A5024719536- Chromosomal and Genetic Variations
- Genomics and Phylogenetic Studies
- Plant Virus Research Studies
- Plant Disease Resistance and Genetics
- Plant biochemistry and biosynthesis
- Genetic diversity and population structure
- Fern and Epiphyte Biology
- Plant Reproductive Biology
- Peanut Plant Research Studies
- Plant Diversity and Evolution
- CRISPR and Genetic Engineering
- Wheat and Barley Genetics and Pathology
- Bioenergy crop production and management
- Biofuel production and bioconversion
- Genetic Mapping and Diversity in Plants and Animals
- Plant Pathogens and Fungal Diseases
- Plant Molecular Biology Research
- Legume Nitrogen Fixing Symbiosis
- Plant-Microbe Interactions and Immunity
- Plant Gene Expression Analysis
- Plant tissue culture and regeneration
- Advances in Cucurbitaceae Research
- Identification and Quantification in Food
- Phytochemical compounds biological activities
North China University of Science and Technology
2017-2023
TED University
2022
Mainly due to their economic importance, genomes of 10 legumes, including soybean (Glycine max), wild peanut (Arachis duranensis and Arachis ipaensis), barrel medic (Medicago truncatula), have been sequenced. However, a family-level comparative genomics analysis has unavailable. With grape (Vitis vinifera) selected legume as outgroups, we managed perform hierarchical event-related alignment these deconvoluted layers homologous regions produced by ancestral polyploidizations or speciations....
Cucurbitaceae plants are of considerable biological and economic importance, genomes cucumber, watermelon, melon have been sequenced. However, a comparative genomics exploration their genome structures evolution has not available. Here, we aimed at performing hierarchical inference genomic homology resulted from recursive paleopolyploidizations. Unexpectedly, found that, shortly after core-eudicot-common hexaploidy, cucurbit-common tetraploidization (CCT) occurred, overlooked by previous...
Summary Coriander ( Coriandrum sativum L. 2 n = x 22), a plant from the Apiaceae family, also called cilantro or Chinese parsley, is globally important crop used as vegetable, spice, fragrance and traditional medicine. Here, we report high‐quality assembly analysis of its genome sequence, anchored to 11 chromosomes, with total length 2118.68 Mb N50 scaffold 160.99 Mb. We found that two whole‐genome duplication events, respectively, dated ~45–52 ~54–61 million years ago, were shared by family...
The genome of kiwifruit (Actinidia chinensis) was sequenced previously, the first in Actinidiaceae family. It shown to have been affected by polyploidization events, nature which has elusive. Here, we performed a reanalysis and found clear evidence 2 tetraploidization with one occurring ∼50-57 million years ago (Mya) other ∼18-20 Mya. Two subgenomes produced each event under balanced fractionation. Moreover, genes were revealed express way between duplicated copies chromosomes. Besides,...
Abstract Lycophytes and seed plants constitute the typical vascular plants. have been thought to no paleo-polyploidization although event is known be critical for fast expansion of Here, genomic analyses including homologous gene dot plot analysis detected multiple events, with one occurring approximately 13–15 million years ago (MYA) another about 125–142 MYA, during evolution genome Selaginella moellendorffii, a model lycophyte. In addition, comparative reconstructed ancestral genomes...
Abstract Background Duplicated gene pairs produced by ancient polyploidy maintain high sequence similarity over a long period of time and may result from illegitimate recombination between homeologous chromosomes. The genomes Asian cultivated rice Oryza sativa ssp. indica (XI) japonica (GJ) have recently been updated, providing new opportunities for investigating ongoing conversion events their impact on genome evolution. Results Using comparative genomics phylogenetic analyses, we evaluated...
Polyploidies produce a large number of duplicated regions and genes in genomes, which have long-term impact provide an important source innovation for inheritance. High similarity between paralogous chromosomes, often divided into subgenomes, or after genome repatterning, may permit illegitimate DNA recombination gene conversion. Here, based on colinearity, we aligned the (sub)genomes common wheat (Triticum aestivum, AABBDD genotype) its relatives, including Triticum urartu (AA), Aegilops...
Owing to their nutritional and commercial values, the genomes of several citrus plants have been sequenced, genome one close relative in Rutaceae family, atalantia (Atalantia buxifolia), has also sequenced. Here, we show a family-level comparative analysis genomes. By using grape as outgroup checking cross-genome gene collinearity, systematically performed hierarchical event-related alignment genomes, produced list defining homologous regions based on ancestral polyploidization or...
Gene conversion has an important effect on duplicate genes produced by polyploidization. Poplar (Populus trichocarpa) and willow (Salix brachista) are leading models excellent green plants in the Salicaceae. Although much attention been paid to evolution of duplicated poplar willow, role between duplicates generated from polyploidization remains poorly understood.Here, through genomic synteny analyses, we identified Salicaceae common tetraploidization (SCT) genomes. We estimated that at...
Chinese mahogany (Toona sinensis) is of considerable medical and economic importance, its genome has been deciphered. However, the process underlying polyploidy unclear, chromosomal evolutionary trajectory poorly understood. Here, by reanalysing T. sinensis genome, we found evidence a tetraploidization event (T. special tetraploidization, TST) that occurred approximately 15–17 million years ago (MYA) after core eudicot-common hexaploidization (ECH or gamma) event. We characterized synonymous...
Scientific knowledge about the ancestral genome of core eudicot plant kingdom can potentially have profound impacts on both basic and applied research, including evolution, genetics, genomics, ecology, agriculture, forestry, global climate. To investigate which conserves best eudicots common ancestor genome, we compared Arcto-Tertiary relict Nyssaceae 30 other families. The genomes Davidia involucrata (a known living fossil), Camptotheca acuminata Nyssa sinensis, one per existent genus...
The peanut (Arachis hypogaea L.) is the leading oil and food crop among legume family. Extensive duplicate gene pairs generated from recursive polyploidizations with high sequence similarity could result conversion, caused by illegitimate DNA recombination. Here, through synteny-based comparisons of two diploid three tetraploid genomes, we identified duplicated genes common tetraploidy (LCT) recent allo-tetraploidy (PRT) within genomes. In each genome (or subgenomes), inferred that 6.8-13.1%...
Abstract Seed plants and lycophytes constitute the extant vascular plants. As a model lycophyte, Selaginalla moellendroffii was deciphered its genome, previously proposed to have avoided polyploidies, as key events contributing origination fast expansion of seed Here, using gold-standard streamline recently deconvolute complex genomes, we reanalyzed S. genome. To our surprise, found clear evidence multiple paleo-polyploidies, with one being recent (~ 13-15 millions years ago or Mya), another...
Abstract Extensive sequence similarity between duplicated gene pairs produced by paleo-polyploidization may result from illegitimate recombination homologous chromosomes. The genomes of Asian cultivated rice Xian/ indica (XI) and Geng/ japonica (GJ) have recently been updated, providing new opportunities for investigating on-going conversion events. Using comparative genomics phylogenetic analyses, we evaluated rates genes polyploidization 100 million years ago (mya) in GJ XI. At least...
Eudicots account for ~75% of living angiosperms, containing important food and energy crops. Recently, high-quality genome sequences several eudicots including Aquilegia coerulea Nelumbo nucifera have become available, providing an opportunity to investigate the early evolutionary characteristics eudicots. We performed genomic hierarchical event-related alignments infer homology within between representative species The results provide strong evidence multiple independent polyploidization...
Coptis chinensis Franch., also named Chinese goldthread is a member of Ranunculaceae in the order Ranunculales and represents an important lineage early eudicots with traditional medicinal value. In our study, by using syntenic analysis combined phylogenomic C. four other representative genomes from basal core eudicots, we confirmed that WGD event was shared Aquilegia coerulea Papaver somniferum L. quickly occurred after diverged likely common tetraploidization (RCT). The synonymous...