Search

Your search keyword '"Su, Yachun"' showing total 294 results
Start Over Author "Su, Yachun"
294 results on '"Su, Yachun"'

52. Additional file 2 of Genome-wide identification and expression analysis of the coronatine-insensitive 1 (COI1) gene family in response to biotic and abiotic stresses in Saccharum

Author

Sun, Tingting, Meng, Yintian, Cen, Guangli, Feng, Aoyin, Su, Weihua, Chen, Yanling, You, Chuihuai, Que, Youxiong, and Su, Yachun

Subjects
food and beverages
Abstract

Additional file 2: Figure S2. Chromosomal distribution of the COI1 gene family in Sorghum bicolor, R570, and Saccharum spontaneum. (a) The S. bicolor chromosome. (b) The S. spontaneum chromosome. (c) The Saccharum spp. hybrid cultivar R570 chromosome. SbCOI1, ShCOI1, and SsCOI1 represented the COI1 gene in S. bicolor, R570, and S. spontaneum. The scale bar on the left indicated the chromosome length (megabasee, Mb). The name of each chromosome showed on the top of each chromosome.

Published
2022
Full Text
View/download PDF

53. Additional file 1 of Systematic identification of miRNA-regulatory networks unveils their potential roles in sugarcane response to Sorghum mosaic virus infection

Author

Su, Yachun, Peng, Qiong, Ling, Hui, You, Chuihuai, Wu, Qibin, Xu, Liping, and Que, Youxiong

Abstract

Additional file 1: Figure S1. The targeting sites of the selected 12 miRNAs and their 15 target genes predicted by TargetFinder v1.6 software. When the score of miRNA that matches the mRNA is less than or equal to 3, the transcript sequence is considered as the miRNA target gene. Range represents the interval of mRNA used for alignment. Black lines indicate matched RNA base pairs, and two dots show a GU mismatch whereas none dot represents other types of mismatch. The gene ID follows the name of miRNAs and their target genes. Figure S2. The original image of PCR products of the three candidate sugarcane pre-miRNAs detected by electrophoresis. M, DNA marker 15,000 + 2,000 bp; 1, pre-nov_3741; 2, pre-nov_22650; and 3, pre_nov_40875.

Published
2022
Full Text
View/download PDF

56. Assembly of the Complete Mitochondrial Genome of Gelsemium elegans Revealed the Existence of Homologous Conformations Generated by a Repeat Mediated Recombination.

Author

You, Chuihuai, Cui, Tianzhen, Zhang, Chang, Zang, Shoujian, Su, Yachun, and Que, Youxiong

Subjects
MITOCHONDRIAL DNA, CHLOROPLAST DNA, PLANT mitochondria, TRANSFER RNA, CYTOPLASMIC male sterility, RNA editing, PLANT genomes
Abstract

Gelsemium elegans (G. elegans) is a Chinese medicinal plant with substantial economic and feeding values. There is a lack of detailed studies on the mitochondrial genome of G. elegans. In this study, the mitochondrial genome of G. elegans was sequenced and assembled, and its substructure was investigated. The mitochondrial genome of G. elegans is represented by two circular chromosomes of 406,009 bp in length with 33 annotated protein-coding genes, 15 tRNA genes, and three rRNA genes. We detected 145 pairs of repeats and found that four pairs of repeats could mediate the homologous recombination into one major conformation and five minor conformations, and the presence of conformations was verified by PCR amplification and Sanger sequencing. A total of 124 SSRs were identified in the G. elegans mitochondrial genome. The homologous segments between the chloroplast and mitochondrial genomes accounted for 5.85% of the mitochondrial genome. We also predicted 477 RNA potential editing sites and found that the nad4 gene was edited 38 times, which was the most frequent occurrence. Taken together, the mitochondrial genome of G. elegans was assembled and annotated. We gained a more comprehensive understanding on the genome of this medicinal plant, which is vital for its effective utilization and genetic improvement, especially for cytoplasmic male sterility breeding and evolution analysis in G. elegans. [ABSTRACT FROM AUTHOR]

Published
2023
Full Text
View/download PDF

58. Additional file 1 of The CaCA superfamily genes in Saccharum: comparative analysis and their functional implications in response to biotic and abiotic stress

Author

Su, Weihua, Zhang, Chang, Wang, Dongjiao, Ren, Yongjuan, Sun, Tingting, Feng, Jingfang, Su, Yachun, Xu, Liping, Shi, Mutian, and Que, Youxiong

Abstract

Additional file 1: Figure S1 General characteristic features of the CaCA superfamily proteins in S. spontaneum, R570, and S. bicolor. Red triangles filled with white represent outliers, black diamonds filled with white represent the average, and different colored dots filled with black represent specific values. The detailed information in shown in Supplemental Table S1 and Table S2.Figure S2 Phylogenetic evolutionary tree of the CaCA superfamily members. (a) An ML phylogenetic tree was constructed using the full-length sequence alignments of 47 CAX proteins. (b) An ML phylogenetic tree was constructed using the full-length sequence alignments of 43 CCX proteins. (c) An ML phylogenetic tree was constructed using the full-length sequence alignments of 28 EFCAX proteins. (d) An ML phylogenetic tree was constructed using the full-length sequence alignments of 12 MHX proteins. All the corresponding reference numbers are listed in Supplemental Table S1 and Table S3.Figure S3 Phylogenetic relationship, architecture of conserved protein motifs, and structure of CaCA genes from S. spontaneum, R570, and S. bicolor. The phylogenetic tree was constructed based on the full-length sequences of CaCA proteins using MEGA X software. The motifs, numbers 1–10, are displayed in different colored boxes. The sequence information for each motif is provided in Supplemental Table S4. Green boxes indicate untranslated 5′- and 3′-regions, yellow boxes indicate exons, and black lines indicate introns. The length of the protein can be estimated using the scale at the bottom.Figure S4 Sankey diagram showing the miRNA–mRNA network. Each rectangle represents a gene, and the connection of each gene is visualized based on the size of the rectangle.Figure S5 Functional annotation of identified CaCA genes. The enrichment gene ontology analysis of CaCAs shows significantly enriched GO terms involved in biological processes (BP), molecular functions (MF), and cellular components (CC). Figure S6 The melt curve plots of primers in this study.

Published
2021
Full Text
View/download PDF

60. Genome-wide identification, phylogeny, and expression analysis of Sec14-like PITP gene family in sugarcane

Author

Wang Ling, Su Weihua, Mao Hua-ying, Xu LiPing, Zhang Xu, Liu Feng, Wang Wen-ju, Que YouXiong, Su Yachun, and Li Cong-na

Subjects
0106 biological sciences, 0301 basic medicine, Nicotiana benthamiana, Plant Science, 01 natural sciences, Genome, 03 medical and health sciences, Gene Expression Regulation, Plant, Stress, Physiological, Genotype, Plant defense against herbivory, Gene family, Gene, Phylogeny, Plant Proteins, Genetics, Ralstonia solanacearum, biology, food and beverages, General Medicine, biology.organism_classification, Subcellular localization, Droughts, Saccharum, 030104 developmental biology, Agronomy and Crop Science, 010606 plant biology & botany
Abstract

Six Sec14-like PITP genes from sugarcane were identified, two of them were cloned, and their biological functions were characterized indicating their involvement in plant defense against biotic and abiotic stresses. Sec14, a phosphatidylinositol transfer protein (PITP) is widely present in eukaryotes. In this study, the structure and expression patterns of six Sec14-like PITP genes (ScSEC14-1, ScSEC14p, ScSFH1, ScSFH2, ScPATL1, and ScPATL2) from sugarcane were analyzed, and two of them (ScSEC14-1 and ScSEC14p) were cloned and functionally verified. Phylogenetic analysis divided these genes into four groups, including group I (ScSFH1 and ScSFH2), group II (ScPATL1 and ScPATL2), Group III (ScSEC14p), and group V (ScSEC14-1). qRT-PCR analysis showed tissue-specific expression of these genes, primarily in the root, leaf, and bud tissues. They responded differently to SA, MeJA, and ABA stresses. ScSEC14-1, ScSEC14p, and ScSFH2 were upregulated by CuCl2 and CdCl2, while ScSEC14-1, ScSFH1, ScSFH2, and ScPATL1 were upregulated by PEG and NaCl. When infected by Sporisorium scitamineum, the transcripts of ScSFH1, ScSFH2, ScPATL1, and ScPATL2 were upregulated in the resistant genotype Yacheng 05-179, while those of ScSEC14-1 and ScSEC14p were upregulated in the susceptible genotype ROC22. Subcellular localization showed that ScSEC14-1 and ScSEC14p were mainly localized in the plasma membrane and cytoplasm. Enhanced growth of Escherichia coli BL21 cells expressing ScSEC14-1 and ScSEC14p showed high tolerance to NaCl and mannitol stresses. The transient overexpression of ScSEC14-1 and ScSEC14p in Nicotiana benthamiana leaves enhanced its resistance to the infection of tobacco pathogens Ralstonia solanacearum and Fusarium solani var. coeruleum. We can conclude the involvement of ScSEC14-1 and ScSEC14p in the defense against biotic and abiotic stresses, which should facilitate further research on Sec14-like PITP gene family, especially its regulatory mechanisms in sugarcane.

Published
2018

69. A novel dirigent protein gene with highly stem-specific expression from sugarcane, response to drought, salt and oxidative stresses

Author

Fang Jing-ping, Xu JingSheng, Xu LiPing, Guo JinLong, Que YouXiong, Fu Hua-ying, and Su Yachun

Subjects
Time Factors, Plant Science, Sodium Chloride, Biology, Genes, Plant, Plant Roots, Polyethylene Glycols, Open Reading Frames, Species Specificity, Gene Expression Regulation, Plant, Complementary DNA, Escherichia coli, RNA, Messenger, Cloning, Molecular, Gene, Gene Library, Plant Proteins, Regulation of gene expression, Plant Stems, Abiotic stress, cDNA library, Computational Biology, Hydrogen Peroxide, General Medicine, Droughts, Saccharum, Molecular Weight, Plant Leaves, Oxidative Stress, Open reading frame, Dirigent protein, Biochemistry, Seedlings, biology.protein, GAPDH Gene, Transcriptome, Oxidation-Reduction, Agronomy and Crop Science
Abstract

Dirigent and dirigent-like family proteins contain a number of proteins involved in lignification or in the response to pathogen infection and abiotic stress in plants. In the present study, a full-length cDNA sequence of a dirigent-like gene designated ScDir (GenBank Accession Number JQ622282) was obtained from sugarcane based on the stem full-length cDNA library. The ScDir gene was 819-bp long, including a 564-bp ORF encoding 187 amino acid residues. The protein N-terminus contained signal peptides at amino acid residues of 1-25 and transmembrane regions at 7-26 aa. A his-tagged ScDir protein with an estimated molecular mass of 27.4 kDa was expressed in Escherichia coli system. The expressed ScDir protein had increased the host cell's tolerance to PEG and NaCl. When an endogenous GAPDH gene was used as internal control, results from real-time qPCR demonstrated that the ScDir mRNA amount in sugarcane stems was significantly higher than that in the roots, leaves and buds by 18.64 ± 0.48, 25,635.16 ± 2,966.03 and 721.50 ± 8.17-fold, respectively. The ScDir transcript levels in sugarcane seedling increased under H(2)O(2), PEG or NaCl stress. The expression level of ScDir was significantly upregulated under PEG stress, and the highest level was observed at 12 h after stress. Thus, both the ScDir-hosted cell performance and the enhanced expressions in sugarcane imply that the ScDir gene is involved in the response to abiotic stresses of drought, salts and oxidation. The transcription of the ScDir gene is highly stem-specific, as revealed by real-time qPCR. Key message A novel sugarcane Sc-Dir gene, DIRd subfamily, which is highly stalk-specific expression and involved in the response to artificial stresses of drought, salts, and oxidatives.

Published
2012
Full Text
View/download PDF

70. A Novel L-ascorbate Peroxidase 6 Gene, ScAPX6, Plays an Important Role in the Regulation of Response to Biotic and Abiotic Stresses in Sugarcane

Author

Liu, Feng, primary, Huang, Ning, additional, Wang, Ling, additional, Ling, Hui, additional, Sun, Tingting, additional, Ahmad, Waqar, additional, Muhammad, Khushi, additional, Guo, Jinxin, additional, Xu, Liping, additional, Gao, Shiwu, additional, Que, Youxiong, additional, and Su, Yachun, additional

Published
2018
Full Text
View/download PDF

75. Cloning and Expression Characteristic Analysis of ScWRKY4 Gene in Sugarcane

Author

Ming-Jian Dai, Feng Liu, Hua-Ying Mao, Youxiong Que, Su Weihua, Chun-Feng Wang, Xu Zhang, Ting-Ting Sun, Ling Wang, and Su Yachun

Subjects
0301 basic medicine, Cloning, Genetics, 03 medical and health sciences, 030104 developmental biology, Expression (architecture), Plant Science, Biology, Agronomy and Crop Science, Gene, Biotechnology
Published
2018
Full Text
View/download PDF

76. Analysis of Brown Rust Resistance Inheritance Based on Field Phenotypes and Detection of Bru 1 Gene in Sugarcane

Author

Wei Cheng, Ting-Ting Sun, Xu LiPing, Qi-Bin Wu, Su Yachun, Li Zhu, and Gao Shi-Wu and

Subjects
0106 biological sciences, Genetics, Resistance (ecology), Inheritance (genetic algorithm), 04 agricultural and veterinary sciences, Plant Science, Biology, 01 natural sciences, Rust, Phenotype, 040103 agronomy & agriculture, 0401 agriculture, forestry, and fisheries, Agronomy and Crop Science, Gene, 010606 plant biology & botany, Biotechnology
Published
2018
Full Text
View/download PDF

77. A Sugarcane Phosphatidylinositol Transfer Protein Gene ScSEC14 Responds to Drought and Salt Stresses

Author

Su Weihua, Youxiong Que, Wen-Ju Wang, Feng Liu, Ning Huang, Su Yachun, Han-Chen Tang, Hui Ling, Hua-Ying Mao, Cong-Na Li, and Xu Zhang

Subjects
0106 biological sciences, chemistry.chemical_classification, Salt (chemistry), 04 agricultural and veterinary sciences, Plant Science, 01 natural sciences, Biochemistry, chemistry, 040103 agronomy & agriculture, 0401 agriculture, forestry, and fisheries, Agronomy and Crop Science, Gene, Phosphatidylinositol transfer protein, 010606 plant biology & botany, Biotechnology
Published
2018
Full Text
View/download PDF

85. Cloning and Expression Analysis of CDK Gene in Sugarcane

Author

Hui Ling, Long Huang, Feng Liu, Ning Huang, Su Weihua, Qi-Bin Wu, Su Yachun, Zhuqing Wang, Shi-Wu Gao, and Youxiong Que

Subjects
Cloning, biology, Cyclin-dependent kinase, Expression analysis, biology.protein, Plant Science, Agronomy and Crop Science, Gene, Biotechnology, Cell biology
Published
2017
Full Text
View/download PDF

99. A Global View of Transcriptome Dynamics during Sporisorium scitamineum Challenge in Sugarcane by RNA-seq.

Author

Que, Youxiong, Su, Yachun, Guo, Jinlong, Wu, Qibin, and Xu, Liping

Subjects
*PLANT RNA, *SMUT fungi, *PHYTOPATHOGENIC fungi, *PLANT diseases, *SUGARCANE industry
Abstract

Sugarcane smut caused by Sporisorium scitamineum is a critical fungal disease in the sugarcane industry. However, molecular mechanistic studies of pathological response of sugarcane to S. scitamineum are scarce and preliminary. Here, transcriptome analysis of sugarcane disease induced by S. scitamineum at 24, 48 and 120 h was conducted, using an S. scitamineum-resistant and -susceptible genotype (Yacheng05-179 and “ROC”22). The reliability of Illumina data was confirmed by real-time quantitative PCR. In total, transcriptome sequencing of eight samples revealed gene annotations of 65,852 unigenes. Correlation analysis of differentially expressed genes indicated that after S. scitamineum infection, most differentially expressed genes and related metabolic pathways in both sugarcane genotypes were common, covering most biological activities. However, expression of resistance-associated genes in Yacheng05-179 (24–48 h) occurred earlier than those in “ROC”22 (48–120 h), and more transcript expressions were observed in the former, suggesting resistance specificity and early timing of these genes in non-affinity sugarcane and S. scitamineum interactions. Obtained unigenes were related to cellular components, molecular functions and biological processes. From these data, functional annotations associated with resistance were obtained, including signal transduction mechanisms, energy production and conversion, inorganic ion transport and metabolism, and defense mechanisms. Pathway enrichment analysis revealed that differentially expressed genes are involved in plant hormone signal transduction, flavonoid biosynthesis, plant-pathogen interaction, cell wall fortification pathway and other resistance-associated metabolic pathways. Disease inoculation experiments and the validation of invitro antibacterial activity of the chitinase gene ScChi show that this sugarcane chitinase gene identified through RNA-Seq analysis is relevant to plant-pathogen interactions. In conclusion, expression data here represent the most comprehensive dataset available for sugarcane smut induced by S. scitamineum and will serve as a resource for finally unraveling the molecular mechanisms of sugarcane responses to S. scitamineum. [ABSTRACT FROM AUTHOR]

Published
2014
Full Text
View/download PDF

100. Transcriptome Profile Analysis of Sugarcane Responses to Sporisorium scitaminea Infection Using Solexa Sequencing Technology.

Author

Wu, Qibin, Xu, Liping, Guo, Jinlong, Su, Yachun, and Que, Youxiong

Subjects
FUNGI physiology, BIOCHEMISTRY, CELLULAR signal transduction, GENES, GENETIC research, GENETIC techniques, PHENOMENOLOGY, PLANT diseases, PLANTS, POLYMERASE chain reaction, RESEARCH evaluation, REVERSE transcriptase polymerase chain reaction, GENE expression profiling, SEQUENCE analysis
Abstract

To understand the molecular basis of sugarcane-smut interaction, it is important to identify sugarcane genes that respond to the pathogen attack. High-throughput tag-sequencing (tag-seq) analysis by Solexa technology was performed on sugarcane infected with Sporisorium scitaminea, which should have massively increased the amount of data available for transcriptome profile analysis. After mapping to sugarcane EST databases in NCBI, we obtained 2015 differentially expressed genes, of which 1125 were upregulated and 890 downregulated by infection. Gene ontology (GO) analysis revealed that the differentially expressed genes involve in many cellular processes. Pathway analysis revealed that metabolic pathways and ribosome function are significantly affected, where upregulation of expression dominates over downregulation. Differential expression of three candidate genes involved in MAP kinase signaling pathway, ScBAK1 (GenBank Accession number: KC857629), ScMapkk (GenBank Accession number: KC857627), and ScGloI (GenBank Accession number: KC857628), was confirmed by reverse transcription polymerase chain reaction (RTPCR). Real-time quantitative PCR (qRT-PCR) analysis concluded that the expression of these genes were all up-regulated after the infection of S. scitaminea and may play a role in pathogen response in sugarcane. The present study provides insights into the molecular mechanism of sugarcane defense to S. scitaminea infection, leading to a more comprehensive understanding of sugarcane-smut interaction. [ABSTRACT FROM AUTHOR]

Published
2013

Catalog

Books, media, physical & digital resources
See catalog results