Yao‐Cheng Lin
A5001426552- Tuberculosis Research and Epidemiology
- Genomics and Phylogenetic Studies
- Mycobacterium research and diagnosis
- Chromosomal and Genetic Variations
- CRISPR and Genetic Engineering
- Plant Molecular Biology Research
- Soil Moisture and Remote Sensing
- GNSS positioning and interference
- Plant-Microbe Interactions and Immunity
- Mycorrhizal Fungi and Plant Interactions
- Plant Disease Resistance and Genetics
- Plant Reproductive Biology
- Plant Pathogens and Fungal Diseases
- Yeasts and Rust Fungi Studies
- Legume Nitrogen Fixing Symbiosis
- Microbial Metabolic Engineering and Bioproduction
- Bioenergy crop production and management
- Synthetic Aperture Radar (SAR) Applications and Techniques
- Mosquito-borne diseases and control
- Plant tissue culture and regeneration
- Photosynthetic Processes and Mechanisms
- Plant Virus Research Studies
- Viral Infections and Vectors
- Molecular Biology Techniques and Applications
- Microbial bioremediation and biosurfactants
Nanjing University of Information Science and Technology
2025
Agricultural Biotechnology Research Center, Academia Sinica
2017-2024
Academia Sinica
2006-2024
Southern Taiwan Science Park
2018-2024
Fujian Agriculture and Forestry University
2023
Huaihua University
2021-2022
Harvard University
2021
Ghent University
2008-2020
Chinese Academy of Medical Sciences & Peking Union Medical College
2018-2020
Kunming Children's Hospital
2020
Conifers have dominated forests for more than 200 million years and are of huge ecological economic importance. Here we present the draft assembly 20-gigabase genome Norway spruce (Picea abies), first available any gymnosperm. The number well-supported genes (28,354) is similar to >100 times smaller Arabidopsis thaliana, there no evidence a recent whole-genome duplication in gymnosperm lineage. Instead, large size seems result from slow steady accumulation diverse set long-terminal repeat...
The fungus Laccaria bicolor — seen in its above-ground fruiting body presence as the 'bicoloured deceiver' mushroom lives symbiotically on roots of trees. Its genome has now been sequenced, and key features characterized by transcript profiling. study throws light mechanism mycorrhizal symbiosis, union soil fungi that is vital important to plant productivity. And it will be keen interest evolutionary biologists for revelations about plant–fungus interactions shaping genomes over time....
Rust fungi are some of the most devastating pathogens crop plants. They obligate biotrophs, which extract nutrients only from living plant tissues and cannot grow apart their hosts. Their lifestyle has slowed dissection molecular mechanisms underlying host invasion avoidance or suppression innate immunity. We sequenced 101-Mb genome Melampsora larici - populina , causal agent poplar leaf rust, 89-Mb Puccinia graminis f. sp. tritici wheat barley stem rust. then compared 16,399 predicted...
The HEK293 human cell lineage is widely used in biology and biotechnology. Here we use whole-genome resequencing of six 293 lines to study the dynamics this aneuploid genome response manipulations generate common derivatives, such as transformation stable clone generation (293T); suspension growth adaptation (293S); cytotoxic lectin selection (293SG). Remarkably, observe that copy number alteration detection could identify genomic region enabled survival under selective conditions (i.c....
Seagrasses colonized the sea on at least three independent occasions to form basis of one most productive and widespread coastal ecosystems planet. Here we report genome Zostera marina (L.), first, our knowledge, marine angiosperm be fully sequenced. This reveals unique insights into genomic losses gains involved in achieving structural physiological adaptations required for its lifestyle, arguably severe habitat shift ever accomplished by flowering plants. Key innovations that were lost...
Coccolithophores have influenced the global climate for over 200 million years. These marine phytoplankton can account 20 per cent of total carbon fixation in some systems. They form blooms that occupy hundreds thousands square kilometres and are distinguished by their elegantly sculpted calcium carbonate exoskeletons (coccoliths), rendering them visible from space. Although coccolithophores export organic matter calcite to sea floor, they also release CO2 calcification process. Hence, a...
Pichia pastoris has been a workhorse of protein production for decades. De Schutter et al. present its genomic sequence, which will allow development improved strains. The methylotrophic yeast is widely used the proteins and as model organism studying peroxisomal biogenesis methanol assimilation. P. strains capable human-type N-glycosylation are now available, increases utility this biopharmaceutical production. Despite biotechnological importance, relatively few genetic tools or engineered...
The Rice Annotation Project Database (RAP-DB) was created to provide the genome sequence assembly of International Genome Sequencing (IRGSP), manually curated annotation sequence, and other genomics information that could be useful for comprehensive understanding rice biology. Since last publication RAP-DB, IRGSP has been revised reassembled. In addition, a large number rice-expressed tags have released, functional resources produced worldwide. Thus, we thoroughly updated our by manual...
Constituting approximately 10% of flowering plant species, orchids (Orchidaceae) display unique flower morphologies, possess an extraordinary diversity in lifestyle, and have successfully colonized almost every habitat on Earth. Here we report the draft genome sequence Apostasia shenzhenica, a representative one two genera that form sister lineage to rest Orchidaceae, providing reference for inferring content structure most recent common ancestor all extant improving our understanding their...
Accessing and exploring large-scale genomics data sets remains a significant challenge to researchers without specialist bioinformatics training. We present the integrated PlantGenIE.org platform for exploration of Populus, conifer Arabidopsis data, which includes expression networks associated visualization tools. Standard features model organism database are provided, including genome browsers, gene list annotation, Blast homology searches information pages. Community annotation updating...
• Parasitism and saprotrophic wood decay are two fungal strategies fundamental for succession nutrient cycling in forest ecosystems. An opportunity to assess the trade-off between these is provided by pathogen decayer Heterobasidion annosum sensu lato. We report annotated genome sequence transcript profiling, as well quantitative trait loci mapping, of one member species complex: H. irregulare. Quantitative critical pathogenicity, rich transposable elements, orphan secreted genes, were...
We present here the annotation of complete genome rice Oryza sativa L. ssp. japonica cultivar Nipponbare. All functional annotations for proteins and non-protein-coding RNA (npRNA) candidates were manually curated. Functions identified or inferred in 19,969 (70%) proteins, 131 possible npRNAs (including 58 antisense transcripts) found. Almost 5000 annotated protein-coding genes found to be disrupted insertional mutant lines, which will accelerate future experimental validation annotations....
The obligate biotrophic rust fungus Melampsora larici-populina is the most devastating and widespread pathogen of poplars. Studies over recent years have identified various small secreted proteins (SSP) from plant filamentous pathogens highlighted their role as effectors in host-pathogen interactions. analysis M. genome sequence has revealed presence 1,184 SSP-encoding genes this fungus. In present study, expression evolutionary dynamics these SSP were investigated to pinpoint arsenal...
Summary Sophorolipids are promising biological derived surfactants or detergents which find application in household cleaning, personal care and cosmetics. They produced by specific yeast species among those, S tarmerella bombicola (former C andida ) is the most widely used studied one. Despite commercial interest sophorolipids, biosynthetic pathway of these secondary metabolites remained hitherto partially unsolved. In this manuscript we present sophorolipid gene cluster consisting five...
Significance We performed de novo, full-genome sequence analysis of two Populus species, North American quaking and Eurasian trembling aspen, that contain striking levels genetic variation. Our results showed positive negative selection broadly affects patterns genomic variation, but to varying degrees across coding noncoding regions. The strength rates divergence were strongly related differences in gene expression coexpression network connectivity. These highlight the importance both...
Wild tomatoes (Solanum peruvianum) are important genomic resources for tomato research and breeding. Development of a foreign DNA-free clustered regularly interspaced short palindromic repeat (CRISPR)-Cas delivery system has potential to mitigate public concern about genetically modified organisms. Here, we established CRISPR-Cas9 genome editing based on an optimized protoplast regeneration protocol S. peruvianum, resource introgression We generated mutants genes involved in small...
Plant genomes encode numerous small secretory peptides (SSPs) whose functions have yet to be explored. Based on structural features that characterize SSP families known take part in postembryonic development, this comparative genome analysis resulted the identification of genes coding for oligopeptides potentially involved cell-to-cell communication. Because annotation based short sequence homology is difficult, criteria de novo and aggregation conserved sequences were first benchmarked...
The recent sequencing of several gymnosperm genomes has greatly facilitated studying the evolution their genes and gene families. In this study, we examine evidence for expression-mediated selection in first two fully sequenced representatives plant clade (Picea abies Picea glauca). We use genome-wide estimates expression (>50,000 expressed genes) to study relationship between expression, codon bias, rates sequence divergence, protein length, duplication. found that is correlated with...
Abstract Searches of sequenced genomes diverse organisms revealed that the moss Physcomitrella patens is most primitive organism possessing oleosin genes. Microscopy examination oil bodies (OBs) were abundant in photosynthetic vegetative gametophyte and reproductive spore. Chromatography illustrated neutral lipids OBs isolated from to be largely steryl esters triacylglycerols, SDS-PAGE showed major proteins oleosins. Reverse transcription-PCR expression all three genes tissue specific. This...
Abstract Background Single nucleotide polymorphisms (SNPs) are the most abundant source of genetic variation among individuals a species. New genotyping technologies allow examining hundreds to thousands SNPs in single reaction for wide range applications such as diversity analysis, linkage mapping, fine QTL association studies, marker-assisted or genome-wide selection. In this paper, we evaluated potential highly-multiplexed SNP mapping maritime pine ( Pinus pinaster Ait.), main conifer...
Summary We used a systems genetics approach to elucidate the molecular mechanisms of responses maize grey leaf spot ( GLS ) disease caused by Cercospora zeina , threat production globally. Expression analysis earleaf samples in subtropical recombinant inbred line population CML 444 × SC Malawi) subjected field C. infection allowed detection 20 206 expression quantitative trait loci eQTL s). Four trans ‐ hotspots coincided with QTL s mapped same experiment. Co‐expression network identified...
Complex terrain is one of the main factors affecting process retrieving surface soil moisture using GNSS-R technology. This study evaluates impact complex on inversion Cyclone Global Navigation Satellite System (CYGNSS) L3 SSM products, with Soil Moisture Active Passive (SMAP) products as true value. The errors in CYGNSS are primarily attributed to med–high elevation and large relief. Compared Ocean Salinity (SMOS) Advanced Microwave Scanning Radiometer 2 (AMSR2) exhibits superior...