A5012638162- Genomics and Phylogenetic Studies
- Plant Reproductive Biology
- Horticultural and Viticultural Research
- Banana Cultivation and Research
- Plant biochemistry and biosynthesis
- Chromosomal and Genetic Variations
- Genetic diversity and population structure
- Photosynthetic Processes and Mechanisms
- Plant Taxonomy and Phylogenetics
- Plant Gene Expression Analysis
- Rice Cultivation and Yield Improvement
- Pomegranate: compositions and health benefits
- Fermentation and Sensory Analysis
- Plant Diversity and Evolution
- Polyamine Metabolism and Applications
- Plant Pathogens and Fungal Diseases
- Legume Nitrogen Fixing Symbiosis
- Phytochemicals and Antioxidant Activities
- Plant pathogens and resistance mechanisms
- Plant nutrient uptake and metabolism
- Cocoa and Sweet Potato Agronomy
- Plant Molecular Biology Research
- Genetic Mapping and Diversity in Plants and Animals
- Microbial Natural Products and Biosynthesis
- Genetics and Plant Breeding
Pennsylvania State University
2022-2025
Fudan University
2020-2024
Institute of Botany
2024
State Key Laboratory of Genetic Engineering
2022
Southwest Forestry University
2013-2021
Nanjing Forestry University
2017-2019
Abstract Poaceae members shared a whole-genome duplication called rho. However, little is known about the evolutionary pattern of rho-derived duplicates among lineages and implications in adaptive evolution. Here we present phylogenomic/phylotranscriptomic analyses 363 grasses covering all 12 subfamilies report nine previously unknown duplications. Furthermore, duplications from single were mapped to multiple nodes on species phylogeny; was likely by woody bamboos with possible gene flow...
Pomegranate (Punica granatum L.) has an ancient cultivation history and become emerging profitable fruit crop due to its attractive features such as the bright red appearance high abundance of medicinally valuable ellagitannin-based compounds in peel aril. However, limited genomic resources have restricted further elucidation genetics evolution these interesting traits. Here, we report a 274-Mb high-quality draft pomegranate genome sequence, which covers approximately 81.5% estimated 336-Mb...
Abstract Asterids are one of the most successful angiosperm lineages, exhibiting extensive morphological diversity and including a number important crops. Despite their biological prominence value to humans, deep asterid phylogeny has not been fully resolved, evolutionary landscape underlying radiation remains unknown. To resolve phylogeny, we sequenced 213 transcriptomes/genomes combined them with other data sets, representing all accepted orders nearly families asterids. We show supported...
Adaptation to cool climates has occurred several times in different angiosperm groups. Among them, Pooideae, the largest grass subfamily with ∼3,900 species including wheat and barley, have successfully occupied many temperate regions play a prominent role ecosystems. To investigate possible factors contributing Pooideae adaptive evolution cooling climates, we performed phylogenetic reconstruction using five gene sets (with 1,234 nuclear genes their subsets) from 157 transcriptomes/genomes...
ABSTRACT Fruit functions in seed protection and dispersal belongs to many dry fleshy types, yet their evolutionary pattern remains unclear part due uncertainties the phylogenetic relationships among several orders families. Thus we used nuclear genes of 502 angiosperm species representing 231 families reconstruct a well supported phylogeny, with resolved for previously uncertain placements. Using this phylogeny as framework, molecular dating supports Triassic origin crown angiosperms,...
Abstract Tea, coffee, and cocoa are the three most popular nonalcoholic beverages in world have extremely high economic cultural value. The genomes of four tea plant varieties recently been sequenced, but there is some debate regarding characterization a whole-genome duplication (WGD) event plants. Whether WGD shared with other plants order Ericales how it contributed to evolution remained unanswered. Here we re-analyzed genome provided evidence that experienced only after core-eudicot...
Angiosperms are the largest group of land plants with ~375,000 species, which classified into ~416 families and ~13,000 genera; they exhibit tremendous morphological physiological diversities important members diverse terrestrial aquatic ecosystems. have attracted continuous efforts to describe understand these in a framework interrelationships—the phylogeny, provides strong support for angiosperm classifications relies on morphological, anatomical, increasing molecular markers. Today, great...
Abstract Motivation Whole-genome duplication events have long been discovered throughout the evolution of eukaryotes, contributing to genome complexity and biodiversity leaving traces in descending organisms. Therefore, an accurate rapid phylogenomic method is needed identify retained duplicated genes on various lineages across target taxonomy. Results Here, we present Tree2GD, integrated large-scale gene by automatically perform multiple procedures, including sequence alignment, recognition...
Maleae is one of the most widespread tribes Rosaceae and includes several important fruit crops ornamental plants. We used nuclear genes from 62 transcriptomes/genomes, including 26 newly generated transcriptomes, to reconstruct a well-supported phylogeny study evolution leaf morphology possible effect whole genome duplication (WGD). Our recovered 11 clades supported monophyly genera (except Malus, Sorbus, Pourthiaea) with at least two sampled species. A WGD was located recent common...
Fabaceae is a large family of angiosperms with high biodiversity that contains variety economically important crops and model plants for the study biological nitrogen fixation. Polyploidization events have been extensively studied in some plants, but occurrence new genes still concealed, owing to lack genomic information on certain species basal clade Fabaceae. Cercis chinensis (Cercidoideae) one such species; it diverged earliest from essential phylogenomic studies gene predictions To...
Abstract Unraveling evolutionary history and genomic basis of heterosis is fundamental for advancing rice productivity. We developed a genome-scale phylogeny Oryzeae by coalescing 39,984 gene trees. Our analysis supports parallel, independent origins nearly synchronous trajectories leading to the subsequent domestication indica japonica , evidenced molecular dating synonymous substitution rates syntenic domestication-associated genes. survey 1,383 duplications in ancestor O. sativa uncovers...
Abstract Pomegranate (Punica granatum L.) with an uncertain taxonomic status has ancient cultivation history, and become emerging fruit due to its attractive features such as the bright red appearance high abundance of medicinally valuable ellagitannin-based compounds in peel aril. However, absence genomic resources restricted further elucidating genetics evolution these interesting traits. Here we report a 274-Mb high-quality draft pomegranate genome sequence, which covers approximately...
The cytochrome P450 (CYP) monooxygenases present an enzyme superfamily contributing diverse biological functions and thus are crucial for survival in the plant. Although CYP members several plant species have been clarified, little is known about evolutionary relationships between within Malvids clade, that includes cabbage (Brassica rapa), cacao (Theobroma cacao), cotton (Gossypium arboreum), eucalypts (Eucalyptus grandis), orange (Citrus sinensis), papaya (Carica papaya), pomegranate...
An experiment was conducted from 2016 to 2017 assess the effect of kernel metabolism in development stages after organic mulching compared control. Organic significantly increased crop yields (higher 128% 2016, higher 60% 2017), oil content (the highest 27.6% than that control), and improved soil properties (SOC, SAN, AP, AK). In this study, pH, SOC, AN, AK 0-30 cm depth were measured. Results showed on pH not significant at harvesting stage. The greatest metabolic differences occurred...
Abstract Sulfite is an important food preservative that widely used in wine brewing, and the mechanism of sulfite metabolism some strains Saccharomyces cerevisiae has been reported. However, there still something unclear metabolism, because are different mechanisms strains. To study transcriptional network gene expression S. strains, SSU1 , FZF1 genes were identified from genome sequences yeast profile was mined cDNA microarray. The fifth zinc finger protein found to be another vital region...