A5032147441- Pineapple and bromelain studies
- Plant Molecular Biology Research
- Genomics and Phylogenetic Studies
- Plant tissue culture and regeneration
- Plant Gene Expression Analysis
- Plant Reproductive Biology
- Advanced biosensing and bioanalysis techniques
- Plant nutrient uptake and metabolism
- Banana Cultivation and Research
- Plant-Microbe Interactions and Immunity
- Chromosomal and Genetic Variations
- Plant Pathogens and Fungal Diseases
- Plant Stress Responses and Tolerance
- Heavy Metal Exposure and Toxicity
- Bioinformatics and Genomic Networks
- Polysaccharides and Plant Cell Walls
- Plant Physiology and Cultivation Studies
- Genomics, phytochemicals, and oxidative stress
- Horticultural and Viticultural Research
- Studies on Chitinases and Chitosanases
- Cocoa and Sweet Potato Agronomy
- Trace Elements in Health
- Plant Virus Research Studies
- Photosynthetic Processes and Mechanisms
- Plant biochemistry and biosynthesis
Ministry of Agriculture and Rural Affairs
2020-2025
China Medical University
2017-2025
Beijing Normal University
2025
Tropical Crops Genetic Resources Institute
2024-2025
Chinese Academy of Tropical Agricultural Sciences
2024-2025
Qingdao University
2025
Jacobs (United States)
2024
South China Agricultural University
2015-2024
Taiwan Agricultural Research Institute Council of Agriculture, Executive Yuan
2024
Jiangsu University of Technology
2024
The genomic signatures of positive selection and evolutionary constraints can be detected by analyses nucleotide sequences. One the most widely used programs for this purpose is CodeML, part PAML package. Although a number bioinformatics tools have been developed to facilitate use these various limitations. Here, we present wrapper tool named EasyCodeML that provides user-friendly graphical interface using CodeML. has custom running mode in which parameters adjusted meet different...
Abstract The rapid development of high-throughput sequencing (HTS) techniques has led biology into the big-data era. Data analyses using various bioinformatics tools rely on programming and command-line environments, which are challenging time-consuming for most wet-lab biologists. Here, we present TBtools (a T oolkit B iologists integrating biological data handling ), a stand-alone software with user-friendly interface. toolkit incorporates over 100 functions, designed to meet increasing...
WRKY proteins comprise a large family of transcription factors that play important roles in many aspects physiological processes and adaption to environment. However, little information was available about the genes pineapple (Ananas comosus), an tropical fruits. The recent release whole-genome sequence allowed us perform genome-wide investigation into organization expression profiling genes.In present study, 54 (AcWRKY) were identified renamed on basis their respective chromosome...
Abstract Lychee is an exotic tropical fruit with a distinct flavor. The genome of cultivar ‘Feizixiao’ was assembled into 15 pseudochromosomes, totaling ~470 Mb. High heterozygosity (2.27%) resulted in two complete haplotypic assemblies. A total 13,517 allelic genes (42.4%) were differentially expressed diverse tissues. Analyses 72 resequenced lychee accessions revealed independent domestication events. extremely early maturing cultivars preferentially aligned to one haplotype domesticated...
Abstract Circos plots enable scientists to easily inspect big biological data genome‐widely on a macroscopic scale, but cumbersome preparation of input and complex parameter configuration limits its application. We have developed the “Advanced Circos” function in TBtools, provide simple way construct plots. As an out‐of‐the‐box combo toolkit, TBtools has integrated set functions convenient for preparation. The is supplied with user‐friendly interface customization settings can be deployed...
Highlights of ggVennDiagram include: (1) Subset/Region filling Venn diagram up to seven sets; (2) Upset plot with unlimited (3) Calculator for two or more (4) Provide as R package, Shiny App, and TBtools plugin.
Small RNAs are key regulators in plant growth and development. One subclass, phased siRNAs (phasiRNAs) require a trigger microRNA for their biogenesis. In grasses, two pathways yield abundant phasiRNAs during anther development; miR2275 triggers one class, 24-nt phasiRNAs, coincident with meiosis, while second class of 21-nt present premeiotic anthers. Here we report that the phasiRNA pathway is widely flowering plants, indicating reproductive likely originated evolutionary emergence Deep...
The MYB proteins comprise one of the largest families plant transcription factors, which are involved in various physiological and biochemical processes. Pineapple (Ananas comosus) is three most important tropical fruits worldwide. completion pineapple genome sequencing provides a great opportunity to investigate organization evolutionary traits genes at genome-wide level.In present study, total 94 R2R3-MYB were identified further phylogenetically classified into 26 subfamilies, as supported...
Small RNAs (sRNAs) have been recently recognized as key genetic and epigenetic regulators in various organisms, ranging from the modification of DNA histone methylations to modulation abundance coding or non-coding RNAs. In plants, major regulatory sRNAs are classified respective microRNA (miRNA) small interfering RNA (siRNA) species, with former primarily engaging posttranscriptional regulation while latter transcriptional one. Many these characterized involved diverse biological programs,...
Plants produce countless specialized metabolites crucial for their development and fitness, many are useful bioactive compounds. Capsaicinoids intriguing genus-specialized that confer a pungent flavor to Capsicum fruits, they widely applied in different areas. Among the five domesticated species, chinense has high content of capsaicinoids, which results an extremely hot flavor. However, species-specific upregulation capsaicinoid-biosynthetic genes (CBGs) evolution peppers not well...
Non-alcoholic fatty liver disease (NAFLD) is an emerging global with increasing prevalence. However, the mechanism of NAFLD development not fully understood. To elucidate cell-specific role nuclear factor erythroid-derived 2-like 2 (NRF2) in pathogenesis NAFLD, we utilized hepatocyte- and macrophage-specific Nrf2-knockout [Nrf2(L)-KO Nrf2(Mϕ)-KO] mice to examine progress induced by high-fat diet (HFD). Compared Nrf2-LoxP littermates, Nrf2(L)-KO showed less enlargement, milder inflammation...
Plant biosynthesis involves numerous specialized metabolites with diverse chemical natures and biological activities. The of often exclusively occurs in response to tissue-specific combinatorial developmental cues that are controlled at the transcriptional level. Capsaicinoids a group confer pungent flavor pepper fruits. Capsaicinoid fruit placenta combines its cues. Although capsaicinoid biosynthetic pathway has been largely characterized, regulatory mechanisms control metabolism have not...
ABSTRACT The Sapindaceae family, encompassing a wide range of plant forms such as herbs, vines, shrubs, and trees, is widely distributed across tropical subtropical regions. This family includes economically important crops like litchi, longan, rambutan, ackee. With the application genomic technologies in recent years, several genomes have been decoded, leading to an accumulation substantial omics data this field. surge highlights pressing need for unified center capable storing, sharing,...
Sterile inflammation after myocardial infarction is classically credited to myeloid cells interacting with dead cell debris in the infarct zone
Genome editing using CRISPR/Cas or other systems has become a cornerstone of numerous biological and applied research fields. However, detecting the resulting mutations by analysis sequencing data remains time-consuming inefficient. In response to this issue, we designed SuperDecode, an integrated software toolkit for analyzing outcomes range strategies. SuperDecode comprises three modules, DSDecodeMS, HiDecode, LaDecode, each automatically decode from Sanger, high-throughput short-read...
Summary Plant micro RNA s (mi s) regulate vital cellular processes, including responses to extreme temperatures with which reactive oxygen species ( ROS ) are often closely associated. In the present study, it was found that aberrant caused extensive changes in abundance numerous mi banana fruit, especially copper (Cu)‐associated s. Among them, miR528 significantly downregulated under cold stress and target genes encoding polyphenol oxidase PPO ), different from those identified rice maize....
Jasmonates (JAs) play an important role in plant developmental processes and regulate the biosynthesis of various specialized metabolites, transcription factors are crucial mediating JA signaling to these processes. Capsaicinoids (Caps) intriguing metabolites produced uniquely by Capsicum species that give their fruits a pungent flavor defend against herbivory pathogens. In this study, we identify R2R3-MYB factor CaMYB108 demonstrate its roles regulating Caps stamen development....
MicroRNAs (miRNAs) and phased small interfering RNAs (phasiRNAs) play vital regulatory roles in plant growth development. Little is known about these litchi (Litchi chinensis), an economically important fruit crop widely cultivated Southeast Asia. We profiled the RNA population with various deep-sequencing techniques in-depth bioinformatic analyses. The genome-wide identification of miRNAs, their target genes, phasiRNA-generating (PHAS) genes/loci showed that function miR482/2118 has...