A5070441058- Genetic Mapping and Diversity in Plants and Animals
- Genetics and Plant Breeding
- Genetic and phenotypic traits in livestock
- Genetic diversity and population structure
- Chromosomal and Genetic Variations
- Wheat and Barley Genetics and Pathology
- Bioinformatics and Genomic Networks
- Genomics and Phylogenetic Studies
- Plant nutrient uptake and metabolism
- CRISPR and Genetic Engineering
- Gene expression and cancer classification
- Plant Molecular Biology Research
- Plant Gene Expression Analysis
- Banana Cultivation and Research
- Virus-based gene therapy research
- RNA and protein synthesis mechanisms
- Archaeology and ancient environmental studies
Huazhong Agricultural University
2015-2023
Shanghai Zhangjiang Laboratory
2022
Maize (
The origins of maize were the topic vigorous debate for nearly a century, but neither current genetic model nor earlier archaeological models account totality available data, and recent work has highlighted potential contribution wild relative, Zea mays ssp. mexicana . Our population analysis reveals that origin modern can be traced to an admixture between ancient in highlands Mexico some 4000 years after domestication began. We show variation is key component diversity, both at individual...
Summary Improvement of grain yield is an essential long‐term goal maize ( Zea mays ) breeding to meet continual and increasing food demands worldwide, but the genetic basis remains unclear. We used 10 different recombination inbred line RIL populations genotyped with high‐density markers phenotyped in multiple environments dissect architecture ear traits. Three methods were map quantitative trait loci QTL s) affecting found 17–34 minor‐ or moderate‐effect that influence traits, little...
Maize (Zea mays) is a major staple crop. kernel size and weight are important contributors to its yield. Here, we measured length, width, thickness, hundred weight, test in 10 recombinant inbred line populations dissected their genetic architecture using three statistical models. In total, 729 quantitative trait loci (QTLs) were identified, many of which identified all models, including 22 QTLs that each can explain more than 10% phenotypic variation. To provide candidate genes for these...
Phenotypic plasticity is the ability of a given genotype to produce multiple phenotypes in response changing environmental conditions. Understanding genetic basis phenotypic and establishing predictive model highly relevant future agriculture under climate. Here we report findings on for 23 complex traits using diverse maize population planted at five sites with distinct We found that latitude-related factors were main drivers across-site variation flowering time but not plant architecture...
Amino acids are both constituents of proteins, providing the essential nutrition for humans and animals, signalling molecules regulating growth development plants. Most cultivars maize deficient in amino such as lysine tryptophan. Here, we measured levels 17 different total acids, created 48 derived traits mature kernels from a diversity inbred collection three recombinant line (RIL) populations. By GWAS, 247 281 significant loci were identified two environments, 5.1 4.4 each trait,...
Abstract Gene expression variation largely contributes to phenotypic diversity and constructing pan-transcriptome is considered necessary for species with complex genomes. However, the regulation mechanisms functional consequences of unexplored systematically. By analyzing RNA-seq data from 368 maize diverse inbred lines, we identified almost one-third nuclear genes under presence absence variation, which tend play regulatory roles are likely regulated by distant eQTLs. The ePAV was directly...
Flowering time is a trait vital to the adaptation of flowering plants different environments. Here, we report that CCT domain genes play an important role in maize (Zea mays L.). Among 53 family identified maize, 28 were located quantitative locus regions and 15 significantly associated with time, based on candidate-gene association mapping analysis. Furthermore, gene named ZmCOL3 was shown be repressor flowering. Overexpressing delayed by approximately 4 d, either long-day or short-day...
Identifying transcriptional cis-regulatory elements (CREs) and understanding their role in gene expression are essential for the precise manipulation of associated phenotypes. This knowledge is fundamental advancing genetic engineering improving crop traits. We here demonstrate that CREs can be accurately predicted utilized to precisely regulate beyond range natural variation. firstly build two sequence-to-expression deep learning models respectively identify distal proximal by combining...
Abstract Despite its global importance as a crop with broad economic, dietary, and cultural importance, the origins of maize closest wild relatives remained topic vigorous debate for nearly century. Molecular analyses ultimately concluded that was domesticated once from common ancestor extant relative, lowland grass Zea mays ssp. parviglumis . But neither current genetic model nor earlier models based on archaeological data account totality available data, recent work has highlighted...
ABSTRACT Variation in gene expression contributes to the diversity of phenotype. The construction pan-transcriptome is especially necessary for species with complex genomes, such as maize. However, knowledge regulation mechanisms and functional consequences limited. In this study, we identified 13,382 nuclear presence absence variation candidates (ePAVs, expressed 5%~95% lines; based on reference genome) by re-analyzing RNA sequencing data from kernels (15 days after pollination) 368 maize...
Abstract Maize is a globally valuable commodity and one of the most extensively studied genetic model organisms. However, we know surprisingly little about extent potential utility variation found in wild relatives maize. Here, characterize high-density genomic map from ~700 genomes encompassing maize all taxa genus Zea , identifying over 65 million single nucleotide polymorphisms (SNPs), 8 Insertion/Deletion (InDel) polymorphisms, thousand novel inversions. The reveals evidence selection...
The temperate-tropical division of early maize germplasm to different agricultural environments was arguably the greatest adaptation process associated with success and near ubiquitous importance global production. Deciphering this history is challenging, but new insight has been gained from genomic, transcriptomic phenotypic variation collected 368 diverse temperate tropical inbred lines in study. This first attempt systematically explore mechanisms process. Our results indicated that...
Abstract Phenotypic plasticity is the property of a given genotype to produce multiple phenotypes in response changing environmental conditions. Understanding genetic basis phenotypic and establishing predictive model highly relevant for future agriculture under climate. Here, we report findings on 23 complex traits using maize diverse population, planted at five sites with distinct conditions genotyped ~ 6.60 million SNPs. We found that altitude-related factors were main drivers across site...
Abstract Interactomes are powerful tools for encoding and decoding complex life systems. Here, we generated a maize interactome map that integrates genomic interactions, transcriptomic co-expression networks, translatomic protein–protein interactions throughout the lifecycle. This map, containing over 9 million in more than 5,000 functional modules, reveals extensive divergence duplicate genes progressive increase regulatory between two subgenomes during flow of genetic information. network...
Abstract Maize is a globally valuable commodity and one of the most extensively studied genetic model organisms. However, we know surprisingly little about extent potential utility variation found in wild relatives maize. Here, characterize high-density genomic map from 744 genomes encompassing maize all taxa genus Zea , identifying over 70 million single nucleotide polymorphisms (SNPs) nearly 9 Insertion/Deletion (InDel) polymorphisms. The reveals evidence selection within displaying novel...
Abstract Flowering time is a vital trait to control the adaptation of flowering plants different environments. CCT-domain containing genes are considered play an important role in flowering. Among 53 maize CCT family genes, 28 them were located QTL regions and 16 significant associated with based on candidate gene-based association mapping analysis. Furthermore, gene named as ZmCOL3 was validated be repressor upstream ZmCCT which one key regulating The overexpressed could delay about 4 days...
Abstract Interactomes are powerful tools for encoding and decoding complex life systems. Here, we generated a maize interactome map that integrates genomic interactions, transcriptomic co-expression networks, translatomic protein–protein interactions throughout the lifecycle. This map, containing over 9 million in more than 5,000 functional modules, reveals extensive divergence duplicate genes progressive increase regulatory between two subgenomes during flow of genetic information. network...