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| 1 | Selection and development of representative simple sequence repeat primers and multiplex SSR sets for high throughput automated genotyping in maize显示文摘In the current study, 1900 maize simple sequence repeat (SSR) primers published in MaizeGDB were screened utilizing reference literature, 15 representative Chinese maize inbred lines and 15 Chinese maize hybrids from national regional testing. In total, 500 highly polymorphic primers were identified and used to construct a genetic map. 100 evenly distributed primers, 10 primers per chromosome, were further selected as a set of universal SSR core primers, recommended as preferred primers for general studies. These core primers were then redesigned and used to construct a high throughput multiplex PCR system based on a five-color fluorescence capillary detection system. We report here that two sets of ten-plex PCR combinations have been constructed, each consisting of 10 primers, with one primer per chromosome. | WANG FengGe ZHAO JiuRan DAI JingRui YI HongMei KUANG Meng SUN YanMei YU XinYan GUO JingLun WANG Lu | 2007 | Chinese Science Bulletin2007，52，2： | 35 |
| 2 | The HuangZaoSi Maize Genome Provides Insights into Genomic Variation and Improvement History of Maize显示文摘Maize is a globally important crop that was a classic model plant for genetic studies. Here, we report a 2.2 Gb draft genome sequence of an elite maize line, HuangZaoSi (HZS). Hybrids bred from HZS-improved lines (HILs) are planted in more than 60% of maize fields in China. Proteome clustering of six completed sequeneed maize genomes show that 638 proteins fall into 264 HZS-specific gene families with the majority of contributions from tandem duplication events. Resequencing and comparative analysis of 40 HZSrelated lines reveals the breeding history of HILs. More than 60% of identified selective sweeps were clustered in identity.by.descent conserved regions, and yield-related genes/QTLs were enriched in HZS characteristic selected regions. Furthermore, we dem on strated that HZS-specific family genes were not uniformly distributed in the genome but enriched in improvement/function.related genomic regions. This study provides an important and novel resource for maize genome research and expands our knowledge on the breadth of genomic variation and improvement history of maize. | Chunhui Li Wei Song Yingfeng Luo Shenghan Gao Ruyang Zhang Zi Shi Xiaqing Wang Ronghuan Wang Fengge Wang Jidong Wang Yanxin Zhao Aiguo Su Shuai Wang Xin Li Meijie Luo Shuaishuai Wang Yunxia Zhang Jianrong Ge Xinyu Tan Ye Yuan Xiaochun Bi Hang He Jianbing Yan Yuandong Wang Songnian Hu Jiuran Zhao | 2019 | Molecular Plant2019，12，3： | 15 |
| 3 | Activation of Mitochondrial orf355 Gene Expression by a Nuclear-Encoded DREB Transcription Factor Causes Cytoplasmic Male Sterility in Maize显示文摘Coordination between mitochondria and the nucleus is crucial for fertility determination in plants with cytoplasmic male sterility(CMS).Using yeast one-hybrid screening,we identified a transcription factor,ZmDREB1.7,that is highly expressed in sterile microspores at the large vacuole stage and activates the expression of mitochondria-encoded CMS gene orf355.Δpro,a weak allele of ZmDREB1.7 with the loss of a key unfolded protein response(UPR)motif in the promoter,partially restores male fertility of CMS-S maize.ZmDREB1.7 expression increases rapidly in response to antimycin A treatment,but this response is attenuated in theΔpro allele.Furthermore,we found that expression of orf355 in mitochondria activates mitochondrial retrograde signaling,which in turn induces ZmDREB1.7 expression.Taken together,these findings demonstrate that positive-feedback transcriptional regulation between a nuclear regulator and a mitochondrial CMS gene determines male sterility in maize,providing new insights into nucleus-mitochondria communication in plants. | Senlin Xiao Jie Zang Yuanrong Pei Jie Liu Juan Liu Wei Song Zi Shi Aiguo Su Jiuran Zhao Huabang Chen | 2020 | Molecular Plant2020，13，9： | 10 |
| 4 | Discriminated sgRNAs-Based SurroGate System Greatly Enhances the Screening Efficiency of Plant Base-Edited Cells显示文摘The development of CRISPR/Cas9-mediated base editing has made genomic modification more efficient. However, selection of genetically modified cells from millions of treated cells, especially plant cells, is still challenging. In this study, an efficient surrogate reporter system based on a defective hygromycin resistance gene was established in rice to enrich base-edited cells. After step-by-step optimization, the Discriminated sgRNAs-based SurroGate system (DisSUGs) was established by artificially differentiating the editing abilities of a wild-type single guide RNA (sgRNA) targeting the surrogate reporter gene and an enhanced sgRNA targeting endogenous sites. The DisSUGs enhanced the efficiency of screening base-edited cells by 3- to 5-fold for a PmCDA1-based cytosine-to-tyrosine base editor (PCBE), and 2.5- to 6.5-fold for an adenine base editor (ABE) at endogenous targets. These targets showed editing efficiencies of <25% in the conventional systems. The DisSUGs greatly enhanced the frequency of homozygous substitutions and expanded the activity window slightly for both a PCBE and an ABE. Analyses of the total number of single-nucleotide variants from whole-genome sequencing revealed that, compared with the no-enrichment PCBE strategy, the DisSUGs did not alter the frequency of genome-wide sgRNA-independent off-target mutations, but slightly increased the frequency of target-dependent off-target mutations. Collectively, the DisSUGs developed in this study greatly enhances the efficiency of screening plant base-edited cells and will be a useful system in future applications. | Wen Xu Yongxing Yang Ya Liu Guiting Kang Feipeng Wang Lu Li Xinxin Lv Si Zhao Shuang Yuan Jinling Song Ying Wu Feng Feng Xiaoqing He Chengwei Zhang Wei Song Jiuran Zhao Jinxiao Yang | 2020 | Molecular Plant2020，13，1： | 8 |
| 5 | Gene-lndexed Mutations in Maize显示文摘 | Xiaoduo Lu Jisheng Liu Wen Ren Qun Yang Zhenguang Chai Rumei Chen Lei Wang Jun Zhao Zhihong Lang Haiyang Wang Yunliu Fan Jiuran Zhao Chunyi Zhang | 2018 | Molecular Plant2018，11，3： | 4 |
| 6 | Expanding base editing scope to near-PAMless with engineered CRISPR/Cas9 variants in plants显示文摘Dear Editor,Base editors(BEs),including cytosine base editor(CBE)and adenine base editor(ABE),have been widely used to generate irreversible nucleotide substitution in plants and animals.However,their wide applications are largely hindered by the strict NG protospacer adjacent motif(PAM)sequences recognized by Streptococcus pyogenes Cas9(SpCas9)and its engineered variants,such as SpCas9-NG and xCas9(Hua et al.,2019;Ren et al.,2019;Wu et al.,2019;Zhong et al.,2019;Zhang et al.,2020).Most recently,it was reported that three new SpCas9 variants,SpCas9-NRRH,SpCas9-NRTH,and SpCas9-NRCH,could recognize non-G PAMs(NRNH,where R is A or G and H is A,C,or T)in human cells(Miller et al.,2020).Meanwhile,SPRY,another new SpCas9 variant,was developed to greatly expand the editing scope of BEs to nearly PAMless(Walton et al.,2020).In this study,we generated a series of efficient BE toolkits and almost achieved C-to-T mutation without PAM restriction except for NTG PAM,and largely expanded A-to-G mutation scope in stable transformed rice,providing a reference for application in other plants. | Chengwei Zhang Yao Wang Feipeng Wang Si Zhao Jinling Song Feng Feng Jiuran Zhao Jinxiao Yang | 2021 | Molecular Plant2021，14，2： | 4 |
| 7 | Identification of a locus associated with genic male sterility in maize via EMS mutagenesis and bulked-segregant RNA-seq显示文摘Genic male sterility(GMS) is one of the most important resources for exploiting heterosis in crop breeding, so that identifying genomic loci regulating GMS is desirable. However, many regulatory genes controlling GMS have not yet been characterized in maize, owing partly to a lack of genetic materials. We generated a recessive male-sterile maize mutant in the Jing 724 genetic background via ethyl methanesulfonate treatment, and found the male sterility to be due to a single gene mutation. Bulk-segregant RNA sequencing of three replicates indicated that one genomic region located at the end of chromosome 4 was associated with the observed mutant phenotype. Among genes with nonsynonymous mutations,Zm00001 d053895(bHLH51) showed abolished expression in the sterile bulks and was annotated as a bHLH transcription factor orthologous to Arabidopsis AMS, suggesting an association with the male sterility of the mutant. Kompetitive Allele-Specific PCR assays further validated the exclusive correlation of male sterility with the single C-to-T mutation in the fifth exon. The new maize mutant and the potential SNP locus provide novel genetic material for investigating the molecular mechanism underlying tapetal development and may facilitate the improvement of hybrid production systems. | Zi Shi Wen Ren Yanxin Zhao Xiaqing Wang Ruyang Zhang Aiguo Su Shuai Wang Chunhui Li Jiarong Wang Shuaishuai Wang Yunxia Zhang Yulong Ji Wei Song Jiuran Zhao | 2021 | The Crop Journal2021，9，6： | 4 |
| 8 | Developing high-efficiency base editors by combining optimized synergistic core components with new types of nuclear localization signal peptide显示文摘The clustered regularly interspaced short palindromic repeats(CRISPR)–CRISPR-associated protein(Cas) system has been widely used for genome editing. In this system, the cytosine base editor(CBE) and adenine base editor(ABE) allow generating precise and irreversible base mutations in a programmable manner and have been used in many different types of cells and organisms. However, their applications are limited by low editing efficiency at certain genomic target sites or at specific target cytosine(C) or adenine(A) residues. Using a strategy of combining optimized synergistic core components, we developed a new multiplex super-assembled ABE(sABE) in rice that showed higher base-editing efficiency than previously developed ABEs. We also designed a new type of nuclear localization signal(NLS) comprising a FLAG epitope tag with four copies of a codon-optimized NLS(F4NLS^(r2)) to generate another ABE named F4NLS-sABE. This new NLS increased editing efficiency or edited additional A at several target sites. A new multiplex super-assembled CBE(sCBE) and F4NLS^(r2) involved F4NLS-sCBE were also created using the same strategy. F4NLS-sCBE was proven to be much more efficient than sCBE in rice. These optimized base editors will serve as powerful genome-editing tools for basic research or molecular breeding in rice and will provide a reference for the development of superior editing tools for other plants or animals. | Feipeng Wang Chengwei Zhang Wen Xu Shuang Yuan Jinling Song Lu Li Jiuran Zhao Jinxiao Yang | 2020 | The Crop Journal2020，8，3： | 3 |
| 9 | Cloning and characterization of maize ZmSPK1, a homologue to nonfermentingl-related protein kinase2 显示文摘 | Zou Huawein Zhang Xiuhai Zhao Jiuran | 2006 | African Journal of Biotechnology2006，5，： | 1 |
| 10 | Population structure and linkage disequilibrium of a mini core set of maize inbred lines in China显示文摘 | Ronghuan Wang Yongtao Yu Jiuran Zhao Yunsu Shi Yanchun Song Tianyu Wang Yu Li | 2008 | Theoretical and Applied Genetics2008，，7： | 1 |
| 11 | Cloning, characterization, and transformation of the phosphoethanolamine N-methyltransferase gene (ZmPEAMT1) in maize (Zea mays L.)显示文摘 | Suowei Wu Zhanwang Yu Fengge Wang Weihua Li Chunjiang Ye Jun Li Jihua Tang Junqiang Ding Jiuran Zhao Bin Wang | 2007 | Molecular Biotechnology2007，，2： | 1 |
| 12 | Population structure and linkage disequilibrium of a mini core set of maize inbred lines in China 显示文摘 | Wang Ronghuan Yu Yongtao Zhao Jiuran | 2008 | Theoretical and Applied Genetics2008，117，7： | 1 |
| 13 | Population structure and linkage disequilibrium of a mini core set of maize inbred lines in China显示文摘 | Ronghuan Wang Yongtao Yu Jiuran Zhao Yunsu Shi Yanchun Song Tianyu Wang Yu Li | 2008 | Theoretical and Applied Genetics2008，，7： | 1 |
| 14 | The priority of management factors for reducing the yield gap of summer maize in the north of Huang-Huai-Hai region, China显示文摘Understanding yield potential, yield gap and the priority of management factors for reducing the yield gap in current intensive maize production is essential for meeting future food demand with the limited resources. In this study, we conducted field experiments using different planting modes, which were basic productivity(CK), farmer practice(FP), high yield and high efficiency(HH), and super high yield(SH), to estimate the yield gap. Different factorial experiments(fertilizer, planting density, hybrids, and irrigation) were also conducted to evaluate the priority of individual management factors for reducing the yield gap between the different planting modes. We found significant differences between the maize yields of different planting modes. The treatments of CK, FP, HH, and SH achieved 54.26, 58.76, 65.77, and 71.99% of the yield potential, respectively. The yield gaps between three pairs: CK and FP, FP and HH, and HH and SH, were 0.76, 1.23 and 0.85 t ha^(–1), respectively. By further analyzing the priority of management factors for reducing the yield gap between FP and HH, as well as HH and SH, we found that the priorities of the management factors(contribution rates) were plant density(13.29%)>fertilizer(11.95%)>hybrids(8.19%)>irrigation(4%) for FP to HH, and hybrids(8.94%)>plant density(4.84%)>fertilizer(1.91%) for HH to SH. Therefore, increasing the planting density of FP was the key factor for decreasing the yield gap between FP and HH, while choosing hybrids with density and lodging tolerance was the key factor for decreasing the yield gap between HH and SH. | LIU Yue-e LI Yu-xin LU Tian-fang XING Jin-feng XU Tian-jun CAI Wan-tao ZHANG Yong ZHAO Jiuran WANG Rong-huan | 2021 | Journal of Integrative Agriculture2021，20，2： | 1 |
| 15 | Trash to treasure:lactate and protein lactylation in maize root impacts response to drought显示文摘Lactate,protein lactylation(Kla),and specifically histone lactylation have recently been shown to regulate antipathogenic immune responses in mammals.Herein,after we confirmed the presence and accumulation of lactate in maize roots under drought conditions,a lactylome profiling analysis revealed that Kla modifications were invariably present in maize roots,that there were obvious differences in the lactylomes of drought-sensitive(B73)vs.drought-tolerant(Jing2416)lines,and that growing Jing2416 under drought conditions caused significant decreases in the lactylation of multiple enzymes responsible for fatty acid degradation.Inspired by findings of histone-Kla based epigenetic regulation of immune functions in animals,we initially discovered 37 Kla sites on 16 histones in the maize genome,and again detected obvious differential histone Klamediated trends between two lines by Ch IP-Seq.Notably,only 2.7%of genes with differential histone Kla peaks detected during drought stress were commonly present in both lines,a finding demonstrating that abiotic stress triggers distinct epigenetic activities in diverse germplasm while also strongly supporting that a histone Kla layer of regulation is associated with physiological responses to drought stress.Interestingly,exogenous application of spermidine improved the drought tolerance of B73and substantially altered the levels of lactate,protein lactylation,and histone Kla modification.Thus,beyond extending the known domain of Kla-based biochemical and epigenetic regulation from animal immunity to plant stress physiology,our study suggests the physiological,biochemical,and genetic function of“the best-known metabolic waste”,lactate. | Zi Shi Miaoyi Zhou Wei Song Ya Liu Ronghuan Wang Yuandong Wang Ruyang Zhang Jiuran Zhao Wen Ren | 2023 | Science China(Life Sciences)2023，66，8： | 1 |
| 16 | Floral transition in maize infected with Sporisorium reilianum disrupts compatibility with this biotrophic fungal pathogen显示文摘 | Shaopeng Zhang Jack Gardiner Yannong Xiao Jiuran Zhao Fengge Wang Yonglian Zheng | 2013 | Planta2013，，5： | 1 |
| 17 | Spontaneously enhanced visible-light-driven photocatalytic water splitting of type Ⅱ PG/AlAss van der Waal heterostructure:A first-principles study显示文摘To solve the problem of energy scarcity and widespread environmental contamination,it is necessary to design green and low-cost photocatalysts for water splitting.In this paper,a new penta-graphene/AlAs_(5)(PG/AlAss)van der Waals(vdW)heterostructure is proposed and its performance for photocatalytic hydrolysis is calculated using the first-principles method.The findings suggest that the PG/AIAss heterostructure belong to type-ll indirect semiconductor,and the edge position and band gap width of this heterostructure satisfy the requests of redox reaction.Furthermore,the oxidation reaction(OER)on the AIAss side and the hydrogen evolution reaction(HER)on the PG side are thermodynamically spontaneous under different conditions.Surprisingly,the introduction of strain engineering has changed the position of the band edge and light absorption performance of PG/AlAss heterostructure,which is powerful for the performance of photocatalytic water splitting.The PG/AlAs_(5) vdw heterostructure exhibits well visible light absorption intensity without applying strain and biaxial strain of 2%.In conclusion,the findings suggest that the PG/AlAss vdW heterostructure is a prospecting catalyst for visible-light hydrolysis. | Wenxue Zhang Jiating Hou Min Bai Cheng He Jiuran Wen | 2023 | Chinese Chemical Letters2023，34，12： | 0 |
| 18 | HTPdb and HTPtools:Exploiting maize haplotypetag polymorphisms for germplasm resource analyses and genomics-informed breeding显示文摘Along with rapid advances in high-throughput-sequencing technology,the development and application of molecular markers has been critical for the progress that has been made in crop breeding and genetic research.Desirable molecular markers should be able to rapidly genotype tens of thousands of breeding accessions with tens to hundreds of markers.In this study,we developed a multiplex molecular marker,the haplotype-tag polymorphism(HTP),that integrates Maize6H-60K array data from 3,587 maize inbred lines with 6,375 blocks from the recombination block map.After applying strict filtering criteria,we obtained 6,163 highly polymorphic HTPs,which were evenly distributed in the genome.Furthermore,we developed a genome-wide HTP analysis toolkit,HTPtools,which we used to establish an HTP database(HTPdb)covering the whole genomes of 3,587 maize inbred lines commonly used in breeding.A total of 172,921 non-redundant HTP allelic variations were obtained.Three major HTPtools modules combine seven algorithms(e.g.,chain Bayes probability and the heterotic-pattern prediction algorithm)and a new plotting engine named“BCplot”that enables rapid visualization of the background information of multiple backcross groups.HTPtools was designed for big-data analyses such as complex pedigree reconstruction and maize heterotic-pattern prediction.The HTP-based analytical strategy and the toolkit developed in this study are applicable for high-throughput genotyping and for genetic mapping,germplasm resource analyses,and genomics-informed breeding in maize. | Yikun Zhao Hongli Tian Chunhui Li Hongmei Yi Yunlong Zhang Xiaohui Li Han Zhao Yongxue Huo Rui Wang Dingming Kang Yuncai Lu Zhihao Liu Ziyue Liang Liwen Xu Yang Yang Ling Zhou Tianyu Wang Jiuran Zhao Fengge Wang | 2022 | Plant Communications2022，3，4： | 0 |
| 19 | ORF355 confers enhanced salinity stress adaptability to S-type cytoplasmic male sterility maize by modulating the mitochondrial metabolic homeostasis显示文摘Moderate stimuli in mitochondria improve wideranging stress adaptability in animals, but whether mitochondria play similar roles in plants is largely unknown. Here, we report the enhanced stress adaptability of S-type cytoplasmic male sterility(CMS-S) maize and its association with mild expression of sterilizing gene ORF355. A CMS-S maize line exhibited superior growth potential and higher yield than those of the near-isogenic N-type line in saline fields. Moderate expression of ORF355 induced the accumulation of reactive oxygen species and activated the cellular antioxidative defense system. This adaptive response was mediated by elevation of the nicotinamide adenine dinucleotide concentration and associated metabolic homeostasis. Metabolome analysis revealed broad metabolic changes in CMS-S lines, even in the absence of salinity stress. Metabolic products associated with amino acid metabolism and galactose metabolism were substantially changed, which underpinned the alteration of the antioxidative defense system in CMS-S plants. The results reveal the ORF355-mediated superior stress adaptability in CMS-S maize and might provide an important route to developing salt-tolerant maize varieties. | Senlin Xiao Wei Song Jinfeng Xing Aiguo Su Yanxin Zhao Chunhui Li Zi Shi Zhiyong Li Shuai Wang Ruyang Zhang Yuanrong Pei Huabang Chen Jiuran Zhao | 2023 | Journal of Integrative Plant Biology2023，65，3： | 0 |
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