Transcriptome analysis identifies putative genes involved in triterpenoid biosynthesis in Platycodon grandiflorus

Yu, Hanwen; Liu, Mengli; Yin, Minzhen; Shan, Tingyu; Peng, Huasheng; Wang, Jutao; Chang, Xiangwei; Peng, Daiyin; Zha, Liangping; Gui, Shuangying

doi:10.1007/s00425-021-03677-2

Cited by 21 publications

(15 citation statements)

References 79 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Twenty-seven candidate PgWRKY genes were identified in the full-length transcriptome of P. grandiflorus 49 using AtWRKY genes in A. thaliana as queries. We examined the sequences of all candidate proteins using the conserved domain database ( https://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi ).…”

Section: Resultsmentioning

confidence: 99%

“… 65 Our previous studies combined second- and third-generation sequencing technologies to systematically analyze the transcriptomes of different organs of P. grandiflorus . 49 Based on transcriptomic data in P. grandiflorus , 27 PgWRKYs were identified of P. grandiflorus for the first time. This study provides a reference for a further functional understanding of the WRKY gene family.…”

Section: Discussionmentioning

confidence: 99%

“…We screened genes related to synthesis of platycodins according to annotation information of map00900 (terpenoid backbone biosynthesis) and map00909 (sesquiterpenoid and triterpenoid biosynthesis) in KEGG database. 49 The differentially expressed genes (DEGs) in different tissues of roots, stems and leaves were further screened according to the their FPKM values. A total of 7 DEGs encoding 6 enzymes related to the MVA pathway, 8 DEGs encoding 6 enzymes involved in the MEP pathway, and 9 DEGs of 5 enzymes of the downstream of triterpenoid saponin synthesis pathway were identified.…”

Section: Methodsmentioning

confidence: 99%

“… 46–48 We also identified the transcriptomes of P. grandiflorus in combination with PacBio and DNBSEQ sequencing platforms. 49 The WRKY gene family, a critical transcriptional factor in regulating secondary metabolism and stress response in plants, plays a vital role in the growth and development of P. grandiflorus . However, only a few studies have been performed on the WRKY gene family of P. grandiflorus .…”

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Transcriptome-wide identification of WRKY transcription factors and their expression profiles in response to methyl jasmonate in Platycodon grandiflorus

Liu

et al. 2022

Plant Signaling & Behavior

Self Cite

View full text Add to dashboard Cite

Platycodon grandiflorus , a perennial flowering plant widely distributed in China and South Korea, is an excellent resource for both food and medicine. The main active compounds of P. grandiflorus are triterpenoid saponins. WRKY transcription factors (TFs) are among the largest gene families in plants and play an important role in regulating plant terpenoid accumulation, physiological metabolism, and stress response. Numerous studies have been reported on other medicinal plants; however, little is known about WRKY genes in P. grandiflorus . In this study, 27 PgWRKYs were identified in the P. grandiflorus transcriptome. Phylogenetic analysis showed that PgWRKY genes were clustered into three main groups and five subgroups. Transcriptome analysis showed that the PgWRKY gene expression patterns in different tissues differed between those in Tongcheng City (Southern Anhui) and Taihe County (Northern Anhui). Gene expression analysis based on RNA sequencing and qRT-PCR analysis showed that most PgWRKY genes were expressed after induction with methyl jasmonate (MeJA). Co-expressing PgWRKY genes with triterpenoid biosynthesis pathway genes revealed four PgWRKY genes that may have functions in triterpenoid biosynthesis. Additionally, functional annotation and protein-protein interaction analysis of PgWRKY proteins were performed to predict their roles in potential regulatory networks. Thus, we systematically analyzed the structure, evolution, and expression patterns of PgWRKY genes to provide an important theoretical basis for further exploring the molecular basis and regulatory mechanism of WRKY TFs in triterpenoid biosynthesis.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Transcriptome-wide identification of WRKY transcription factors and their expression profiles in response to methyl jasmonate in Platycodon grandiflorus

Liu

et al. 2022

Plant Signaling & Behavior

Self Cite

View full text Add to dashboard Cite

show abstract

“…Total RNA (more than 40 ng/µL) was extracted from the above 15 samples using the CTAB method, and the mRNAs were purified and mixed to construct a cDNA library ( Yu et al, 2021 ). Raw reads were obtained on the PacBio Sequel platform.…”

Section: Methodsmentioning

confidence: 99%

Full-length transcriptome analysis of Adiantum flabellulatum gametophyte

Cai

Xie

Huang

et al. 2022

PeerJ

View full text Add to dashboard Cite

Ferns are important components of plant communities on earth, but their genomes are generally very large, with many redundant genes, making whole genome sequencing of ferns prohibitively expensive and time-consuming. This means there is a significant lack of fern reference genomes, making molecular biology research difficult. The gametophytes of ferns can survive independently, are responsible for sexual reproduction and the feeding of young sporophytes, and play an important role in the alternation of generations. For this study, we selected Adiantum flabellulatum as it has both ornamental and medicinal value and is also an indicator plant of acidic soil. The full-length transcriptome sequencing of its gametophytes was carried out using PacBio three-generation sequencing technology. A total of 354,228 transcripts were obtained, and 231,705 coding sequences (CDSs) were predicted, including 5,749 transcription factors (TFs), 2,214 transcription regulators (TRs) and 4,950 protein kinases (PKs). The transcripts annotated by non-redundant protein sequence database (NR), Kyoto encyclopedia of genes and genomes (KEGG), eukaryotic ortholog groups (KOG), Swissprot, protein family (Pfma), nucleotide sequence database (NT) and gene ontology (GO) were 251,501, 197,474, 193,630, 194,639, 195,956, 113,069 and 197,883, respectively. In addition, 138,995 simple sequence repeats (SSRs) and 111,793 long non-coding RNAs (lncRNAs) were obtained. We selected nine chlorophyll synthase genes for qRT-PCR, and the results showed that the full-length transcript sequences and the annotation information were reliable. This study can provide a reference gene set for subsequent gene expression quantification.

show abstract

Identification and functional characterization of two trans-isopentenyl diphosphate synthases and one squalene synthase involved in triterpenoid biosynthesis in Platycodon grandiflorus

Yu,

Chen,

et al. 2023

Planta

View full text Add to dashboard Cite

Transcriptome analysis identifies putative genes involved in triterpenoid biosynthesis in Platycodon grandiflorus

Cited by 21 publications

References 79 publications

Transcriptome-wide identification of WRKY transcription factors and their expression profiles in response to methyl jasmonate in Platycodon grandiflorus

Transcriptome-wide identification of WRKY transcription factors and their expression profiles in response to methyl jasmonate in Platycodon grandiflorus

Full-length transcriptome analysis of Adiantum flabellulatum gametophyte

Identification and functional characterization of two trans-isopentenyl diphosphate synthases and one squalene synthase involved in triterpenoid biosynthesis in Platycodon grandiflorus

Contact Info

Product

Resources

About