A5058654231- Genetic diversity and population structure
- Genetic Mapping and Diversity in Plants and Animals
- Soybean genetics and cultivation
- Plant Taxonomy and Phylogenetics
- Legume Nitrogen Fixing Symbiosis
- Plant Molecular Biology Research
- Genetic and Environmental Crop Studies
- Genetics and Plant Breeding
- Plant Disease Resistance and Genetics
- Rice Cultivation and Yield Improvement
- Ecology and Vegetation Dynamics Studies
- Plant and animal studies
- Evolution and Genetic Dynamics
- Agricultural pest management studies
- Chromosomal and Genetic Variations
- Genomics and Phylogenetic Studies
- Plant Gene Expression Analysis
- Plant Reproductive Biology
- Plant Virus Research Studies
- Photosynthetic Processes and Mechanisms
- Advances in Cucurbitaceae Research
- Plant Parasitism and Resistance
- Genomics, phytochemicals, and oxidative stress
- Wheat and Barley Genetics and Pathology
- Plant Pathogens and Resistance
National Taiwan University
2016-2024
Gregor Mendel Institute of Molecular Plant Biology
2015-2017
Austrian Academy of Sciences
2016-2017
Vienna Biocenter
2016-2017
Duke University
2010-2017
North Carolina Biotechnology Center
2014
Biodiversity Research Center, Academia Sinica
2009
Significance Improving the efficiency of root systems should result in crop varieties with better yields, requiring fewer chemical inputs, and that can grow harsher environments. Little is known about genetic factors condition growth because roots’ complex shapes, opacity soil, environmental influences. We designed a 3D imaging analysis platform used it to identify regions rice genome control several different aspects system growth. The results this study inform future efforts enhance...
Abstract Divergent natural selection promotes local adaptation and can lead to reproductive isolation of populations in contrasting environments; however, the genetic basis remains largely unresolved populations. Local might result from antagonistic pleiotropy, where alternate alleles are favoured distinct habitats, polymorphism is maintained by selection. Alternatively, under conditional neutrality some may be one environment but neutral at other locations. Antagonistic pleiotropy maintains...
Elucidating the factors influencing genetic differentiation is an important task in biology, and relative contribution from natural selection drift has long been debated. In this study, we used a regression-based approach to simultaneously estimate quantitative contributions of environmental adaptation isolation by distance on variation Boechera stricta, wild Arabidopsis. Patterns discrete continuous coexist within species. For between two major groups, environment larger than geography,...
Identification of the causal genes that control complex trait variation remains challenging, limiting our appreciation evolutionary processes influence polymorphisms in nature. We cloned a quantitative locus controls plant defensive chemistry, damage by insect herbivores, survival, and reproduction natural environments where this polymorphism evolved. These ecological effects are driven duplications BCMA (branched-chain methionine allocation) loci controlling two selectively favored amino...
Abstract Fixed chromosomal inversions can reduce gene flow and promote speciation in two ways: by suppressing recombination carrying locally favoured alleles at multiple loci. However, it is unknown whether mutations slowly accumulate on older or if young spread because they capture pre-existing adaptive quantitative trait loci (QTLs). By genetic mapping, chromosome painting genome sequencing, we have identified a major inversion controlling ecologically important traits Boechera stricta ....
Abstract Recent work has shown that Arabidopsis thaliana contains genetic groups originating from different ice age refugia, with one particular group comprising over 95% of the current worldwide population. In Europe, relicts other can be found in local populations along Mediterranean Sea. Here we provide evidence these ‘relicts’ occupied post-glacial Eurasia first and were later replaced by invading ‘non-relicts’, which expanded through east–west axis Eurasia, leaving traces admixture...
Summary Chromosomal inversions can provide windows onto the cytogenetic, molecular, evolutionary and demographic histories of a species. Here we investigate paracentric 1.17‐Mb inversion on chromosome 4 Arabidopsis thaliana with nucleotide precision its borders. The is created by Vandal transposon activity, splitting an F‐box relocating pericentric heterochromatin segment in juxtaposition euchromatin without affecting epigenetic landscape. Examination RegMap panel 1001 genomes revealed more...
Plants must precisely time flowering to capitalize on favorable conditions. Although we know a great deal about the genetic basis of phenology in model species under controlled conditions, architecture this ecologically important trait is poorly understood nonmodel organisms. Here, evaluated transition from vegetative growth Boechera stricta, perennial relative Arabidopsis thaliana. We examined QTLs using 7920 recombinant inbred individuals, across seven laboratory and field environments...
Fitness trade-offs across episodes of selection and environments influence life-history evolution adaptive population divergence. Documenting these remains challenging as can vary in magnitude direction through time space. Here, we evaluate fitness at the levels whole organism quantitative trait locus (QTL) a multiyear field study Boechera stricta (Brassicaceae), genetically tractable mustard native to Rocky Mountains. Reciprocal local adaptation was pronounced for viability, but not...
Summary Brachypodium distachyon is small annual grass that has been adopted as a model for the grasses. Its genome, high‐quality reference large germplasm collection, and selfing nature make it an excellent subject studies of natural variation. We sequenced six divergent lines to identify comprehensive set polymorphisms analyze their distribution concordance with gene expression. Multiple methods controls were utilized validate quality. mRNA ‐Seq experiments under control simulated...
Genomic variation is widespread, and both neutral selective processes can generate similar patterns in the genome. These are not mutually exclusive, so it difficult to infer evolutionary mechanisms that govern population species divergence. Boechera stricta a perennial relative of Arabidopsis thaliana native largely undisturbed habitats with two geographic ecologically divergent subspecies. Here, we delineate driving genetic diversity differentiation this species.Using whole-genome...
The genetic architecture of quantitative traits is determined by both Mendelian and polygenic factors, yet classic examples plant domestication focused on selective sweep newly mutated genes. Here we report the chromosome-level genome assembly genomic investigation a nonclassic example, bitter gourd ( Momordica charantia ), an important Asian vegetable medicinal family Cucurbitaceae. Population resequencing revealed divergence between wild South cultivars about 6,000 y ago, followed...
Interaction and genetic control for traits influencing the adaptation of rice crop to varying environments was studied in a mapping population derived from parents (Moroberekan Swarna) contrasting drought tolerance, yield potential, lodging resistance, dry direct seeding. A BC2F3-derived related these four trait groups phenotyped understand interactions among map align QTLs using composite interval (CIM). The study also aimed identify as multivariate least square (MLSIM) further traits....
Intraspecific variation in flower color is often attributed to pollinator-mediated selection, yet this mechanism cannot explain polymorphisms self-pollinating species. Indirect selection mediated via biotic and abiotic stresses could maintain these systems. The selfing forb, Boechera stricta, typically displays white flowers, but some individuals produce purple flowers. We quantified environmental correlates of natural populations. To disentangle plasticity from genotypic variation, we...
Leaf shape in plants plays important roles water use, canopy structure, and physiological tolerances to abiotic stresses; all traits for the future development sustainability of grapevine cultivation. Historically, researchers have used ampelography, study leaf grapevines, differentiate Vitis species cultivars based on finite attributes. However, ampelographic measurements limitations new methods quantifying are now available. We paired an analysis trait attributes with a seventeen-point...
Abstract Background Mungbean ( Vigna radiata (L.) R. Wilczek, or green gram) is important tropical and sub-tropical legume a rich source of dietary protein micronutrients. In this study we employ GWAS to examine the genetic basis variation in several traits mungbean, using mini-core collection established by World Vegetable Center, which includes 296 accessions that represent major market classes. This has been grown common field plot southern European part Russia 2018. Results We used 5041...
Frequent gene duplications in the genome incessantly supply new genetic materials for functional innovation presumably driven by positive Darwinian selection. This mechanism desaturase family has been proposed to be important triggering pheromonal diversification insects. With recent completion of a dozen Drosophila genomes, genome-wide perspective is possible. In this study, we first identified homologs genes 12 species and noted that while duplication events are relatively frequent, losses...
Network characteristics of biochemical pathways are believed to influence the rate evolutionary change in constituent enzymes. One characteristic that may affect heterogeneity is control amount product produced by a pathway or flux control. In particular, theoretical analyses suggest adaptive substitutions should be concentrated enzyme(s) exert greatest over flux. Although handful studies have found correlation between position and rate, these investigations not examined relationship Given...
Ecological factors may contribute to reproductive isolation if differential local adaptation causes immigrant or hybrid fitness reduction. Because results from the interaction between natural selection and adaptive traits, it is crucial investigate both understand ecological speciation. Previously, we used niche modelling identify water availability as an environmental correlate of incipient speciation two subspecies in Boechera stricta, a close relative Arabidopsis. Here, performed several...
While the domestication process has been investigated in many crops, detailed route of cultivation range expansion and factors governing this received relatively little attention. Here, using mungbean (
Plant diversity is shaped by trade-offs between traits related to competitive ability, propagule dispersal, and stress resistance. However, we still lack a clear understanding of how these influence species distribution population dynamics. In Arabidopsis thaliana, recent genetic analyses revealed group cosmopolitan genotypes that successfully recolonized Europe from its center after the last glaciation, excluding older (relict) lineages except for their north south margins. Here, tested...
Abstract A fundamental goal in evolutionary biology is to understand how various factors interact affect the population structure of diverse species, especially those ecological and/or agricultural importance such as wild soybean ( Glycine soja ). G. , from which domesticated soybeans max ) were derived, widely distributed throughout habitats East Asia (Russia, Japan, Korea, and China). Here, we utilize over 39,000 single nucleotide polymorphisms genotyped 99 ecotypes sampled across their...
With more sequenced genomes, our understanding of the demographic history Arabidopsis thaliana is rapidly expanding. However, no-one has yet compiled previous data to investigate patterns genetic variation across Eurasia. While sub-Saharan accessions have been reported be most divergent group, in nuclear genome we found from Yunnan, China genetically closest group. In chloroplast, several deeply diverged haplogroups exist only Eurasia, and African populations lower many that they share with...