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Glycerol solutions of highly concentrated biomineral counter-ions towards water-responsive mineralization: Demonstration on bacterial cellulose and its application in hard tissue repair

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Nano Research 2024年第3期17卷 2154-2163页

作者： Yunfei Zhao Xiaohao Liu Zhi Zhou chaobo Feng Nan Luo Jiajun Yan Shuo Tan Yang Lu Feng Chen Bing-Qiang Lu Shisheng He Department of Orthopedic Spinal Pain Research InstituteShanghai Tenth People’s HospitalSchool of MedicineTongji UniversityShanghai 200072China Department of Preventive Dentistry Shanghai Ninth People’s HospitalShanghai Jiao Tong University School of MedicineCollege of StomatologyShanghai Jiao Tong UniversityNational Center for StomatologyNational Clinical Research Center for Oral DiseasesShanghai Key Laboratory of StomatologyShanghai Research Institute of StomatologyShanghai 200011China

Mineralization has found widespread use in the fabrication of composite biomaterials for hard tissue regeneration.The current mineralization processes are mainly carried out in neutral aqueous solutions of biomineral counter-ions(a pair of cation and anion that form the corresponding minerals at certain conditions),which are stable only at very low concentrations.This typically results in inefficient mineralization and weak control over biomineral formation.Here,we find that,in the organic solvent glycerol,a variety of biomineral counter-ions(e.g.,Ca/PO_(4),Ca/CO_(3),Ca/SO_(4),Mg/PO_(4),or Fe/OH)corresponding to distinct biominerals at significantly high concentrations(up to hundreds-fold greater than those of simulated body fluid(SBF))are able to form translucent and stable solutions(mineralizing solution of highly concentrated counter-ions(MSCIs)),and mineralization can be triggered upon them with external solvents(e.g.,water or ethanol).Furthermore,with pristine bacterial cellulose(BC)membrane as a model,we demonstrate an effective and controllable mineralization performance of MSCIs on organic substrates.This approach not only forms the homogeneous biominerals on the BC fibers and in the interspaces,but also provides regulations over mineralization rate,mineral content,phase,and dopants.The resulting mineralized BC membranes(MBCs)exhibit high cytocompatibility and favor the proliferation of rat bone marrow mesenchymal stem cells(rBMSC).Following this,we prepare a mineralized bone suture(MBS)from MBC for non-weight bearing bone fixation,which then is tested on a rabbit median sternotomy model.It shows firm fixation of the rabbit sternum without causing discernible toxicity or inflammatory response.This study,by extending the mineralization to the organic solution system of highly concentrated counter-ions,develops a promising strategy to design and build targeted mineral-based composites.

关键词： biomineralization organic solvent bacterial cellulose(BC) hard tissue repair

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BnaOmics:A comprehensive platform combining pan-genome and multi-omics data from Brassica napus

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Plant Communications 2023年第5期4卷 86-89页

作者： Xiaobo Cui Ming Hu Shengli Yao Yuanyuan Zhang Minqiang Tang Lijiang Liu Xiaohui Cheng chaobo tong Shengyi Liu Key Laboratory of Biology and Genetic Improvement of Oil Crops The Ministry of Agriculture and Rural AffairsOil Crops Research InstituteChinese Academy of Agricultural SciencesWuhan 430062China School of Life Science and Technology Wuhan Polytechnic UniversityWuhan 430023China Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants(Ministry of Education) College of ForestryHainan UniversityHaikou 570228China

Dear Editor,Brassica napus was originally formed7500 years ago by the interspecific hybridization of B.rapa and B.oleracea(Chalhoub et al.,2014).It accounts for approximately 13%–16%of global vegetable oil production and provides an excellent model for polyploid genomics and evolutionary research in plants.Currently,the Brassicaceae Database(BRAD V3.0;Chen et al.,2022),Genoscope(https://www.***.cns.fr/brassicanapus/),and Ensembl Plants(https://***)are used for genomic research pertaining to B.napus.However,they only provide genome browsers for research into the B.napus cultivar Darmorbzh.The B.napus pan-genome information resource(BnPIR)also provides eight B.napus reference genomes(Song et al.,2021),gene information,and resequencing data.The B.napus variation information resource(BnVIR)provides information on genetic variation,including single-nucleotide polymorphisms(SNPs),insertions or deletions(INDELs),and structural variations(SVs)(Yang et al.,2022).

关键词： comprehensive insertion resource

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Mapping loci controlling fatty acid profiles, oil and protein content by genome-wide association study in Brassica napus

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The Crop Journal 2019年第2期7卷 217-226页

作者： Minqiang Tang Yuanyuan Zhang Yueying Liu chaobo tong Xiaohui Cheng Wei Zhu Zaiyun Li Junyan Huang Shengyi Liu The Key Laboratory of Biology and Genetic Improvement of Oil Crops The Ministry of Agriculture Oil Crops Research Institute of Chinese Academy of Agricultural Sciences National Key Laboratory of Crop Genetic Improvement National Center of Crop Molecular Breeding Technology National Center of Oil Crop Improvement (Wuhan) Huazhong Agricultural University Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources Faculty of Life Science Hubei University

Optimizing the profile and quantity of fatty acids in rapeseed(Brassica napus L.) is critical for maximizing the value of edible oil and biodiesel. However, selection of these complex seed quality traits is difficult before haplotypes controlling their contents are identified. To efficiently identify genetic loci influencing these traits and underlying candidate genes and networks, we performed a genome-wide association study(GWAS) of eight seed quality traits(oil and protein content, palmitic, stearic, oleic, linoleic, eicosenoic and erucic acids content). The GWAS population comprised 370 diverse accessions, which were phenotyped in five environments and genotyped using 60K SNP arrays. The results indicated that oil and protein contents generally showed negative correlations, while fatty acid contents showed positive or negative correlations,with palmitic and erucic acid contents directly affecting oil content. Seven SNPs on five chromosomes were associated with both seed oil and protein content, and five genes orthologous to genes in Arabidopsis thaliana were predicted as candidates. From resequencing data, besides known haplotypes in Bna A.FAE1.a and Bna C.FAE1.a, three accessions harboring a new haplotype conferring moderate erucic acid content were identified. Interestingly, in a haplotype block, one haplotype was associated with high palmitic acid content and low oil content, while the others showed the reverse effects. This finding was consistent with a negative correlation between palmitic acid and oil contents, suggesting historical selection for high oil content. The identification by this study of genetic variation and complex correlations of eight seed quality traits may be beneficial for crop selection strategies.

关键词： Brassica napus Oil content Fatty acid profiles Association study Haplotypes

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Syntenic quantitative trait loci and genomic divergence for Sclerotinia resistance and ?owering time in Brassica napus

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Journal of Integrative Plant Biology 2019年第1期61卷 75-88页

作者： Fengqi Zhang Junyan Huang Minqiang Tang Xiaohui Cheng Yueying Liu chaobo tong Jingyin Yu Tehrim Sadia Caihua Dong Lingyan Liu Baojun Tang Jianguo Chen Shengyi Liu Key Laboratory of Biology and Genetic Improvement of Oil Crops the Ministry of AgricultureOil Crops Research Institute of CAAS Cereal Crops Research Institute Henan Academy of Agricultural Sciences Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources Faculty of Life ScienceHubei University

Oilseed rape(Brassica napus) is an allotetraploid with two subgenomes descended from a common ancestor. Accordingly, its genome contains syntenic regions with many duplicate genes, some of which may have retained their original functions, whereas others may have diverged. Here, we mapped quantitative trait loci(QTL) for stem rot resistance(SRR), a disease caused by the fungus Sclerotinia sclerotiorum, and flowering time(FT) in a recombinant inbred line population. The population was genotyped using B.napus 60 K single nucleotide polymorphism arrays and phenotyped in six(FT) and nine(SSR) experimental conditions or environments. In total, we detected 30 SRR QTL and 22 FT QTL and show that some of the major QTL associated with these two traits were co-localized,suggesting a genetic linkage between them. Two SRR QTL on chromosome A2 and two on chromosome C2 were shown to be syntenic, suggesting the functional conservation of these regions. We used the syntenic properties of the genomic regions to exclude genes for selection candidates responsible for QTL-associated traits. For example, 152 of the 185 genes could be excluded from a syntenic A2–C2 region. These findings will help to elucidate polyploid genomics in future studies, in addition to providing useful information for B. napus breeding programs.

关键词： napus Oilseed rape

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Mutation of the PHYTOENE DESATURASE 3 gene causes yellowish-white petals in Brassica napus

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The Crop Journal 2021年第5期9卷 1124-1134页

作者： Chuanji Zhao Luqman Bin Safdar Meili Xie Meijuan Shi Zhixue Dong Li Yang Xiaohui Cheng Yueying Liu Zetao Bai Yang Xiang chaobo tong Junyan Huang Lijiang Liu Shengyi Liu Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences/The Key Laboratory of Biology and Genetic Improvement of Oil Crops The Ministry of Agriculture and Rural AffairsWuhan 430062HubeiChina National Key Laboratory of Crop Genetic Improvement National Center of Rapeseed ImprovementHuazhong Agricultural UniversityWuhan 430070HubeiChina Biosystematics Group Experimental Plant SciencesWageningen University and ResearchWageningenNetherlands Guizhou Rapeseed Institute Guizhou Academy of Agricultural SciencesGuiyang 550008GuizhouChina

Oilseed rape (Brassica napus) with yellow flowers is an attractive ornamental landscape plant during the flowering period,and the development of different petal colors has become a breeding objective.Although yellowish flower color is a common variant observed in field-grown oilseed rape,the genetics behind this variation remains unclear.We obtained a yellowish-white flower (ywf) mutant from Zhongshuang 9 (ZS9) by ethyl methanesulfonate mutagenesis (EMS) treatment.Compared with ZS9,ywf exhibited a lower carotenoid content with a reduced and defective chromoplast ultrastructure in the petals.Genetic analysis revealed that the yellowish-white trait was controlled by a single recessive gene.Using bulked-segregant analysis sequencing (BSA-seq) and kompetitive allele-specific PCR(KASP),we performed map-based cloning of the ywf locus on chromosome A08 and found that ywf harbored a C-to-T substitution in the coding region,resulting in a premature translation termination.YWF,encoding phytoene desaturase 3 (PDS3),was highly expressed in oilseed rape petals and involved in carotenoid biosynthesis.Pathway enrichment analysis of the transcriptome profiles from ZS9 and ywf indicated the carotenoid biosynthesis pathway to be highly enriched.Further analyses of differentially expressed genes and carotenoid components revealed that the truncated Bna A08.PDS3 resulted in decreased carotenoid biosynthesis in the mutant.These results contribute to an understanding of the carotenoid biosynthesis pathway and manipulation of flower-color variation in B.napus.

关键词： Yellowish-white flower BSA-seq RNA-seq BnaA08.PDS3 Carotenoid biosynthesis

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Cloning and sequence analysis of Sox genes in a tetraploid cyprinid fish,Tor douronensis

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Chinese Science Bulletin 2008年第13期53卷 1988-1995页

作者： GUO BaoCheng Li JunBing tong chaobo HE ShunPing Institute of Hydrobiology Chinese Academy of Sciences Wuhan 430072 China Graduate University of the Chinese Academy Sciences Beijing 100049 China

A PCR survey for Sox genes in a young tetraploid fish Tor douronensis (Teleostei:Cyprinidae) was per-formed to access the evolutionary fates of important functional genes after genome duplication caused by polyploidization event. Totally 13 Sox genes were obtained in Tor douronensis,which represent SoxB,SoxC and SoxE groups. Phylogenetic analysis of Sox genes in Tor douronensis provided evidence for fish-specific genome duplication,and suggested that Sox19 might be a teleost specific Sox gene member. Sequence analysis revealed most of the nucleotide substitutions between duplicated copies of Sox genes caused by tetraploidization event or their orthologues in other species are silent substitutions. It would appear that the sequences are under purifying selective pressure,strongly suggesting that they repre-sent functional genes and supporting selection against all null allele at either of two duplicated loci of Sox4a,Sox9a and Sox9b. Surprising variations of the intron length and similarities of two duplicated copies of Sox9a and Sox9b,suggest that Tor douronensis might be an allotetraploidy.

关键词：四倍体短基因基因复制基因多样性

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Mapping loci controlling fatty acid profiles and contents of oil and protein by genome-wide association study in Brassica napus

Mapping loci controlling fatty acid profiles and contents of...

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2018全国植物生物学大会

作者： Minqiang Tang Yuanyuan Zhang Yueying Liu chaobo tong Xiaohui Cheng Wei Zhu Junyan Huang Shengyi Liu The Key Laboratory of Biology and Genetic Improvement of Oil Crops The Ministry of Agriculture of PRCOil Crops Research InstituteChinese Academy of Agriculture Sciences

Optimal profile and quantity of fatty acids in rapeseed are very critical for maximizing thevalue of edible oil and biodiesel.Genome-wide association study(GWAS) could efficiently identify the genes and their network underlying complex traits and provide molecular markers to accelerate breeding.In this study,weperformed GWAS todissect the genetic variations of eightseed quality traits in a rapeseed population comprising370 diverse accessions.Seven common SNPs for the contents of seed oiland proteinwere detected on five chromosomes,and five genes orthologous to functionknown Arabidopsis genes were predicted as candidate genes.Genomic region of reduced variation aroundFAE1 loci onA08 and C03 chromosomes controlling the content of erucic acid showed that these two regions were strongly selected during breeding.With the re-sequencing data,we found,except the known haplotypes combination of the variations of BnaA.FAE1 and BnaC.FAE,three accessions contained an additional haplotype combination controlling the moderate content of erucic acid.This study reveals the genetic variations and complex correlations of eight quality traits,which may inform breeding selection strategies for traits in crops.

关键词： association study fatty acid profiles candidate genes Brassica napus

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Metabolite-Based Genome-Wide Association Study to Identify Resistance-Related Genes Against Sclerotinia Sclerotiorum in Brassica napus

Metabolite-Based Genome-Wide Association Study to Identify R...

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2018全国植物生物学大会

作者： Yuanyuan Zhang Minqiang Tang Yizhou He Junyan Huang YueyingLiu Xiaohui Cheng Jie Liu Lijiang Liu chaobo tong Shengyi Liu The Key Laboratory of Biology and Genetic Improvement of Oil Crops The Ministry of Agriculture of PRCOil Crops Research InstituteChinese Academy of Agriculture Sciences

Brassica napus is a worldwide important oil crop.Sclerotinia stem rot(SSR) caused by the fungal pathogen Sclerotiniasclerotiorum is one of the most devastating diseases worldwide and seriously affects the yield and quality of rapeseed.The resistance to S.sclerotiorum in B.napusis a quantitative trait and controlled by multiple quantitative trait loci(QTLs).But all the QTLs identified for S.sclerotiorum resistance only explained a small portion of the phenotypic variation,and it is still difficult to clone the candidate genes in these QTLs.Metabolome-based genome-wide association study(mGWAS) has displayed supplementary advantage in identification of functional genes and in understanding plant disease resistance-related metabolic pathways.Here,we collected 800 accessions of B.napus from all over the world andgenotypedthen by resequencing.The phenotype data of resistance to SSR and thevariations of metabolites from leaves inoculated with and without thepathogen were collected and analyzed by GWAS and mGWAS,respectively.25 common candidate genes highlighted and mapped to defense metabolites pathway were identified,and the function of them was verified by molecular biology experiments.These results reveal a picture of plant metabolites and underlying genes related todisease SSR resistance,and will promote efficient utilization of metabolites in improvementof disease resistance breeding.

关键词： Brassica napus metabolite profiling resistanceto Sclerotiniasclerotiorum GWAS mGWAS

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Population Genomic Analyses Identify Signatures of Selection and Loci Associated with Agronomic Traits in Brassica napus

Population Genomic Analyses Identify Signatures of Selection...

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2018全国植物生物学大会

作者： Yuanyuan Zhang Minqiang Tang YueyingLiu Junyan Huang Ming Hu chaobo tong Yanqiu Zhou Xiaohui Cheng Li Yang Lingli Yang Shengyi Liu The Key Laboratory of Biology and Genetic Improvement of Oil Crops The Ministry of Agriculture of PRCOil Crops Research InstituteChinese Academy of Agriculture Sciences

Brassica napusis one of the world’s most valuable oilseed crops.Natural and artificial breeding selectionsof B.napushave resulted in numerous genetically diverse morphotypesand ecotypes with optimized traits and ecophysiological adaptation.To further understand the influence of selectionson important agronomic traits,we conducteda comprehensive genomic assessment of genomic selection loci and their corresponding phenotypic traits based on the genome-wide resequencing of 800 diverse B.napus accessions.We detected 160 domestication-selective sweeps through comparisons of whole-genome genetic diversity between the different groups of oilseed rape accessions and between 120 loci associated with 30 agronomic traits after genomewide association study(GWAS).There are 70 lociassociated with 22 agronomic traits overlapped with selective sweeps.We found that six favourable alleles of low seed glucosinolate and erucic acid content,taken as examples,had been under strong selection in the process of ’double low’ breeding(canola).Our results provide a genomic basis for improving B.napus cultivars and for further evolutionary analysis of oilseed crops.

关键词： Oilseed crops genomic selection GWAS ‘double low’ breeding

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Dissection of the genetic control of plant architecture by associative transcriptomics in Brassica napus

Dissection of the genetic control of plant architecture by a...

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2018全国植物生物学大会

作者： Meili Xie Md Mostofa Uddin Helal Rafaqat Ali Gill Lingli Yang Yuanyuan Zhang chaobo tong Minqiang Tang Xiaohui Cheng Yueying Liu Shengyi Liu The Key Laboratory of Biology and Genetic Improvement of Oil Crops The Ministry of Agriculture of PRCOil Crops Research InstituteChinese Academy of Agriculture Sciences

Plant architecture refers to the morphological characteristics and spatial arrangement of the plant crops and has shown significant impacts on crop adaptation and yield potential.Although few genes related to plant architecture have been identified,little is known about the genetic control of the important traits in Brassica napus.Associative Transcriptomics(AT) is an advanced method to identify molecular markers associated with trait variation across a diversity panel,exploiting both gene sequence variation and gene expression variation.Here a genetic diversity panel of more than 300 accessions are chose to dissect the genetic control of plant architecture.Using associative transcriptomics,we identify molecular markers for a suite of important traits.Furthermore,based on conserved synteny with Arabidopsis thalinan we are able to provide a biological context to the candidate genes detected and verify the function of these genes in Arabidopsis.This study not only furthers our understanding of the gene network for plant architecture but also provieds a set of markers for the breeding programmes.

关键词： plant architecture associative transcriptomics Brassica napus

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