scholarly journals Comparative transcriptome analysis of root, stem, and leaf tissues of Entada phaseoloides reveals potential genes involved in triterpenoid saponin biosynthesis

BMC Genomics ◽  
2020 ◽  
Vol 21 (1) ◽  
Author(s):  
Weifang Liao ◽  
Zhinan Mei ◽  
Lihong Miao ◽  
Pulin Liu ◽  
Ruijie Gao
Keyword(s):  
Transcriptome Analysis ◽  
Biosynthetic Pathway ◽  
Triterpenoid Saponin ◽  
Uridine Diphosphate ◽  
Comparative Transcriptome ◽  
Triterpenoid Saponins ◽  
Comparative Transcriptome Analysis ◽  
Saponin Biosynthesis ◽  
Leaf Tissues ◽  
Entada Phaseoloides

Abstract Background Entada phaseoloides (L.) Merr. is an important traditional medicinal plant. The stem of Entada phaseoloides is popularly used as traditional medicine because of its significance in dispelling wind and dampness and remarkable anti-inflammatory activities. Triterpenoid saponins are the major bioactive compounds of Entada phaseoloides. However, genomic or transcriptomic technologies have not been used to study the triterpenoid saponin biosynthetic pathway in this plant. Results We performed comparative transcriptome analysis of the root, stem, and leaf tissues of Entada phaseoloides with three independent biological replicates and obtained a total of 53.26 Gb clean data and 116,910 unigenes, with an average N50 length of 1218 bp. Putative functions could be annotated to 42,191 unigenes (36.1%) based on BLASTx searches against the Non-redundant, Uniprot, KEGG, Pfam, GO, KEGG and COG databases. Most of the unigenes related to triterpenoid saponin backbone biosynthesis were specifically upregulated in the stem. A total of 26 cytochrome P450 and 17 uridine diphosphate glycosyltransferase candidate genes related to triterpenoid saponin biosynthesis were identified. The differential expressions of selected genes were further verified by qPT-PCR. Conclusions The dataset reported here will facilitate the research about the functional genomics of triterpenoid saponin biosynthesis and genetic engineering of Entada phaseoloides.

scholarly journals Comparative transcriptome analysis of root, stem, and leaf tissues of Entada phaseoloides reveals potential genes involved in triterpenoid saponin biosynthesis

2020 ◽  
Author(s):  
Weifang Liao ◽  
Lihong Miao ◽  
Pulin Liu ◽  
Ruijie Gao ◽  
Zhinan Mei
Keyword(s):  
Transcriptome Analysis ◽  
Biosynthetic Pathway ◽  
Triterpenoid Saponin ◽  
Uridine Diphosphate ◽  
Comparative Transcriptome ◽  
Triterpenoid Saponins ◽  
Comparative Transcriptome Analysis ◽  
Saponin Biosynthesis ◽  
Leaf Tissues ◽  
Entada Phaseoloides

Abstract Background Entada phaseoloides (L.) Merr. is an important traditional medicinal plant. The stem of Entada phaseoloides is popularly used as traditional medicine because of its significance in dispelling wind and dampness and remarkable anti-inflammatory activities. Triterpenoid saponins are the major bioactive compounds of Entada phaseoloides. However, genomic or transcriptomic technologies have not been used to study the triterpenoid saponin biosynthetic pathway in this plant.Results We performed comparative transcriptome analysis of the root, stem, and leaf tissues of Entada phaseoloides with three independent biological replicates and obtained a total of 53.26 Gb clean data and 116,910 unigenes, with an average N50 length of 1218 bp. Putative functions could be annotated to 42,191 unigenes (36.1%) based on BLASTx searches against the Non-redundant, Uniprot, KEGG, Pfam, GO, KEGG and COG databases. Most of the unigenes related to triterpenoid saponin backbone biosynthesis were specifically upregulated in the stem. A total of 26 cytochrome P450 and 17 uridine diphosphate glycosyltransferase candidate genes related to triterpenoid saponin biosynthesis were identified. The differential expressions of selected genes were further verified by qPT-PCR.Conclusions The dataset reported here will facilitate the research about the functional genomics of triterpenoid saponin biosynthesis and genetic engineering of Entada phaseoloides .

scholarly journals Comparative transcriptome analysis of root, stem, and leaf tissues of Entada phaseoloides reveals potential genes involved in triterpenoid saponin biosynthesis

2020 ◽  
Author(s):  
Weifang Liao ◽  
Zhinan Mei ◽  
Lihong Miao ◽  
Pulin Liu ◽  
Ruijie Gao
Keyword(s):  
Transcriptome Analysis ◽  
Biosynthetic Pathway ◽  
Triterpenoid Saponin ◽  
Uridine Diphosphate ◽  
Comparative Transcriptome ◽  
Triterpenoid Saponins ◽  
Comparative Transcriptome Analysis ◽  
Saponin Biosynthesis ◽  
Leaf Tissues ◽  
Entada Phaseoloides

Abstract Background: Entada phaseoloides (L.) Merr. is an important traditional medicinal plant. The stem of Entada phaseoloides is popularly used as traditional medicine because of its significance in dispelling wind and dampness and remarkable anti-inflammatory activities. Triterpenoid saponins are the major bioactive compounds of Entada phaseoloides. However, genomic or transcriptomic technologies have not been used to study the triterpenoid saponin biosynthetic pathway in this plant.Results: We performed comparative transcriptome analysis of the root, stem, and leaf tissues of Entada phaseoloides with three independent biological replicates and obtained a total of 53.26 Gb clean data and 116,910 unigenes, with an average N50 length of 1218 bp. Putative functions could be annotated to 42,191 unigenes (36.1%) based on BLASTx searches against the Non-redundant, Uniprot, KEGG, Pfam, GO, KEGG and COG databases. Most of the unigenes related to triterpenoid saponin backbone biosynthesis were specifically upregulated in the stem. A total of 26 cytochrome P450 and 17 uridine diphosphate glycosyltransferase candidate genes related to triterpenoid saponin biosynthesis were identified. The differential expressions of selected genes were further verified by qPT-PCR. Conclusions: The dataset reported here will facilitate the research about the functional genomics of triterpenoid saponin biosynthesis and genetic engineering of Entada phaseoloides.

scholarly journals Comparative transcriptome analysis of root, stem, and leaf tissues of Entada phaseoloides reveals potential genes involved in triterpenoid saponin biosynthesis

2020 ◽  
Author(s):  
Weifang Liao ◽  
Zhinan Mei ◽  
Lihong Miao ◽  
Pulin Liu ◽  
Ruijie Gao
Keyword(s):  
Transcriptome Analysis ◽  
Biosynthetic Pathway ◽  
Triterpenoid Saponin ◽  
Uridine Diphosphate ◽  
Comparative Transcriptome ◽  
Triterpenoid Saponins ◽  
Comparative Transcriptome Analysis ◽  
Saponin Biosynthesis ◽  
Leaf Tissues ◽  
Entada Phaseoloides

Abstract Background Entada phaseoloides (L.) Merr. is an important traditional medicinal plant. The stem of Entada phaseoloides is popularly used as traditional medicine because of its significance in dispelling wind and dampness and remarkable anti-inflammatory activities. Triterpenoid saponins are the major bioactive compounds of Entada phaseoloides. However, genomic or transcriptomic technologies have not been used to study the triterpenoid saponin biosynthetic pathway in this plant. Results We performed comparative transcriptome analysis of the root, stem, and leaf tissues of Entada phaseoloides with three independent biological replicates and obtained a total of 53.26 Gb clean data and 116,910 unigenes, with an average N50 length of 1218 bp. Putative functions could be annotated to 42,191 unigenes (36.1%) based on BLASTx searches against the Non-redundant, Uniprot, KEGG, Pfam, GO, KEGG and COG databases. Most of the unigenes related to triterpenoid saponin backbone biosynthesis were specifically upregulated in the stem. A total of 26 cytochrome P450 and 17 uridine diphosphate glycosyltransferase candidate genes related to triterpenoid saponin biosynthesis were identified. The differential expressions of selected genes were further verified by qPT-PCR. Conclusions The dataset reported here will facilitate the research about the functional genomics of triterpenoid saponin biosynthesis and genetic engineering of Entada phaseoloides.

scholarly journals Elucidating biosynthetic pathway of piperine using comparative transcriptome analysis of leaves, root and spike in Piper longum L

2021 ◽  
Author(s):  
Prem Kumar Dantu ◽  
Mrinalini Prasad ◽  
Rajiv Ranjan
Keyword(s):  
Transcriptome Analysis ◽  
Biosynthetic Pathway ◽  
De Novo ◽  
Gene Families ◽  
Comparative Transcriptome ◽  
Illumina Platform ◽  
Piper Longum ◽  
Comparative Transcriptome Analysis ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

AbstractPiper longum (Pipli; Piperaceae) is an important spice valued for its pungent alkaloids, especially piperine. Albeit, its importance, the mechanism of piperine biosynthesis is still poorly understood. The Next Generation Sequencing (NGS) for P. longum leaves, root and spikes was performed using Illumina platform, which generated 16901456, 54993496 and 22900035, respectively of high quality reads. In de novo assembly P. longum 173381 numbers of transcripts were analyzed. Analysis of transcriptome data from leaf, root and spike showed gene families that were involved in the biosynthetic pathway of piperine and other secondary metabolites. To validate differential expression of the identified genes, 27 genes were randomly selected to confirm the expression level by quantitative real time PCR (qRT-PCR) based on the up regulation and down regulation of differentially expressed genes obtained through comparative transcriptome analysis of leaves and spike of P. longum. With the help of UniProt database the function of all characterized genes was generated.

scholarly journals A candidate gene identified in converting platycoside E to platycodin D from Platycodon grandiflorus by transcriptome and main metabolites analysis

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Xinglong Su ◽  
Yingying Liu ◽  
Lu Han ◽  
Zhaojian Wang ◽  
Mengyang Cao ◽  
...  
Keyword(s):  
Candidate Gene ◽  
Orthogonal Experiment ◽  
Triterpenoid Saponin ◽  
Gene Encoding ◽  
Triterpenoid Saponins ◽  
Platycodin D ◽  
Polysaccharide Content ◽  
Saponin Biosynthesis ◽  
Polysaccharide Synthesis ◽  
Experimental Use

AbstractPlatycodin D and platycoside E are two triterpenoid saponins in Platycodon grandiflorus, differing only by two glycosyl groups structurally. Studies have shown β-Glucosidase from bacteria can convert platycoside E to platycodin D, indicating the potential existence of similar enzymes in P. grandiflorus. An L9(34) orthogonal experiment was performed to establish a protocol for calli induction as follows: the optimal explant is stems with nodes and the optimum medium formula is MS + NAA 1.0 mg/L + 6-BA 0.5 mg/L to obtain callus for experimental use. The platycodin D, platycoside E and total polysaccharides content between callus and plant organs varied wildly. Platycodin D and total polysaccharide content of calli was found higher than that of leaves. While, platycoside E and total polysaccharide content of calli was found lower than that of leaves. Associating platycodin D and platycoside E content with the expression level of genes involved in triterpenoid saponin biosynthesis between calli and leaves, three contigs were screened as putative sequences of β-Glucosidase gene converting platycoside E to platycodin D. Besides, we inferred that some transcription factors can regulate the expression of key enzymes involved in triterpernoid saponins and polysaccharides biosynthesis pathway of P. grandiflorus. Totally, a candidate gene encoding enzyme involved in converting platycoside E to platycodin D, and putative genes involved in polysaccharide synthesis in P. grandiflorus had been identified. This study will help uncover the molecular mechanism of triterpenoid saponins biosynthesis in P. grandiflorus.

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