Maojun Wang

Maojun Wang
Huazhong Agricultural University | HZAU · National Key Laboratory of Crop Genetic Improvement

PhD

About

90
Publications
19,491
Reads
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2,400
Citations
Citations since 2017
57 Research Items
2307 Citations
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20172018201920202021202220230100200300400500600
20172018201920202021202220230100200300400500600
20172018201920202021202220230100200300400500600
Introduction
Our lab uses the cotton genus as a research model to investigate the regulatory mechanism of single-cell differentiation and development in plants, committed to improving fiber quality in cotton. We also have interests in the intertwining relationship between genome size evolution and reorganization of higher-order chromatin structure in plants. Our research is extended to address some fundamental scientific questions in polyploid plants.
Additional affiliations
July 2017 - present
Huazhong Agricultural University
Position
  • PhD

Publications

Publications (90)
Article
Full-text available
Comparative population genomics offers an excellent opportunity for unraveling the genetic history of crop domestication. Upland cotton (Gossypium hirsutum) has long been an important economic crop, but a genome-wide and evolutionary understanding of the effects of human selection is lacking. Here, we describe a variation map for 352 wild and domes...
Article
Full-text available
Allotetraploid cotton species (Gossypium hirsutum and Gossypium barbadense) have long been cultivated worldwide for natural renewable textile fibers. The draft genome sequences of both species are available but they are highly fragmented and incomplete1–4. Here we report referencegrade genome assemblies and annotations for G. hirsutum accession Tex...
Article
Full-text available
Background Millennia of directional human selection has reshaped the genomic architecture of cultivated cotton relative to wild counterparts, but we have limited understanding of the selective retention and fractionation of genomic components. Results We construct a comprehensive genomic variome based on 1961 cottons and identify 456 Mb and 357 Mb...
Article
Full-text available
Background Despite remarkable advances in our knowledge of epigenetically mediated transcriptional programming of cell differentiation in plants, little is known about chromatin topology and its functional implications in this process. Results To interrogate its significance, we establish the dynamic three-dimensional (3D) genome architecture of t...
Article
Full-text available
Phenotypic diversity and evolutionary innovation ultimately trace to variation in genomic sequence and rewiring of regulatory networks. Here, we constructed a pan-genome of the Gossypium genus using ten representative diploid genomes. We document the genomic evolutionary history and the impact of lineage-specific transposon amplification on differe...
Article
Full-text available
Introgression of superior fiber traits from Pima cotton (Gossypium barbadense, GB) into high yield Upland cotton (G. hirsutum) has been a breeding objective for many years in a few breeding programs in the world. However, progress has been very slow due to introgression barriers resulting from whole genome hybridization between the two species. To...
Article
Full-text available
Fruit branch angle (FBA), a pivotal component of cotton plant architecture, is vital for field and mechanical harvesting. However, the molecular mechanism of FBA formation is poorly understood in cotton. To uncover the genetic basis for FBA formation in cotton, we performed a genome-wide association study (GWAS) of 163 cotton accessions with re-seq...
Article
Full-text available
Cotton fiber is a unicellular seed trichome, and lint fiber initials per seed as a factor determines fiber yield. However, the mechanisms controlling fiber initiation from ovule epidermis are not understood well enough. Here, with single‐cell RNA sequencing (scRNA‐seq), a total of 14,535 cells were identified from cotton ovule outer integument of X...
Article
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Saccharum spontaneum is a founding Saccharum species and exhibits wide variation in ploidy levels. We have assembled a high-quality autopolyploid genome of S. spontaneum Np-X (2n = 4x = 40) into 40 pseudochromosomes across 10 homologous groups, that better elucidates recent chromosome reduction and polyploidization that occurred circa 1.5 million y...
Article
Polyploidization has long been recognized as a driver for the evolutionary formation of superior plant traits coupled with gene expression novelty. However, knowledge of the effect of regulatory variation on expression changes following polyploidization remains limited. In this study, we characterized transcriptional regulatory divergence by compar...
Preprint
Weeds have continually interrupted crop plants since their domestication, leading to a greater yield loss compared to diseases and pests that necessitated to practice weed control measures. The control of weeds is crucial to ensure the availability of sufficient food for rapidly increasing human population. Currently, the chemical (herbicides) weed...
Article
During the domestication and improvement processes, interspecific introgression from Gossypium hirsutum has reorganized the genomic architecture of Gossypium barbadense; however, the introgression details and the trait‐related genetic loci remain largely unknown. Here, we perform a genome‐wide population analysis and genetically recategorize 365 G....
Article
Full-text available
Cotton ( Gossypium hirsutum L.) fiber is the most important resource of natural and renewable fiber for the textile industry. However, the understanding of genetic components and their genome-wide interactions controlling fiber quality remains fragmentary. Here, we sequenced a multiple-parent advanced-generation inter-cross (MAGIC) population, cons...
Article
Structural variations (SVs) are recognized to have an important role in transcriptional regulation, especially in the light of resolved 3D genome structure using high-throughput chromosome conformation capture (Hi-C) technology in mammals. However, the effect of SVs on 3D genome organization in plants remains rarely understood. In this study, we id...
Article
Full-text available
Background Casein kinase I (CKI) is a kind of serine/threonine protein kinase highly conserved in plants and animals. Although molecular function of individual member of CKI family has been investigated in Arabidopsis, little is known about their evolution and functions in Gossypium. Results In this study, five cotton species were applied to study...
Article
Full-text available
Transposable element (TE) amplification has been recognized as a driving force mediating genome size expansion and evolution, but the consequences for shaping 3D genomic architecture remains largely unknown in plants. Here, we report reference-grade genome assemblies for three species of cotton ranging three-fold in genome size, namely Gossypium ro...
Article
The high-quality reference-grade genome for Gossupium tomentosum can greatly promote the progress in biological research and introgression breeding for the mainly cultivated species, G. hirsutum. Here, we report a high-quality genome assembly for G. tomentosum by integrating PacBio and Hi-C technologies. Comparative genomic analysis revealed a larg...
Article
Full-text available
Background Heterosis has been exploited for decades in different crops due to resulting in dramatic increases in yield, but relatively little molecular evidence on this topic was reported in cotton. Results The elite cotton hybrid variety ‘Huaza Mian H318’ (H318) and its parental lines were used to explore the source of its yield heterosis. A four...
Article
Full-text available
Global warming has reduced the productivity of many field‐grown crops due to effects on male sterility. The genetic regulation of high temperature (HT) response in the major crop cotton is poorly understood. We determined the functionality and transcriptomes of anther of 218 cotton accessions grown under HT stress. By analyzing transcriptome diverg...
Article
Full-text available
Eukaryotic genomes are highly folded for packing into higher-order chromatin structures in the nucleus. With the emergence of state-of-the-art chromosome conformation capture methods and microscopic imaging techniques, the spatial organization of chromatin and its functional implications have been interrogated. Our knowledge of three-dimensional (3...
Preprint
Full-text available
Transposable element (TE) amplification has been recognized as a driving force mediating genome size expansion and evolution, but the effect on shaping of 3D genomic architecture remains largely unknown in plants. Here, we report three reference-grade cotton genome assemblies of Gossypium rotundifolium (K 2 ), G. arboreum (A 2 ) and G. raimondii (D...
Preprint
Full-text available
Background: Casein kinase I (CKI) is a kind of serine/threonine protein kinase highly conserved in plants and animals. Although molecular function of individual member of CKI family has been investigated in Arabidopsis, little is known about their origin and evolutionary history in the plant kingdom. Results: In this study, seven representative pla...
Article
Full-text available
Drought resistance (DR) is a complex trait that is regulated by a variety of genes. Without comprehensive profiling of DR‐related traits, the knowledge of the genetic architecture for DR in cotton remains limited. Thus, there is a need to bridge the gap between genomics and phenomics. In this study, an automatic phenotyping platform (APP) was syste...
Preprint
Full-text available
Background Heterosis has been exploited for decades in different crops for the dramatic increase in yield but less documented molecular evidences reported in cotton. Results An elite cotton hybrid variety ‘Huaza Mian H318’ (H318) and its parental lines was used to explore the source of its yield heterosis. A four years’ investigation of yield rela...
Preprint
Full-text available
Background: Heterosis has been exploited for decades in different crops due to resulting in dramatic increases in yield, but relatively little molecular evidence on this topic reported in cotton. Results: The elite cotton hybrid variety ‘Huaza Mian H318’ ( H318) and its parental lines were used to explore the source of its yield heterosis. A four-y...
Article
Full-text available
The analysis of association between genotypic markers and phenotypic traits allows identification of quantitative trait loci (QTLs), which can be applied through marker-assisted selection in breeding programs to improve the quality of crops. However, success in these applications depends primarily on the stability and dominance of the QTL. We previ...
Article
Full-text available
The cotton fiber serves as a valuable experimental system to study cell wall synthesis in plants, but our understanding of the genetic regulation of this process during fiber development remains limited. We performed a genome-wide association study (GWAS) and identified 28 genetic loci associated with fiber quality in allotetraploid cotton. To inve...
Article
Full-text available
Black pepper (Piper nigrum), dubbed the ‘King of Spices’ and ‘Black Gold’, is one of the most widely used spices. Here, we present its reference genome assembly by integrating PacBio, 10x Chromium, BioNano DLS optical mapping, and Hi-C mapping technologies. The 761.2 Mb sequences (45 scaffolds with an N50 of 29.8 Mb) are assembled into 26 pseudochr...
Preprint
Full-text available
Although the regulatory function of miRNAs and their targets have been characterized in model plants, a possible underlying role in the cotton response to herbivore infestation has not been determined. To investigate this, we performed small RNA and degradome sequencing between resistant and susceptible cotton cultivar following infestation with th...
Article
Full-text available
Background DNA methylation is a crucial epigenetic modification, which is involved in many biological processes, including gene expression regulation, embryonic development, cell differentiation and genomic imprinting etc. And it also involves many key regulatory genes in eukaryotes. By tracing the evolutionary history of methylation-related genes,...
Article
Recombination breaks up ancestral linkage disequilibrium, creates combinations of alleles, affects the efficiency of natural selection, and plays a major role in crop domestication and improvement. However, there is little knowledge regarding variation in the population‐scaled recombination rate in cotton. We constructed recombination maps and char...
Data
Figure S1 CG, CHG and CHH methylation patterns of TEGs and PCGs. Figure S2 The numbers of hypomethylated (Hypo) and hypermethylated (Hyper) context‐specific differentially methylated regions (DMRs) in regenerated plants. Figure S3 A circos plot of the TE density, gene density, CG‐differentially methylated region (DMR), CHG‐DMR, and CHH‐DMR in com...
Data
Table S1 Summary of BS‐Seq data in G. hirsutum. Table S2 Identification of methylated cytosines in each of the seven samples. Table S3 Summary of small RNA‐Seq data. Table S4 Summary of H3K9me2 data. Table S5 Summary of the full names of DNA methylation pathway related genes. Table S6 Summary of RNA‐Seq data. Table S7 Summary of RNA‐Seq data...
Data
Data S2 The hyper‐DMRs (promoter 2‐kb) in ECs and corresponding gene expression from NEC to EC.
Data
Data S1 The expression and mCHH methylation encoding RdDM pathway genes.
Data
Data S3 The expression and mCHH methylation hormone‐related genes somatic embryogenesis process.
Article
Full-text available
Plant regeneration via somatic embryogenesis is time‐consuming and highly genotype‐dependent. The plant somatic embryogenesis process provokes many epigenetics changes including DNA methylation and histone modification. Recently, an elite cotton Jin668, with an extremely high regeneration ability, was developed from its maternal inbred Y668 cultiva...
Article
Full-text available
High temperature (HT) stress induces male sterility, leading to yield reductions in crops. DNA methylation regulates a range of processes involved in plant development and stress responses, but its role in male sterility under HT remains unknown. Here, we investigated DNA methylation levels in cotton (Gossypium hirsutum) anthers under HT and normal...
Data
Table S3 List of PCR primers used in this study.
Data
Table S2 Verticilium wilt resistance loci in cotton modified from references.
Data
Figure S1 Summarized data for sequenced samples. Figure S2 Summary of reported genetic mapping results about Verticillium wilt resistance loci. Figure S3 Distribution of pearson correlation coefficient for putative paired and random pairs. Figure S4 The global expression profiles of lncRNAs in G. hirsutum. Figure S5 Distribution of transposon e...
Data
Table S1 Distribution of identified lncRNA number in two types of stranded libraries.
Data
Table S2 The total novel transcripts of each sample.
Data
Table S1 Total reads of each sample.
Data
Table S4 Antisense lncRNA‐mRNA pairs were identified.
Data
Figure S1 Lint percentage of three representative lines. Figure S2 Protein‐coding genes interacted with lncRNAs, and the interaction model of pcRNAs and lncRNAs. Figure S3 The model of miRNAs, lncRNAs, circRNAs and protein‐coding genes in regulating fibre initiation.
Data
Table S3 All predicted circRNAs expression level.
Data
Table S5 Primers used in the research.
Article
Full-text available
The formation of polyploids significantly increases the complexity of transcriptional regulation, which is expected to be reflected in sophisticated higher-order chromatin structures. However, knowledge of three-dimensional (3D) genome structure and its dynamics during polyploidization remains poor. Here, we characterize 3D genome architectures for...
Article
Full-text available
Long non-coding RNAs (lncRNAs) have several known functions in plant development, but their possible roles in responding to plant disease remain largely unresolved. In this study, we described a comprehensive disease-responding lncRNA profiles in defense against a cotton fungal disease Verticillium dahliae. We further revealed the conserved and spe...
Article
Full-text available
Calcium (Ca2+) is necessary for fiber cell development in cotton (Gossypium hirsutum), both as a cell wall structural component and for environmental signaling responses. It is also known that potassium (K+) plays a critical role in cotton fiber cell elongation. However, it is unclear whether Ca2+ integrates its activities with K+ to regulate fiber...
Article
Full-text available
Cotton fiber is an important natural fiber for the textile industry. The number of fiber initials determines the lint percentage, which is an important factor for cotton fiber yield. Although fiber development has been described by transcriptomic analysis, the mechanism by which the long non-coding RNA manipulate the initiation of lint and fuzz fib...
Article
Full-text available
Alternative splicing (AS) is a crucial regulatory mechanism in eukaryotes, which acts by greatly increasing transcriptome diversity. The extent and complexity of AS has been revealed in model plants using high-throughput next-generation sequencing. However, this technique is less effective in accurately identifying transcript isoforms in polyploid...
Article
Full-text available
Background: Since upland cotton was introduced into China during the 1920s-1950s, hundreds of inbreed cultivars have been developed. To explore the molecular diversity, population structure and elite alleles, 503 inbred cultivars developed in China and some foreign cultivars from the United States and the Soviet Union were collected and analyzed b...
Article
Full-text available
High-quality cotton fibre equates to a more comfortable textile. Fibre length is an important index of fibre quality. Hydrogen peroxide (H2O2) acts as a signalling molecule in the regulation of fibre elongation. Results fromin vitroovule culture suggest that the alteration of fibre cell H2O2levels affects fibre development. Ascorbate peroxidase (AP...
Article
Full-text available
Epigenetic modifications are highlighted for their great importance in regulating plant development, but their function associated with single-cell differentiation remains undetermined. Here, we used the cotton fibre, which is the epidermal hair on the cotton ovule, as a model to investigate the regulatory role of DNA methylation in cell differenti...
Article
Full-text available
Gossypium hirsutum contributes the most production of cotton fibre, but G. barbadense is valued for its better comprehensive resistance and superior fibre properties. However, the allotetraploid genome of G. barbadense has not been comprehensively analysed. Here we present a high-quality assembly of the 2.57 gigabase genome of G. barbadense, includ...