scholarly journals A transcriptomic analysis of sugarcane response to Leifsonia xyli subsp. xyli infection

PLoS ONE ◽  
2021 ◽  
Vol 16 (2) ◽  
pp. e0245613
Author(s):  
Kai Zhu ◽  
Li-Tao Yang ◽  
Cheng-Xi Li ◽  
Prakash Lakshmanan ◽  
Yong-Xiu Xing ◽  
...  
Keyword(s):  
Cell Wall ◽  
Protein Phosphorylation ◽  
Differentially Expressed Genes ◽  
Plant Pathogen ◽  
Significant Inhibition ◽  
Differentially Expressed ◽  
Down Regulation ◽  
Sugarcane Varieties ◽  
Obligate Pathogen ◽  
Plant Pathogen Interactions

Sugarcane ratoon stunting disease (RSD) caused by Leifsonia xyli subsp. xyli (Lxx) is a common destructive disease that occurs around the world. Lxx is an obligate pathogen of sugarcane, and previous studies have reported some physiological responses of RSD-affected sugarcane. However, the molecular understanding of sugarcane response to Lxx infection remains unclear. In the present study, transcriptomes of healthy and Lxx-infected sugarcane stalks and leaves were studied to gain more insights into the gene activity in sugarcane in response to Lxx infection. RNA-Seq analysis of healthy and diseased plants transcriptomes identified 107,750 unigenes. Analysis of these unigenes showed a large number of differentially expressed genes (DEGs) occurring mostly in leaves of infected plants. Sugarcane responds to Lxx infection mainly via alteration of metabolic pathways such as photosynthesis, phytohormone biosynthesis, phytohormone action-mediated regulation, and plant-pathogen interactions. It was also found that cell wall defense pathways and protein phosphorylation/dephosphorylation pathways may play important roles in Lxx pathogeneis. In Lxx-infected plants, significant inhibition in photosynthetic processes through large number of differentially expressed genes involved in energy capture, energy metabolism and chloroplast structure. Also, Lxx infection caused down-regulation of gibberellin response through an increased activity of DELLA and down-regulation of GID1 proteins. This alteration in gibberellic acid response combined with the inhibition of photosynthetic processes may account for the majority of growth retardation occurring in RSD-affected plants. A number of genes associated with plant-pathogen interactions were also differentially expressed in Lxx-infected plants. These include those involved in secondary metabolite biosynthesis, protein phosphorylation/dephosphorylation, cell wall biosynthesis, and phagosomes, implicating an active defense response to Lxx infection. Considering the fact that RSD occurs worldwide and a significant cause of sugarcane productivity, a better understanding of Lxx resistance-related processes may help develop tools and technologies for producing RSD-resistant sugarcane varieties through conventional and/or molecular breeding.

scholarly journals Proteomics-based identification of differentially expressed genes in human gliomas: down-regulation of SIRT2 gene

2003 ◽  
Vol 309 (3) ◽  
pp. 558-566 ◽  
Author(s):  
Masaharu Hiratsuka ◽  
Toshiaki Inoue ◽  
Tosifusa Toda ◽  
Narimichi Kimura ◽  
Yasuaki Shirayoshi ◽  
...  
Keyword(s):  
Differentially Expressed Genes ◽  
Differentially Expressed ◽  
Human Gliomas ◽  
Down Regulation ◽  
Sirt2 Gene

scholarly journals Identification of differentially expressed genes from Trichoderma harzianum during growth on cell wall of Fusarium solani as a tool for biotechnological application

BMC Genomics ◽  
2013 ◽  
Vol 14 (1) ◽  
pp. 177 ◽  
Author(s):  
Pabline Marinho Vieira ◽  
Alexandre Siqueira Guedes Coelho ◽  
Andrei Stecca Steindorff ◽  
Saulo José Linhares de Siqueira ◽  
Roberto do Nascimento Silva ◽  
...  
Keyword(s):  
Cell Wall ◽  
Differentially Expressed Genes ◽  
Trichoderma Harzianum ◽  
Fusarium Solani ◽  
Differentially Expressed ◽  
Biotechnological Application

scholarly journals Differentially expressed genes in mycorrhized and nodulated roots of common bean are associated with defense, cell wall architecture, N metabolism, and P metabolism

PLoS ONE ◽  
2017 ◽  
Vol 12 (8) ◽  
pp. e0182328 ◽  
Author(s):  
Kalpana Nanjareddy ◽  
Manoj-Kumar Arthikala ◽  
Brenda-Mariana Gómez ◽  
Lourdes Blanco ◽  
Miguel Lara
Keyword(s):  
Cell Wall ◽  
Common Bean ◽  
Differentially Expressed Genes ◽  
Differentially Expressed ◽  
N Metabolism ◽  
Cell Wall Architecture

scholarly journals Microarray screening of differentially expressed genes after up-regulating miR-205 or down-regulating miR-141 in cervical cancer cells

2019 ◽  
Author(s):  
Xingyu Fang ◽  
Tingting Yao
Keyword(s):  
Cervical Cancer ◽  
Hela Cell ◽  
Cancer Cells ◽  
Differentially Expressed Genes ◽  
Expression Profile ◽  
Siha Cell ◽  
Differentially Expressed ◽  
Down Regulation ◽  
Siha Cells ◽  
Cervical Cancer Cells

AbstractCervical cancer is one of the most common gynecological malignancies. However,studies on the expression and molecular mechanism of miR-205 and miR-141 in CC are insufficient recently. Expression profile microarray with 21329 Oligo DNA were used to detect the expression of mRNAs in miR-205 up-regulated or miR-141 down-regulated HeLa and SiHa cells and mRNAs in normal HeLa and SiHa cells. Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway were performed to assess the potential pathways of miR-205 in SiHa cell.Compared with normal HeLa cell, there were 38 differentially expressed genes (DEGs) in miR-205 up-regulated HeLa cell. Nine were up-regulation genes and 29 were down-regulation genes. There were 23 DEGs in miR-141 down-regulated HeLa cell. One was up-regulated and 22 were down-regulated. Compared with normal SiHa cell, there were 128 DEGs in miR-205 up-regulated SiHa cell. One hundred and three were up-regulation genes and 25 were down-regulation genes. There were 80 DEGs in miR-141 down-regulated SiHa cell. Forty two were up-regulation genes and 28 were down-regulation genes. For miR-205 up-regulated SiHa cell, GO outcome showed that “ubiquitin-protein ligase activity”, “MAP kinase phosphatase activity”, were the most enriched terms (P < 0.05). And in KEGG analysis, “Cell cycle” was notably enriched, and Smad4 in this pathway was up-regulated (P < 0.05). Expression profile microarray technology can effectively screen out DEGs in cervical cancer cells after up-regulating miR-205 or down-regulating miR-141. Which may enable us to understand the pathogenesis and lay an important foundation for the prevention and treatment of cervical cancer.

scholarly journals Global Analysis of Gene Expression Profiles in Glutinous Rice 89-1 (Oryza sativa L.) Seedlings Exposed to Chilling Stress

2021 ◽  
Author(s):  
Xiaoxue Pan ◽  
Hong Wu ◽  
Mingyu Hu ◽  
Zhongwei Wang ◽  
Xiaoying Jiang ◽  
...  
Keyword(s):  
Cell Wall ◽  
Oryza Sativa ◽  
Differentially Expressed Genes ◽  
Oryza Sativa L ◽  
Expression Profiles ◽  
Global Analysis ◽  
Chilling Stress ◽  
Cold Treatment ◽  
Differentially Expressed ◽  
Glutinous Rice

AbstractRice (Oryza sativa) is a tropical cereal crop that is severely affected by chilling stress at the seedling stage, although glutinous rice 89-1 (Gr89-1) in Chongqing, China, shows tolerance to low temperatures and overwintering ability. However, little research has been conducted on the mechanisms regulating chilling stress in Gr89-1. In this study, a comprehensive of transcriptional profiles of Gr89-1 seedlings at the three-leaf stage was conducted after a 4 °C treatment for 2, 6, 12, 24, or 48 h. Overall, 2993 differentially expressed genes were detected in Gr89-1 seedlings upon cold exposure. Gene Ontology testing and pathway analysis revealed differentially expressed genes involved in transcriptional regulation, carbohydrate metabolism, plant hormone signal, and cell wall composition. A total of 243 transcription factors were differentially expressed during the cold treatment; in particular, the AP2/EREBP, bHLH, NAC, WRKY, C2H2, and TIFY families were generally upregulated after cold treatment, whereas the mTERF and GNAT families were downregulated. Chilling stress changed the starch and sucrose metabolism, coupled with the accumulation of sucrose and trehalose level, and increases in jasmonic acid level in Gr89-1 seedlings. Furthermore, a number of the cell wall-related genes identified in the present study were also differentially expressed during the cold treatment. The genes and pathways identified in the current study increase our understanding of the mechanisms underlying cold resistance in rice seedlings.

scholarly journals Integrative analysis of transcriptome and proteome revealed nectary and nectar traits in the plant-pollinator interaction of Nitraria tangutorum Bobrov

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Tingting Chen ◽  
Yanwei Zhou ◽  
Jingbo Zhang ◽  
Ye Peng ◽  
Xiuyan Yang ◽  
...  
Keyword(s):  
Signal Transduction ◽  
Differentially Expressed Genes ◽  
Plant Pathogen ◽  
Plant Hormone ◽  
Flavonoid Biosynthesis ◽  
Epidermal Cells ◽  
Differentially Expressed ◽  
Ascorbate Oxidase ◽  
Nitraria Tangutorum ◽  
Plant Pathogen Interaction

Abstract Background Nitraria tangutorum is an important desert shrub that shows resistance to drought, salt and wind erosion stresses. It is a central ecological species in its area. Here, we have studied how N. tangutorum has adapted to achieve a successful reproduction strategy. Results We found that N. tangutorum is mainly pollinated by insects of the Hymenoptera, Diptera and Coleoptera orders. Nitraria tangutorum has very small flowers, with the nectary composed of secretive epidermal cells from which nectar is secreted, located within the inner petals. In addition, analyzing the transcriptome of four successive flower developmental stages revealed that mainly differentially expressed genes associated with flower and nectary development, nectar biosynthesis and secretion, flavonoid biosynthesis, plant hormone signal transduction and plant-pathogen interaction show dynamic expression. From the nectar, we could identify seven important proteins, of which the L-ascorbate oxidase protein was first found in plant nectar. Based on the physiological functions of these proteins, we predict that floral nectar proteins of N. tangutorum play an important role in defending against microbial infestation and scavenging active oxygen. Conclusions This study revealed that N. tangutorum is an insect-pollinated plant and its nectary is composed of secretive epidermal cells that specialized into secretive trichomes. We identified a large number of differentially expressed genes controlling flower and nectary development, nectar biosynthesis and secretion, flavonoid biosynthesis, plant hormone signal transduction and plant-pathogen interaction. We suggest that proteins present in N. tangutorum nectar may have both an antibacterial and oxygen scavenging effect. These results provide a scientific basis for exploring how the reproductive system of N. tangutorum and other arid-desert plants functions.

Sign in / Sign up

Export Citation Format

Share Document