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| 1 | Recently duplicated sesterterpene(C25) gene clusters in Arabidopsis thaliana modulate root microbiota显示文摘Land plants co-speciate with a diversity of continually expanding plant specialized metabolites(PSMs) and root microbial communities(microbiota).Homeostatic interactions between plants and root microbiota are essential for plant survival in natural environments.A growing appreciation of microbiota for plant health is fuelling rapid advances in genetic mechanisms of controlling microbiota by host plants.PSMs have long been proposed to mediate plant and single microbe interactions.However,the effects of PSMs,especially those evolutionarily new PSMs,on root microbiota at community level remain to be elucidated.Here,we discovered sesterterpenes in Arabidopsis thaliana,produced by recently duplicated prenyltransferase-terpene synthase(PT-TPS) gene clusters,with neo-functionalization.A single-residue substitution played a critical role in the acquisition of sesterterpene synthase(sesterTPS) activity in Brassicaceae plants.Moreover,we found that the absence of two root-specific sesterterpenoids,with similar chemical structure,significantly affected root microbiota assembly in similar patterns.Our results not only demonstrate the sensitivity of plant microbiota to PSMs but also establish a complete framework of host plants to control root microbiota composition through evolutionarily dynamic PSMs. | Qingwen Chen Ting Jiang Yong-Xin Liu Haili Liu Tao Zhao Zhixi Liu Xiangchao Gan Asis Hallab Xuemei Wang Juan He Yihua Ma Fengxia Zhang Tao Jin M. Eric Schranz Yong Wang Yang Bai Guodong Wang | 2019 | Science China(Life Sciences)2019，62，7： | 11 |
| 2 | Cloning of Ln Gene Through Combined Approach of Map-based Cloning and Association Study in Soybean显示文摘Increasing yield is one of the most important goals in crop breeding.Soybean(Glycine max L.Merr.),one of the most economically important leguminous seed crops,provides the majority of plant proteins,and more than a quarter of the world's food and animal feed(Graham and Vance,2003). The yield of soybean is finally determined by the number of seeds per unit area,which affected by many characters,such as height,branching number,photosynthesis,seed size,seed number.The number of seeds per pod is taken for one of the critical components that related to yield(You et al.,1995),and it has long been considered in soybean production(Takahashi, | Chao Fang Weiyu Li Guiquan Li Zheng Wang Zhengkui Zhou Yanming Ma Yanting Shen Congcong Li Yunshuai Wu Baoge Zhu Weicai Yang Zhixi Tian | 2013 | Journal of Genetics and Genomics2013，40，2： | 7 |
| 3 | Development of T. aestivum L.eH. californicum Alien Chromosome Lines and Assignment of Homoeologous Groups of Hordeum californicum Chromosomes显示文摘Hordeum californicum(2n=2x=14, HH) is resistant to several wheat diseases and tolerant to lower nitrogen. In this study, a molecular karyotype of H. californicum chromosomes in the Triticum aestivum L. cv. Chinese Spring(CS)eH. californicum amphidiploid(2n=6x=56, AABBDDHH) was established. By genomic in situ hybridization(GISH) and multicolor fluorescent in situ hybridization(FISH) using repetitive DNA clones(pTa71, pTa794 and pSc119.2) as probes, the H. californicum chromosomes could be differentiated from each other and from the wheat chromosomes unequivocally. Based on molecular karyotype and marker analyses, 12 wheatealien chromosome lines, including four disomic addition lines(DAH1, DAH3, DAH5 and DAH6), five telosomic addition lines(MtH7L,MtH1 S, MtH1 L, DtH6 S and DtH6L), one multiple addition line involving H. californicum chromosome H2, one disomic substitution line(DSH4) and one translocation line(TH7S/1BL), were identified from the progenies derived from the crosses of CSeH. californicum amphidiploid with common wheat varieties. A total of 482 EST(expressed sequence tag) or SSR(simple sequence repeat) markers specific for individual H. californicum chromosomes were identified, and 47, 50, 45, 49, 21, 51 and 40 markers were assigned to chromosomes H1, H2, H3, H4, H5, H6 and H7, respectively. According to the chromosome allocation of these markers, chromosomes H2,H3, H4, H5, and H7 of H. californicum have relationship with wheat homoeologous groups 5, 2, 6, 3, and 1, and hence could be designated as 5Hc, 2Hc, 6Hc, 3Hcand 1Hc, respectively. The chromosomes H1 and H6 were designated as 7Hcand 4Hc, respectively, by referring to SSR markers located on rye chromosomes. | Yuhui Fang Jingya Yuan Zhangjun Wang Haiyan Wang Jin Xiao Zhixi Yang Ruiqi Zhang Zengjun Qi Weigang Xu Lin Hu Xiu-E Wang | 2014 | Journal of Genetics and Genomics2014，41，8： | 2 |
| 4 | QNE1 is a key flowering regulator determining the length of the vegetative period in soybean cultivars显示文摘The soybean E1 gene is a major regulator that plays an important role in flowering time and maturity.However,it remains unclear how cultivars carrying the dominant E1 allele adapt to the higher latitudinal areas of northern China.We mapped the novel quantitative trait locus QNE1(QTL near E1) for flowering time to the region proximal to E1 on chromosome 6 in two mapping populations.Positional cloning revealed Glyma.06G204300,encoding a TCP-type transcription factor,as a strong candidate gene for QNE1.Association analysis further confirmed that functional single nucleotide polymorphisms(SNPs) at nucleotides 686 and 1,063 in the coding region of Glyma.06G204300 were significantly associated with flowering time.The protein encoded by the candidate gene is localized primarily to the nucleus.Furthermore,soybean and Brassica napus plants overexpressing Glyma.06G204300 exhibited early flowering.We conclude that despite their similar effects on flowering time,QNE1 and E4 may control flowering time through different regulatory mechanisms,based on expression studies and weighted gene co-expression network analysis of flowering time-related genes.Deciphering the molecular basis of QNE1 control of flowering time enriches our knowledge of flowering gene networks in soybean and will facilitate breeding soybean cultivars with broader latitudinal adaptation. | Zhengjun Xia Hong Zhai Yanfeng Zhang Yaying Wang Lu Wang Kun Xu Hongyan Wu Jinglong Zhu Shuang Jiao Zhao Wan Xiaobin Zhu Yi Gao Yingxiang Liu Rong Fan Shihao Wu Xin Chen Jinyu Liu Jiayin Yang Qijian Song Zhixi Tian | 2022 | Science China(Life Sciences)2022，65，12： | 1 |
| 5 | Role of aspiration induced migration in cooperation 显示文摘 | Yang Hanxin Wu Zhixi Wang Binghong | 2010 | Physical Review E2010，81，06： | 1 |
| 6 | Diversity-opti- mized cooperation on complex networks 显示文摘 | Yang Hanxin Wang Wenxu Wu Zhixi | 2009 | Physical Review E2009，79，05： | 1 |
| 7 | Genome-wide scan for oil quality reveals a coregulation mechanism of tocopherols and fatty acids in soybean seeds显示文摘Tocopherols(vitamin E)play essential roles in human health because of their antioxidant activity,and plantderived oils are the richest sources of tocopherols in the human diet.Although soybean(Glycinemax)is one of themain sources of plant-derived oil and tocopherol in the world,the relationship between tocopherol and oil in soybean seeds remains unclear.Here,we focus on dissecting tocopherol metabolism with the longterm goal of increasing a-tocopherol content and soybean oil quality.We first collected tocopherol and fatty acid profiles in a soybean population(>800 soybean accessions)and found that tocopherol content increased during soybean domestication.A strong positive correlation between tocopherol and oil content was also detected.Five tocopherol pathway–related lociwere identified using a metabolite genome-wide association study strategy.Genetic variations in three tocopherol pathway genes were responsible for total tocopherol content and composition in the soybean population through effects on enzyme activity,mainly caused by non-conserved amino acid substitution or changes in gene transcription level.Moreover,the fatty acid regulatory transcription factor GmZF351 directly activated tocopherol pathway gene expression,increasing both fatty acid and tocopherol contents in soybean seeds.Our study reveals the functional differentiation of tocopherol pathway genes in soybean populations and provides a framework for development of new soybean varieties with high a-tocopherol content and oil quality in seeds. | Danni Chu Zhifang Zhang Yang Hu Chao Fang Xindan Xu Jia Yuan Jinsong Zhang Zhixi Tian Guodong Wang | 2023 | Plant Communications2023，4，5： | 0 |
| 8 | A Pd1-Ps-P1 Feedback Loop Controls Pubescence Density in Soybean显示文摘Trichomes are universally present in plants and their development is delicately regulated.Trichomes are responsible for pubescence,whose density is associated with some agronomic traits such as insect resis-tance,evapotranspiration,and yield.Almost a century ago,three dominant alleles related to pubescence density in soybean,namely Pd1(dense pubescence),Ps(sparse pubescence),and P1(glabrous),were iden-tified.However,their molecular identity and genetic relationships remain unclear.In this study,through a genome-wide association study and map-based cloning,we determined the genetic basis of these three traits.The sparse-pubescence phenotype of Ps was attributed to a copy-number variation of a 25.6-kb sequence that includes a gene encoding a protein with WD40 and RING domains.The dense-pubescence phenotype of Pd1 was attributed to a T-C transition in the last exon of an HD-Zip transcription factor gene,and the glabrous phenotype of P1 was caused by a G-A transition in the first exon of a lipid transfer protein gene.Genetic and biochemical analyses revealed that Pd1 functions as a transcriptional activator that can bind the promoters of the P1 and Ps genes to induce their expression;Interestingly,Pd1 can also bind its own promoter and inhibit its gene transcription.In addition,Ps can interact with Pd1 and weaken the tran-scriptional activity of Pd1.Taken together,our results demonstrate that Pd1,Ps,and P1 form a complex feedback loop to regulate pubescence formation in soybean. | Shulin Liu Lei Fan Zhi Liu Xia Yang Zhifang Zhang Zongbiao Duan Qianjin Liang Muhammad Imran Min Zhang Zhixi Tian | 2020 | Molecular Plant2020，13，12： | 0 |
| 9 | Chloroplast DNA Underwent Independent Selection from Nuclear Genes during Soybean Domestication and Improvement显示文摘The chloroplast is one of the most important organs in plants because of its essential role in photosynthesis.Studies have shown that the chloroplast was once a free-living cyanobacteria and was integrated into the host species through endosymbiosis(Goksoyr.1967).after which a large number of its genes had been donated to the host nuclear genome(Heins | Chao Fang Yanming Ma Lichai Yuan Zheng Wang Rui Yang Zhengkui Zhou Tengfei Liu Zhixi Tian | 2016 | Journal of Genetics and Genomics2016，43，4： | 0 |
| 10 | Protomer Roles in Chloroplast Chaperonin Assembly and Function显示文摘三叶绿体 CPN60 protomers (CPN60, CPN601,和 CPN602 ) 的单个角色并且他们是否并且怎么被装配进功能的 chaperonin 建筑群在 Chlamydomonas reinhardtii 被调查。包含所有三个潜在的子单元的蛋白质建筑群在 Chlamydomonas 被识别,并且他们在 Escherichia coli 的合作表示产出包含所有三个子单元(CPN6012 ) 的 oligomers 的一张同类的人口,与与 tetradecameric 结构一致的分子的重量。当 CPN60 的 homo-oligomers 能形成时,当 CPN60 是在场的, CPN602 的 homo-oligomers 乐意地面对 ATP 和另外的 protomers 被变成 hetero-oligomers 时,他们戏剧性地被减少。ATP 水解作用引起了 CPN60 oligomers 拆卸并且驱使净化的 protomers 重新组成 oligomers invitro,建议 CPN60 oligomers 的动态性质依赖于 ATP。在 5:6:3 比率的仅仅 hetero-oligomeric CPN6012,包含的 CPN60, CPN601,和 CPN602 子单元,与 GroES 机能上地合作了。CPN60 和 CPN60 子单元的联合,然而并非单个子单元在有子单元识别的 E.coli 的独自一个的、补充 GroEL 功能特性。在 Chlamydomonas 的 CPN60 子单元的下面规定导致了一个慢生长缺点和无能自造营养物质地成长,显示 CPN60 invivo 的必要角色。 | Cuicui Bai Peng Guo Qian Zhao Zongyang Lv Shijia Zhang Fei Gao Liyan Gao Yingchun Wang Zhixi Tian Jifeng Wang Fuquan Yang Cuimin Liu | 2015 | Molecular Plant2015，8，10： | 0 |
| 11 | SoyOmics:A deeply integrated database on soybean multi-omics显示文摘Dear Editor,As one of the most important crops to supply the majority of plant oil and protein for the whole world,soybean is facing an increasing global demand.The reference genome of accession'Williams82'opened the gate of genomics research in soybean(Schmutz et al.,2010).After that,vast multi-omics data were generated,thereby providing valuable resources for functional study and molecular breeding.Parts of these data have been collected in different soybean databases(see details in Supplemental Table 1),such as Soybase(Grant et al.,2010)and SoyKB(Joshi et al.,2012),which made valuable efforts to facilitate the wide utility of these data.Nevertheless,these existing databases poorly tackled multi-omics data integration and interactivity for soybean,provoking tremendous challenges for researchers to deal with these big omics data,particularly considering the unprecedented rate of data growth(Yang et al.,2021).Thus,constructing an integrated multi-omics database for soybean that provides a one-stop solution for big data mining with friendly interactivity is highly desired. | Yucheng Liu Yang Zhang Xiaonan Liu Yanting Shen Dongmei Tian Xiaoyue Yang Shulin Liu Lingbin Ni Zhang Zhang Shuhui Song Zhixi Tian | 2023 | Molecular Plant2023，16，5： | 0 |
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