A5100456094- Genomics and Phylogenetic Studies
- Animal Virus Infections Studies
- Plant Molecular Biology Research
- Chromosomal and Genetic Variations
- Polysaccharides and Plant Cell Walls
- Plant Virus Research Studies
- Viral Infections and Immunology Research
- Microbial Natural Products and Biosynthesis
- Cancer-related molecular mechanisms research
- Plant Reproductive Biology
- Genomics and Chromatin Dynamics
- Plant Disease Resistance and Genetics
- Cancer-related gene regulation
- Viral Infections and Vectors
- RNA and protein synthesis mechanisms
- Herpesvirus Infections and Treatments
- Plant nutrient uptake and metabolism
- Plant Water Relations and Carbon Dynamics
- Nitrogen and Sulfur Effects on Brassica
- Plant tissue culture and regeneration
- Edible Oils Quality and Analysis
- Epigenetics and DNA Methylation
- Plant Physiology and Cultivation Studies
- Plant and Fungal Species Descriptions
- Plant Gene Expression Analysis
Institute of Vegetables and Flowers
2021-2024
Chinese Academy of Agricultural Sciences
2021-2024
First Affiliated Hospital of Nanchang University
2023
Nanchang University
2023
Inner Mongolia Agricultural University
2020
Zhejiang Sci-Tech University
2019-2020
Shanghai Chenshan Plant Science Research Center
2020
Center for Agricultural Resources Research
2018
Institute of Genetics and Developmental Biology
2018
Jinling Institute of Technology
2013-2017
Summary Brassica rapa comprises many important cultivated vegetables and oil crops. However, Chiifu v3.0, the current B. reference genome, still contains hundreds of gaps. Here, we presented a near‐complete genome assembly v4.0, which was 424.59 Mb with only two gaps, using Oxford Nanopore Technology (ONT) ultralong‐read sequencing Hi‐C technologies. The new 12 contigs, contig N50 38.26 Mb. Eight ten chromosomes were entirely reconstructed in single from telomere to telomere. We found that...
The species Brassica rapa includes several important vegetable crops. draft reference genome of B. ssp. pekinensis was completed in 2011, and it has since been updated twice. pangenome with structural variations 18 accessions published 2021. Although extensive genomic analysis conducted on rapa, a comprehensive annotation including gene structure, alternative splicing (AS) events, non-coding genes is still lacking. Therefore, we used the Pacific Biosciences (PacBio) single-molecular...
Two species of the DNA virus Torque teno sus (TTSuV), TTSuV1 and TTSuV2, have become widely distributed in pig-farming countries recent years. In this study, we performed a comprehensive analysis synonymous codon usage bias 41 available TTSuV2 coding sequences (CDS), compared patterns TTSuV1. TTSuV were found to be phylogenetically conserved. Values for effective number codons (ENC) indicated that overall extent both was not significant, most frequently occurring had an A or C at third...
Mesophyll cells are the main site of photosynthesis and largest cell population in leaves, with tightly packed cylinder palisade mesophyll (PMCs) on adaxial side loosely arranged rounded spongy (SMCs) abaxial side. Loss dorsoventral differentiation PMCs SMCs causes alterations leaf phenotypes (Yu et al., 2020). Brassica rapa encompasses many leafy vegetables extreme morphological diversity, such as Chinese cabbage head pak choi flat leaves. Exploring between identifying key regulatory genes...
AUXIN RESPONSE FACTOR3 (ARF3), one of the auxin response factors family transcription factors, is well characterized by its functions in polarity identification and organ patterning. We recently demonstrated that ARF3 plays important roles floral meristem (FM) maintenance termination regulating cytokinin biosynthesis signaling. However, relationship multiple differently developmental stage still unclear. Here, we present data distinct during early flower development are different from...
Abstract High-throughput Chromatin Conformation Capture (Hi-C) technologies can be used to investigate the three-dimensional genomic structure of plants. However, practical utility these is impeded by significant background noise, hindering their capability in detecting fine 3D structures. In this study, we optimized Bridge Linker Hi-C technology (BL-Hi-C) comprehensively chromatin landscape Brassica rapa and oleracea. The Bouquet configuration both B. oleracea was elucidated through...
Leaf adaxial–abaxial (ad–abaxial) polarity is crucial for leaf morphology and function, but the genetic machinery governing this process remains unclear. To uncover critical genes involved in ad–abaxial patterning, we applied a combination of silico prediction using machine learning (ML) experimental analysis. A Random Forest model was trained known to influence as ground truth. Gene expression data from various tissues conditions well promoter regulation derived transcription factor...
Tagetes erecta is an important ornamental and medicinal plant indigenous to Mexico Guatemala. The complete chloroplast genome of T. was newly sequenced in this study. total chloropalst size 152,055 bp. In total, 123 genes were indetified, including 79 protein-coding genes, 8 rRNA 37 tRNA genes. Twelve are containing introns (ycf3 clpP contained two introns). overall GC content 37.4%. A further phylogenomic analysis Asteraceae, 23 taxa, conducted for the placement genus Tagetes. plastome will...
The complete chloroplast genome of Zhangjiajie sage, Salvia daiguii, was assembled in this study. is 151,434 bp length and contained 134 encoded genes total, including 88 protein-coding genes, eight ribosomal RNA 37 transfer genes. result phylogenetic analysis based on 17 genomes revealed that S. daiguii clustered with miltiorrhiza Lamiaceae.
Olea europaea, native to the Mediterranean region, has been widely cultivated for nutritional content of its fruits and leaves. To adapt climates beyond Mediterranean, research on climatic adaptation O. europaea is urgently needed. Therefore, in this study, CBF/DREB1 family genes olives, which are related cold tolerance, were genome-wide characterized. In total, four OeCBFs screened; their open reading frame (ORF) 552~684 bp length, encoded proteins 20,786.60~25,235.16 Da, with 183~227 amino...
Uridine diphosphate glucose dehydrogenase (UGDH) is a key enzyme in the hemicellulose and pectin biosynthesis pathway participates regulation of growth development plants. In this study, we isolated BpUGDH gene from paper mulberry (Broussonetia kazinoki Ă Broussonetia papyifera) analyzed its function expression characteristics. The results show that was expressed all organs with higher stems than leaves roots. A pBpUGDH::GUS construct highly transgenic Arabidopsis thaliana seedlings,...
Abstract The species Brassica rapa includes several important vegetable crops. draft reference genome of B. ssp. pekinensis was completed in 2011, and it has since been updated twice. pangenome with structural variations 18 accessions published 2021. Although extensive genomic analysis conducted on , a comprehensive annotation including gene structure, alternative splicing events, non-coding genes is still lacking. Therefore, we used the Pacific Biosciences (PacBio) single-molecular...
ABSTRACT High-throughput chromatin conformation capture (Hi-C) technologies can be used to investigate the three-dimensional genomic structure of plants. However, complex protocol and high background noise in Hi-C hinder its practical application plant 3D genomics. Here, we took approach modified Bridge Linker technology (BL-Hi-C) explore landscape. We BL-Hi-C method by simplifing nuclei extraction step. By using Brassica rapa oleracea , showed higher signal value lower than Hi-C. The...