A5101408268- Colorectal Cancer Treatments and Studies
- Lung Cancer Treatments and Mutations
- Cancer Genomics and Diagnostics
- Genomics and Phylogenetic Studies
- Cancer, Hypoxia, and Metabolism
- DNA Repair Mechanisms
- CRISPR and Genetic Engineering
- Plant biochemistry and biosynthesis
- HER2/EGFR in Cancer Research
- Plant and Fungal Species Descriptions
- Cancer Treatment and Pharmacology
- Cancer therapeutics and mechanisms
- Genetic diversity and population structure
- Identification and Quantification in Food
- Advanced biosensing and bioanalysis techniques
- Ginseng Biological Effects and Applications
- Plant Diversity and Evolution
- Microbial Natural Products and Biosynthesis
- Plant Gene Expression Analysis
- RNA and protein synthesis mechanisms
- Gastric Cancer Management and Outcomes
- Natural product bioactivities and synthesis
- Plant Molecular Biology Research
- Advanced Breast Cancer Therapies
- RNA Research and Splicing
Memorial Sloan Kettering Cancer Center
2021-2025
Kettering University
2022-2025
Qufu Normal University
2021-2025
Zhongshan Hospital
2025
Fudan University
2025
Yangzhou University
2024
Fujian Medical University
2024
First Hospital of Jilin University
2024
Jilin University
2024
The University of Texas Medical Branch at Galveston
2017-2023
The plant working group of the Consortium for Barcode Life recommended two-locus combination rbcL+matK as barcode, yet was shown to successfully discriminate among 907 samples from 550 species at level with a probability 72%. admits that barcode is far perfect due low identification rate, and search not over.Here, we compared seven candidate DNA barcodes (psbA-trnH, matK, rbcL, rpoC1, ycf5, ITS2, ITS) medicinal species. Our ranking criteria included PCR amplification efficiency, differential...
Background The internal transcribed spacer 2 (ITS2) region of nuclear ribosomal DNA is regarded as one the candidate barcodes because it possesses a number valuable characteristics, such availability conserved regions for designing universal primers, ease its amplification, and sufficient variability to distinguish even closely related species. However, general analysis ability discriminate species in comprehensive sample set lacking. Methodology/Principal Findings In current study, 50,790...
A two-marker combination of plastid rbcL and matK has previously been recommended as the core plant barcode, to be supplemented with additional markers such trnH-psbA nuclear ribosomal internal transcribed spacer (ITS). To assess effectiveness universality these barcode in seed plants, we sampled 6,286 individuals representing 1,757 species 141 genera 75 families (42 orders) by using four different methods data analysis. These analyses indicate that (i) three showed high levels (87.1-92.7%),...
The complete sequences of chloroplast genomes provide wealthy information regarding the evolutionary history species. With advance next-generation sequencing technology, number completely sequenced is expected to increase exponentially, powerful computational tools annotating genome are in urgent need. We have developed a web server CPGAVAS. accepts sequence as input. First, it predicts protein-coding and rRNA genes based on identification mapping most similar, full-length protein, cDNA by...
Salvia miltiorrhiza is an important medicinal plant with great economic and value. The complete chloroplast (cp) genome sequence of miltiorrhiza, the first sequenced member Lamiaceae family, reported here. 151,328 bp in length exhibits a typical quadripartite structure large (LSC, 82,695 bp) small (SSC, 17,555 single-copy regions, separated by pair inverted repeats (IRs, 25,539 bp). It contains 114 unique genes, including 80 protein-coding 30 tRNAs four rRNAs. structure, gene order, GC...
Danshen, Salvia miltiorrhiza Bunge, is one of the most widely used herbs in traditional Chinese medicine, wherein its rhizome/roots are particularly valued. The corresponding bioactive components include tanshinone diterpenoids, biosynthesis which a subject considerable interest. Previous investigations S. transcriptome have relied on short-read next-generation sequencing (NGS) technology, and vast majority resulting isotigs do not represent full-length cDNA sequences. Moreover, these...
Ginseng, which contains ginsenosides as bioactive compounds, has been regarded an important traditional medicine for several millennia. However, the genetic background of ginseng remains poorly understood, partly because plant's large and complex genome composition. We report entire sequence Panax using next-generation sequencing. The 3.5-Gb nucleotide more than 60% repeats encodes 42 006 predicted genes. Twenty-two transcriptome datasets mass spectrometry images roots were adopted to...
Abstract Background Five DNA regions, namely, rbcL , matK ITS, ITS2, and psbA-trnH have been recommended as primary barcodes for plants. Studies evaluating these regions species identification in the large plant taxon, which includes a number of closely related species, rarely reported. Results The feasibility using five proposed was tested discriminating within Asteraceae, largest family flowering Among markers, ITS2 most useful terms universality, sequence variation, capability Asteraceae...
Panax ginseng C. A. Meyer is one of the most widely used medicinal plants. Complete genome information for this species remains unavailable due to its large size. At present, analysis expressed sequence tags still powerful tool large-scale gene discovery. The global from P. tissues, especially those isolated stems, leaves and flowers, are limited, hindering in-depth study ginseng.
An ideal DNA barcoding region should be short enough to amplified from degraded DNA. In this paper, we discuss the possibility of using a nuclear sequence as barcode identify wide range medicinal plant species. First, PCR and sequencing success rates ITS ITS2 were evaluated based entirely on materials dry product herbarium voucher specimens, including some samples collected back 90 years ago. The results showed that could recover 91% while only 23% efficiency by one pair primer. Second,...
Salvia miltiorrhiza Bunge (Labiatae) is an emerging model plant for traditional medicine, and tanshinones are among the pharmacologically active constituents of this plant. Although extensive chemical pharmaceutical studies these compounds have been performed, on basic helix-loop-helix (bHLH) transcription factors that regulate tanshinone biosynthesis limited. In our study, 127 bHLH factor genes were identified in genome S. miltiorrhiza, phylogenetic analysis indicated SmbHLHs could be...
Salvia miltiorrhiza is a Chinese herb with significant pharmacologic effects because of the bioactive compounds tanshinones and phenolic acids. Methyl jasmonate ( MeJA ) has been used as an effective elicitor to enhance production these compounds. However, molecular mechanism ‐mediated tanshinone salvianolic acid biosynthesis remains unclear. The transcriptional profiles S. leaves at 12 h T12 after elicitation mock‐treated T0 were generated using Illumina deep RNA sequencing ‐seq) strategy...
Summary A circular consensus sequencing ( CCS ) strategy involving single molecule, real‐time SMRT DNA technology was applied to de novo assembly and nucleotide polymorphism SNP detection of chloroplast genomes. Chloroplast purified from enriched chloroplasts pooled individuals construct a shotgun library for each species. The reactions were performed on PacBio RS platform. sub‐reads generated polymerase reads that passed the native dumbbell‐shaped templates multiple times. complete genome...
With the combination of KRASG12C and EGFR inhibitors, KRAS is becoming a druggable target in colorectal cancer. However, secondary resistance limits its efficacy. Using cell lines, patient-derived xenografts, patient samples, we detected heterogeneous pattern putative alterations expected primarily to prevent inhibition ERK signaling by drugs at progression. Serial analysis blood samples on treatment demonstrates that most these are low frequency except for amplification, recurrent mechanism...
PURPOSE To determine the genetic predisposition underlying pancreatic acinar cell carcinoma (PACC) and characterize its genomic features. METHODS Both somatic germline analyses were performed using an Food Drug Administration–authorized matched tumor/normal sequencing assay on a clinical cohort of 28,780 patients with cancer, 49 whom diagnosed PACC. For subset PACCs, whole-genome (WGS; n = 12) RNA (n 6) performed. RESULTS Eighteen (36.7%) PACCs harbored pathogenic variants in homologous...
This study aimed to screen the differentially expressed genes (DEGs) of Gossypium hirsutum under UV-B stress and identify significant pathways based on gene enrichment analysis results. In this study, allotetraploid crop G. was used examine changes in various physiological indexes stress, screened out all DEGs (16 kJ m-2 d-1) six leaf transcriptomes. The main were analyzed according annotation. Finally, we predicted regulatory phenylpropanoid pathway by co-expression network analysis,...
Abstract Background Camptotheca acuminata is a Nyssaceae plant, often called the "happy tree", which indigenous in Southern China. C. produces terpenoid indole alkaloid, camptothecin (CPT), exhibits clinical effects various cancer treatments. Despite its importance, little known about transcriptome of and mechanism CPT biosynthesis, as only few nucleotide sequences are included GenBank database. Results From constructed cDNA library young leaves, total 30,358 unigenes, with an average length...
In this study, we tested the applicability of four DNA regions (rbcL, matK, ITS, and ITS2) as barcodes for identifying species within Euphorbiaceae. Based on assessments specific genetic divergence, barcoding gap, ability discrimination, present results affirmed that ITS/ITS2 is a potential barcode Euphorbiaceae species. This study also provided large-scale test to evaluate effectiveness differentiating Of 1183 plant samples collected from 871 in 66 diverse genera, successfully identified >...
Background Lonicera japonica Thunb. is a plant used in traditional Chinese medicine known for its anti-inflammatory, anti-oxidative, anti-carcinogenic, and antiviral pharmacological properties. The major active secondary metabolites of this are chlorogenic acid (CGA) luteoloside. While the biosynthetic pathways these relatively well known, genetic information available species, especially ingredients, limited. Methodology/Principal Findings We obtained one million reads (average length 400...