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Article ; Online: Functional characterization of tyrosine decarboxylase genes that contribute to acteoside biosynthesis in Rehmannia glutinosa.

Yang, Yan Hui / Yang, Mu Rong / Zhu, Jian Yu / Dong, Ke Wei / Yi, Yan Jie / Li, Rui Fang / Zeng, Lei / Zhang, Chang Fu

2022 Volume 255, Issue 3, Page(s) 64

Abstract: Main conclusion: The RgTyDCs possess typical decarboxylase functional activity in vitro and in vivo and participate in acteoside biosynthesis in R. glutinosa, positively controlling its production via activated acteoside/tyrosine-derived pathways. ... ...

Abstract	Main conclusion: The RgTyDCs possess typical decarboxylase functional activity in vitro and in vivo and participate in acteoside biosynthesis in R. glutinosa, positively controlling its production via activated acteoside/tyrosine-derived pathways. Acteoside is an important ingredient in Rehmannia glutinosa and an active natural component that contributes to human health. Tyrosine decarboxylase (TyDC) is thought to play an important role in acteoside biosynthesis. Several plant TyDC family genes have been functionally characterized and shown to play roles in some bioactive metabolites' biosynthesis by mediating the decarboxylation of L-tyrosine and L-dihydroxyphenylalanine (L-DOPA); however, one TyDC (named RgTyDC1) in R. glutinosa has been identified to date, but the family genes that contribute to acteoside biosynthesis remain largely characterized. Here, by in silico and experimental analyses, we isolated and identified three RgTyDCs (RgTyDC2 to RgTyDC4) in this species; these genes' sequences showed 50.92-82.55% identity, included highly conserved domains with homologues in other plants, classified into two subsets, and encoded proteins that localized to the cytosol. Enzyme kinetic analyses of RgTyDC2 and RgTyDC4 indicated that they both efficiently catalysed L-tyrosine and L-dopa. The overexpression of RgTyDC2 and RgTyDC4 in R. glutinosa, which was associated with enhanced TyDC activity, significantly increased tyramine and dopamine contents, which was positively correlated with improved acteoside production; moreover, the overexpression of RgTyDCs led to upregulated expression of some other genes-related to acteoside biosynthesis. This result suggested that the overexpression of RgTyDCs can positively activate the molecular networks of acteoside pathways, enhancing the accumulation of tyramine and dopamine, and promoting end-product acteoside biosynthesis. Our findings provide an evidence that RgTyDCs play vital molecular roles in acteoside biosynthesis pathways, contributing to the increase in acteoside yield in R. glutinosa.
MeSH term(s)	Glucosides ; Phenols ; Rehmannia/genetics ; Tyrosine Decarboxylase/genetics
Chemical Substances	Glucosides ; Phenols ; acteoside (3TGX09BD5B) ; Tyrosine Decarboxylase (EC 4.1.1.25)
Language	English
Publishing date	2022-02-11
Publishing country	Germany
Document type	Journal Article
ZDB-ID	208909-9
ISSN	1432-2048 ; 0032-0935 ; 1866-2749
ISSN (online)	1432-2048
ISSN	0032-0935 ; 1866-2749
DOI	10.1007/s00425-022-03849-8
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Article: Antagonistic Activity and Mechanism of

Yi, Yan-Jie / Yin, Ya-Nan / Yang, Ying-Ao / Liang, Yu-Qian / Shan, You-Tian / Zhang, Chang-Fu / Zhang, Yu-Rong / Liang, Zhen-Pu

Phytopathology

2022 , Page(s) PHYTO04220118R

Abstract: Wheat powdery mildew caused ... ...

Abstract	Wheat powdery mildew caused by
Language	English
Publishing date	2022-11-17
Publishing country	United States
Document type	Journal Article
ZDB-ID	208889-7
ISSN	1943-7684 ; 0031-949X
ISSN (online)	1943-7684
ISSN	0031-949X
DOI	10.1094/PHYTO-04-22-0118-R
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Article: Functional characterization of tyrosine decarboxylase genes that contribute to acteoside biosynthesis in Rehmannia glutinosa

Yang, Yan Hui / Yang, Mu Rong / Zhu, Jian Yu / Dong, Ke Wei / Yi, Yan Jie / Li, Rui Fang / Zeng, Lei / Zhang, Chang Fu

Planta. 2022 Mar., v. 255, no. 3

2022

Abstract: MAIN CONCLUSION: The RgTyDCs possess typical decarboxylase functional activity in vitro and in vivo and participate in acteoside biosynthesis in R. glutinosa, positively controlling its production via activated acteoside/tyrosine-derived pathways. ... ...

Abstract	MAIN CONCLUSION: The RgTyDCs possess typical decarboxylase functional activity in vitro and in vivo and participate in acteoside biosynthesis in R. glutinosa, positively controlling its production via activated acteoside/tyrosine-derived pathways. Acteoside is an important ingredient in Rehmannia glutinosa and an active natural component that contributes to human health. Tyrosine decarboxylase (TyDC) is thought to play an important role in acteoside biosynthesis. Several plant TyDC family genes have been functionally characterized and shown to play roles in some bioactive metabolites’ biosynthesis by mediating the decarboxylation of L-tyrosine and L-dihydroxyphenylalanine (L-DOPA); however, one TyDC (named RgTyDC1) in R. glutinosa has been identified to date, but the family genes that contribute to acteoside biosynthesis remain largely characterized. Here, by in silico and experimental analyses, we isolated and identified three RgTyDCs (RgTyDC2 to RgTyDC4) in this species; these genes’ sequences showed 50.92–82.55% identity, included highly conserved domains with homologues in other plants, classified into two subsets, and encoded proteins that localized to the cytosol. Enzyme kinetic analyses of RgTyDC2 and RgTyDC4 indicated that they both efficiently catalysed L-tyrosine and L-dopa. The overexpression of RgTyDC2 and RgTyDC4 in R. glutinosa, which was associated with enhanced TyDC activity, significantly increased tyramine and dopamine contents, which was positively correlated with improved acteoside production; moreover, the overexpression of RgTyDCs led to upregulated expression of some other genes-related to acteoside biosynthesis. This result suggested that the overexpression of RgTyDCs can positively activate the molecular networks of acteoside pathways, enhancing the accumulation of tyramine and dopamine, and promoting end-product acteoside biosynthesis. Our findings provide an evidence that RgTyDCs play vital molecular roles in acteoside biosynthesis pathways, contributing to the increase in acteoside yield in R. glutinosa.
Keywords	L-dopa ; Rehmannia glutinosa ; biosynthesis ; computer simulation ; cytosol ; decarboxylation ; dopamine ; enzyme kinetics ; human health ; ingredients ; metabolites ; tyramine ; tyrosine ; tyrosine decarboxylase
Language	English
Dates of publication	2022-03
Size	p. 64.
Publishing place	Springer Berlin Heidelberg
Document type	Article
ZDB-ID	208909-9
ISSN	1432-2048 ; 0032-0935 ; 1866-2749
ISSN (online)	1432-2048
ISSN	0032-0935 ; 1866-2749
DOI	10.1007/s00425-022-03849-8
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Article ; Online: Antagonistic Activity and Mechanism of Bacillus subtilis XZ16-1 Suppression of Wheat Powdery Mildew and Growth Promotion of Wheat

Yi, Yan-Jie / Yin, Ya-Nan / Yang, Ying-Ao / Liang, Yu-Qian / Shan, You-Tian / Zhang, Chang-Fu / Zhang, Yu-Rong / Liang, Zhenpu

Phytopathology®. 2022 Dec., v. 112, no. 12 p.2476-2485

2022

Abstract: Wheat powdery mildew caused by Blumeria graminis f. sp. tritici (Bgt) is one of the most serious wheat diseases in the world. Biological control is considered an environmentally safe approach to control plant diseases. Here, to develop effective ... ...

Abstract	Wheat powdery mildew caused by Blumeria graminis f. sp. tritici (Bgt) is one of the most serious wheat diseases in the world. Biological control is considered an environmentally safe approach to control plant diseases. Here, to develop effective biocontrol agents for controlling wheat powdery mildew, antagonistic strain XZ16-1 was isolated and identified as Bacillus subtilis based on the morphological, biochemical, and physiological characteristics and 16S rDNA sequence. The culture filtrate of B. subtilis XZ16-1 and its extracts had a significant inhibitory effect on the spore germination of Bgt. Moreover, the therapeutic and prevention efficacy of the 100% culture filtrate on wheat powdery mildew reached 81.18 and 83.72%, respectively, which was better than that of chemical fungicide triadimefon. Further antimicrobial mechanism analysis showed that the XZ16-1 culture filtrate could inhibit the development of powdery mildew spores by disrupting the cell membrane integrity, causing reductions in the mitochondrial membrane potential, and inducing the accumulation of reactive oxygen species in the spores. Biochemical detection indicated that XZ16-1 could solubilize phosphate, fix nitrogen, and produce hydrolases, lipopeptides, siderophores, and indole-3-acetic acid. Defense-related enzymes activated in wheat seedlings treated with the culture filtrate indicated that disease resistance was induced in wheat to resist pathogens. Furthermore, a 10⁶ CFU/ml suspension of XZ16-1 increased the height, root length, fresh weight, and dry weight of wheat seedlings by 77.13, 63.46, 76.73, and 19.16%, respectively, and showed good growth-promotion properties. This study investigates the antagonistic activity and reveals the action mechanism of XZ16-1, which can provide an effective microbial agent for controlling wheat powdery mildew.
Keywords	Bacillus subtilis ; biological control ; culture filtrates ; disease resistance ; growth promotion ; hydrolases ; indole acetic acid ; lipopeptides ; membrane potential ; mitochondrial membrane ; nitrogen ; nucleotide sequences ; phosphates ; powdery mildew ; reactive oxygen species ; siderophores ; spore germination ; therapeutics ; triadimefon ; wheat ; antagonistic activity ; antimicrobial mechanism ; Bacillus subtilis XZ16-1 ; plant growth promotion ; wheat powdery mildew
Language	English
Dates of publication	2022-12
Size	p. 2476-2485.
Publishing place	The American Phytopathological Society
Document type	Article ; Online
ZDB-ID	208889-7
ISSN	1943-7684 ; 0031-949X
ISSN (online)	1943-7684
ISSN	0031-949X
DOI	10.1094/PHYTO-04-22-0118-R
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Article ; Online: Transcriptome-based identification and expression characterization of RgABCC transporters in Rehmannia glutinosa.

Yang, Yan Hui / Wang, Chao Jie / Li, Rui Fang / Yi, Yan Jie / Zeng, Lei / Yang, Heng / Zhang, Chang Fu / Song, Kai Yi / Guo, Si Jiao

PloS one

2021 Volume 16, Issue 6, Page(s) e0253188

Abstract: ABCC multidrug resistance-associated proteins (ABCCs/MRPs), a subfamily of ABC transporters, are involved in multiple physiological processes. Although these proteins have been characterized in some plants, limited efforts have been made to address their ...

Abstract	ABCC multidrug resistance-associated proteins (ABCCs/MRPs), a subfamily of ABC transporters, are involved in multiple physiological processes. Although these proteins have been characterized in some plants, limited efforts have been made to address their possible roles in Rehmannia glutinosa, a medicinal plant. Here, we scanned R. glutinosa transcriptome sequences and identified 18 RgABCC genes by in silico analysis. Sequence alignment revealed that the RgABCCs were closely phylogenetically related and highly conserved with other plant ABCCs/MRPs. Subcellular localization revealed that most of the RgABCCs were deposited in vacuoles and a few in plasma membranes. Tissue-specific expression of the RgABCCs indicated significant specific accumulation patterns, implicating their roles in the respective tissues. Differential temporal expression patterns of the RgABCCs exhibited their potential roles during root development. Various abiotic stress and hormone treatment experiments indicated that some RgABCCs could be transcriptionally regulated in roots. Furthermore, the transcription of several RgABCCs in roots was strongly activated by cadmium (Cd), suggesting possible roles under heavy metal stresses. Functional analysis of RgABCC1 heterologous expression revealed that it may increase the tolerance to Cd in yeast, implying its Cd transport activity. Our study provides a detailed inventory and molecular characterization of the RgABCCs and valuable information for exploring their functions in R. glutinosa.
MeSH term(s)	ATP-Binding Cassette Transporters/antagonists & inhibitors ; ATP-Binding Cassette Transporters/genetics ; Cell Membrane/genetics ; Cell Membrane/metabolism ; Gene Expression Profiling ; Gene Expression Regulation, Plant ; Plant Proteins/biosynthesis ; Plant Proteins/genetics ; Plant Roots/genetics ; Plant Roots/metabolism ; Rehmannia/genetics ; Rehmannia/metabolism ; Stress, Physiological/physiology ; Transcriptome ; Vacuoles/genetics ; Vacuoles/metabolism
Chemical Substances	ATP-Binding Cassette Transporters ; Plant Proteins
Language	English
Publishing date	2021-06-25
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1932-6203
ISSN (online)	1932-6203
DOI	10.1371/journal.pone.0253188
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Article ; Online: Integrated miRNA-mRNA analysis reveals the roles of miRNAs in the replanting benefit of Achyranthes bidentata roots.

Yang, Yan Hui / Li, Ming Jie / Yi, Yan Jie / Li, Rui Fang / Li, Cui Xiang / Yang, Heng / Wang, Jing / Zhou, Jing Xuan / Shang, Sui / Zhang, Zhong Yi

Scientific reports

2021 Volume 11, Issue 1, Page(s) 1628

Abstract: The yield and quality of the medicinal plant Achyranthes bidentata can be increased when it is replanted into a field cultivated previously with the same crop, however, fundamental aspects of its biology (so-called "replanting benefit") still remain to ... ...

Abstract	The yield and quality of the medicinal plant Achyranthes bidentata can be increased when it is replanted into a field cultivated previously with the same crop, however, fundamental aspects of its biology (so-called "replanting benefit") still remain to be elucidated. miRNAs are sRNA molecules involved in the post-transcriptional regulation of gene expression in plant biological processes. Here, 267 conserved and 36 novel miRNAs were identified in A. bidentata roots. We compared the miRNA content of the roots (R1) from first-year planting with that of the roots (R2) of second-year replanting, and screened 21 differentially expressed (DE) miRNAs. Based on in silico functional analysis, integrated miRNA-mRNA datasets allowed the identification of 10 miRNA-target family modules, which might participate in the benefit. The expression profiles of the miRNA-target modules were potentially correlated with the presence of the replanting benefit. The indication was that the miRNA-responsive continuous monoculture could reprogram miRNA-mRNA expression patterns, which possibly promote the root growth and development, enhance its transport activity and strengthen its tolerance to various stresses, thereby improving A. bidentata productivity as observed in the replanting benefit. Our study provides basic data for further research on the molecular mechanisms of the benefit in A. bidentata.
MeSH term(s)	Achyranthes/genetics ; Achyranthes/growth & development ; Biomass ; Crop Production/methods ; Gene Expression Regulation, Plant ; Gene Library ; Gene Ontology ; MicroRNAs/genetics ; MicroRNAs/metabolism ; Plant Roots/genetics ; Plant Roots/physiology ; Plants, Medicinal/genetics ; Plants, Medicinal/growth & development ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Real-Time Polymerase Chain Reaction
Chemical Substances	MicroRNAs ; RNA, Messenger
Language	English
Publishing date	2021-01-15
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-021-81277-6
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Article ; Online: The root transcriptome of Achyranthes bidentata and the identification of the genes involved in the replanting benefit.

Yang, Yan Hui / Li, Ming Jie / Yi, Yan Jie / Li, Rui Fang / Dong, Cheng / Zhang, Zhong Yi

Plant cell reports

2018 Volume 37, Issue 4, Page(s) 611–625

Abstract: Key message: The transcriptome profiling in replanting roots revealed that expression pattern changes of key genes promoted important metabolism pathways, antioxidant and pathogen defense systems, adjusted phytohormone signaling and inhibited lignin ... ...

Abstract	Key message: The transcriptome profiling in replanting roots revealed that expression pattern changes of key genes promoted important metabolism pathways, antioxidant and pathogen defense systems, adjusted phytohormone signaling and inhibited lignin biosynthesis. The yield of the medicinal plant Achyranthes bidentata could be significantly increased when replanted into a field cultivated previously for the same crop, but the biological basis of this so-called "replanting benefit" is unknown. Here, the RNA-seq technique was used to identify candidate genes responsible for the benefit. The analysis of RNA-seq libraries prepared from mRNA extracted from the roots of first year planting (normal growth, NG) and second year replanting (consecutive monoculture, CM) yielded about 40.22 GB sequencing data. After de novo assembly, 87,256 unigenes were generated with an average length of 1060 bp. Among these unigenes, 55,604 were annotated with public databases, and 52,346 encoding sequences and 2881 transcription factors were identified. A contrast between the NG and CM libraries resulted in a set of 3899 differentially transcribed genes (DTGs). The DTGs related to the replanting benefit and their expression profiles were further analyzed by bioinformatics and qRT-PCR approaches. The major differences between the NG and CM transcriptomes included genes encoding products involved in glycolysis/gluconeogenesis, glutathione metabolism and antioxidant defense, in aspects of the plant/pathogen interaction, phytohormone signaling and phenylpropanoid biosynthesis. The indication was that replanting material enjoyed a stronger level of defense systems, a balance regulation of hormone signals and a suppression of lignin formation, thereby promoting root growth and development. The study provides considerable significant insights for a better understanding of the molecular mechanism of the replanting benefit and suggests their possible application in developing methods to reinforce the effects in medicinal plants.
MeSH term(s)	Achyranthes/genetics ; Achyranthes/growth & development ; Biomass ; Computational Biology/methods ; Gene Expression Profiling/methods ; Gene Expression Regulation, Developmental ; Gene Expression Regulation, Plant ; Genes, Plant/genetics ; High-Throughput Nucleotide Sequencing ; Molecular Sequence Annotation ; Plant Roots/genetics ; Plant Roots/growth & development ; Reverse Transcriptase Polymerase Chain Reaction ; Transcriptome
Language	English
Publishing date	2018-01-17
Publishing country	Germany
Document type	Journal Article
ZDB-ID	8397-5
ISSN	1432-203X ; 0721-085X ; 0721-7714
ISSN (online)	1432-203X
ISSN	0721-085X ; 0721-7714
DOI	10.1007/s00299-018-2255-z
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Article ; Online: Molecular Design, Structural Analysis and Antifungal Activity of Derivatives of Peptide CGA-N46.

Li, Rui-Fang / Lu, Zhi-Fang / Sun, Ya-Nan / Chen, Shi-Hua / Yi, Yan-Jie / Zhang, Hui-Ru / Yang, Shuo-Ye / Yu, Guang-Hai / Huang, Liang / Li, Chao-Nan

Interdisciplinary sciences, computational life sciences

2016 Volume 8, Issue 3, Page(s) 319–326

Abstract: Chromogranin A (CGA)-N46, a derived peptide of human chromogranin A, has antifungal activity. To further research the active domain of CGA-N46, a series of derivatives were designed by successively deleting amino acid from both terminus of CGA-N46, and ... ...

Abstract	Chromogranin A (CGA)-N46, a derived peptide of human chromogranin A, has antifungal activity. To further research the active domain of CGA-N46, a series of derivatives were designed by successively deleting amino acid from both terminus of CGA-N46, and the amino acid sequence of each derivative was analyzed by bioinformatic software. Based on the predicted physicochemical properties of the peptides, including half-life time in mammalian reticulocytes (in vitro), yeast (in vivo) and E. coli (in vivo), instability index, aliphatic index and grand average of hydropathicity (GRAVY), the secondary structure, net charge, the distribution of hydrophobic residues and hydrophilic residues, the final derivatives CGA-N15, CGA-N16, CGA-N12 and CGA-N8 were synthesized by solid-phase peptide synthesis. The results of bioinformatic analysis showed that CGA-N46 and its derivatives were α-helix, neutral or weak positive charge, hydrophilic, and CGA-N12 and CGA-N8 were more stable than the other derivatives. The results of circular dichroism confirmed that CGA-N46 and its derived peptides displayed α-helical structure in an aqueous solution and 30 mM sodium dodecylsulfate, but α-helical contents decreased in hydrophobic lipid vesicles. CGA-N15, CGA-N16, CGA-N12 and CGA-N8 had higher antifungal activities than their mother peptide CGA-N46. Among of the derived peptides, CGA-N12 showed the least hemolytic activity. In conclusion, we have successfully identified the active domain of CGA-N46 with strong antifungal activity and weak hemolytic activity, which provides the possibility to develop a new class of antibiotics.
MeSH term(s)	Amino Acid Sequence ; Animals ; Antifungal Agents/chemistry ; Antifungal Agents/pharmacology ; Chromogranin A/chemistry ; Circular Dichroism ; Hemolysis/drug effects ; Humans ; Hydrophobic and Hydrophilic Interactions ; Peptides/adverse effects ; Peptides/chemistry ; Peptides/pharmacology ; Structure-Activity Relationship
Chemical Substances	Antifungal Agents ; Chromogranin A ; Peptides
Language	English
Publishing date	2016-09
Publishing country	Germany
Document type	Journal Article
ZDB-ID	2493085-4
ISSN	1867-1462 ; 1913-2751
ISSN (online)	1867-1462
ISSN	1913-2751
DOI	10.1007/s12539-016-0163-x
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Article: De novo characterization of the Rehmannia glutinosa leaf transcriptome and analysis of gene expression associated with replanting disease

Yang, Yan Hui / Li, Ming Jie / Chen, Xin Jian / Wang, Peng Fei / Wang, Feng Qing / Lin, Wen Xiong / Yi, Yan Jie / Zhang, Zong Wu / Zhang, Zhong Yi

Molecular breeding. 2014 Oct., v. 34, no. 3

2014

Abstract: The perennial herbaceous plant, Rehmannia glutinosa Libosch, is a traditional Chinese medicine because of the active extracts from its dried tuberous roots. However, R. glutinosa productivity and quality has been seriously affected by replanting ( ... ...

Abstract	The perennial herbaceous plant, Rehmannia glutinosa Libosch, is a traditional Chinese medicine because of the active extracts from its dried tuberous roots. However, R. glutinosa productivity and quality has been seriously affected by replanting (continuous monoculture) disease, which cannot at present be effectively prevented or controlled. Since very little is known about the molecular mechanism of replanting disease, we aimed to investigate transcriptional changes in replanted R. glutinosa leaves and identify genes responding to the disease. Here, we constructed a cDNA library from total RNA isolated from the mixture of leaves of the first year planted (L1) and the second year replanted R. glutinosa (L2) at the tuberous root expansion stage. We generated about 37 million high-quality reads from the cDNA library using deep sequencing and obtained 94,544 distinct sequences by de novo assembly and gap-filling. From this set, a total of 54,490 transcripts containing a complete or partial encoding region was annotated in public protein databases. Based on this resource, we screened differentially expressed genes in the L1 and L2 libraries by the digital gene expression (DGE) technique. Finally, a set of 1,954 genes was found to be differentially expressed in L2. Using bioinformatics and qRT-PCR, the 117 most strongly differentially expressed genes were considered to be prime candidates responsible for replanting disease. Functional analysis of the candidates showed that ethylene signaling was exaggerated and the genes in key metabolism pathways were abnormally expressed in L2. The study provides an important resource for further investigating the cause of replanting disease and developing methods to control or reduce its harmful effects.
Keywords	Oriental traditional medicine ; RNA ; Rehmannia glutinosa ; bioinformatics ; cDNA libraries ; complementary DNA ; control methods ; databases ; ethylene ; gene expression ; gene expression regulation ; genes ; herbaceous plants ; high-throughput nucleotide sequencing ; leaves ; metabolism ; reverse transcriptase polymerase chain reaction ; roots ; transcription (genetics) ; transcriptomics
Language	English
Dates of publication	2014-10
Size	p. 905-915.
Publishing place	Springer-Verlag
Document type	Article
ZDB-ID	1230924-2
ISSN	1572-9788 ; 1380-3743
ISSN (online)	1572-9788
ISSN	1380-3743
DOI	10.1007/s11032-014-0084-5
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Article ; Online: Transcriptome/degradome-wide identification of R. glutinosa miRNAs and their targets: the role of miRNA activity in the replanting disease.

Li, Ming Jie / Yang, Yan Hui / Chen, Xin Jian / Wang, Feng Qing / Lin, Wen Xiong / Yi, Yan Jie / Zeng, Lei / Yang, Shuo Ye / Zhang, Zhong Yi

PloS one

2013 Volume 8, Issue 7, Page(s) e68531

Abstract: Rehmannia glutinosa, a traditional Chinese medicine herb, is unable to grow normally in a soil where the same species has recently been cultivated. The biological basis of this so called "replanting disease" is unknown, but it may involve the action of ... ...

Abstract	Rehmannia glutinosa, a traditional Chinese medicine herb, is unable to grow normally in a soil where the same species has recently been cultivated. The biological basis of this so called "replanting disease" is unknown, but it may involve the action of microRNAs (miRNAs), which are known to be important regulators of plant growth and development. High throughput Solexa/Illumina sequencing was used to generate a transcript library of the R. glutinosa transcriptome and degradome in order to identify possible miRNAs and their targets implicated in the replanting disease. A total of 87,665 unigenes and 589 miRNA families (17 of which have not been identified in plants to date) was identified from the libraries made from a first year (FP) and a second year (SP) crop. A comparison between the FP and SP miRNAs showed that the abundance of eight of the novel and 295 of the known miRNA families differed between the FP and SP plants. Sequencing of the degradome sampled from FP and SP plants led to the identification of 165 transcript targets of 85 of the differentially abundant miRNA families. The interaction of some of these miRNAs with their target(s) is likely to form an important part of the molecular basis of the replanting disease of R. glutinosa.
MeSH term(s)	Computational Biology ; Gene Expression Profiling ; Gene Expression Regulation, Plant ; High-Throughput Nucleotide Sequencing ; MicroRNAs/genetics ; Molecular Sequence Annotation ; Tracheophyta/genetics ; Transcriptome
Chemical Substances	MicroRNAs
Language	English
Publishing date	2013-07-05
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2267670-3
ISSN	1932-6203 ; 1932-6203
ISSN (online)	1932-6203
ISSN	1932-6203
DOI	10.1371/journal.pone.0068531
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