Integrated Analysis of Physiological, mRNA Sequencing, and miRNA Sequencing Data Reveals a Specific Mechanism for the Response to Continuous Cropping Obstacles in Pogostemon cablin Roots

Genome and Transcriptome Sequencing Analysis of Fusarium commune Provides Insights into the Pathogenic Mechanisms of the Lotus Rhizome Rot

Contact Info

Product

Resources

About