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Identification of Quantitative Trait Loci Affecting Hemicellulose Characteristics Based on Cell Wall Composition in a Wild and Cultivated Rice Species

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Molecular plant 2012年第1期5卷 162-175页

作者： Si-Ju Zhang Xue-Qin Song Bai-Sheng YU Bao-Cai Zhang Chuan-Qing Sun J.Paul Knox Yi-Hua Zhou state key laboratory of plant Genomics Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeiiing 100101China state key laboratory of agro-biotechnology and department of plant genetics and breeding China Agricultural UniversityBeijing 100094China Centre for plant Sciences Faculty of Biological SciencesUniversity of LeedsLeeds LS29JTUK

Cell wall hemicellulosic polysaccharides are structurally complex and diverse. Knowledge about the synthesis of cell wall hemicelluloses and their biological roles is limited. Quantitative trait loci （QTL） mapping is a helpful tool for the dissection of complex phenotypes for gene identification. In this study, we exploited the natural variation in cell wall monosaccharide levels between a common wild rice, Yuanj, and an elite indica cultivar, Teqing, and performed QTL map- ping with their introgression lines （ILs）. Chemical analyses conducted on the culms of Yuanj and TeqJng showed that the major alterations are found in glucose and xylose levels, which are correlated with specific hemicellulosic polymers. Gly- cosidic linkage examination revealed that, in Yuanj, an increase in glucose content results from a higher level of mixed linkage I^-glucan （MLG）, whereas a reduction in xylose content reflects a low level of xylan backbone and a varied arabi- noxylan （AX） structure. Seventeen QTLs for monosaccharides have been identified through composition analysis of the culm residues of 95 core ILs. Four major QTLs affecting xylose and glucose levels are responsible for 19 and 21% of the phenotypic variance, respectively. This study provides a unique resource for the genetic dissection of rice cell wall forma- tion and remodeling in the vegetative organs.

关键词： Quantitative trait loci cell wall composition hemicellulose rice introgression lines wild rice species.

The proposed role of MSL-lncRNAs in causing sex lability of female poplars

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Horticulture Research 2023年第5期10卷 29-37页

作者： Jinyan Mao Suyun Wei Yingnan Chen Yonghua Yang Tongming Yin state key laboratory for Tree genetics and breeding Co-Innovation Center for Sustainable Forestry in Southern ChinaKey Laboratory of Tree Genetics and Biotechnology of Educational Department of ChinaKey Laboratory of Tree Genetics and Breeding of Jiangsu ProvinceNanjing Forestry UniversityNanjing210037China Institute for plant Molecular Biology State Key Laboratory of Pharmaceutical BiotechnologySchool of Life SciencesNanjing UniversityNanjing 210023China

Labile sex expression is frequently observed in dioecious plants,but the underlying genetic mechanism remains largely *** plasticity is also observed in many Populus *** we carried out a systematic study on a maleness-promoting gene,MSL,detected in the Populus deltoides *** results showed that both strands of MSL contained multiple cis-activating elements,which generated long non-coding RNAs(lncRNAs)promoting *** female *** did not have the male-specific MSL gene,a large number of partial sequences with high sequence similarity to this gene were detected in the female poplar *** on sequence alignment,the MSL sequence could be divided into three partial sequences,and heterologous expression of these partial sequences in Arabidopsis confirmed that they could promote *** activation of the MSL sequences can only result in female sex lability,we propose that MSL-lncRNAs might play a role in causing sex lability of female poplars.

关键词： female similarity alignment

OS1 functions in the allocation of nutrients between the endosperm and embryo in maize seeds

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Journal of Integrative plant Biology 2019年第6期61卷 706-727页

作者： Weibin Song Jinjie Zhu Haiming Zhao Yingnan Li Jiangtao Liu Xiangbo Zhang Liangliang Huang Jinsheng Lai state key laboratory of agrobiotechnology and National Maize Improvement Center Department of Plant Genetics and Breeding ChinaAgricultural University

Uncovering the genetic basis of seed develop-ment will provide useful tools for improving both crop yield and nutritional value, However, the genetic regulatory networks of maize (Zea mays) seed development remain largely unknown. The maize opaque endosperm and small germ 1 (osl) mutant has opaque endosperm and a small embryo,Here, we cloned OSi1 and show that it encodes a putative transcription factor containing an RWP-RK domain-Transcriptional analysis indicated that OSi1 expression is elevated in early endosperm development, especially in the basal endosperm transfer layer (BETL), conducting zone (CZ), and central starch endospcrm (CSE) cells. RNA sequencing (RNA-Seq) analysis of the osi mutant revealed sharp downregulation of certain genes in specific cell types, including ZmMRP-1 and Megl in BETL cells and a majority of zein-and starch-related genes in CSE cells. Using a haploid induction system, we show that wild-type endosperm could rescue the smaller size of osi embryo, which suggests that nutrients are allocated by tho wild type endosperm. Therefore, our dsta imply that the network regulated by 051 accomplishes a key step in nutrient allocation between endosperm and embryo within maize seeds. Identification of this network will help uncover the mechanisms regulating the nutritional balance between endosperm and embryo.

关键词： 0S1 functions the allocation of nutrients between the endosperm and embryo in maize seeds^FA

Physiological,transcriptome and gene functional analysis provide novel sights into cadmium accumulation and tolerance mechanisms in kenaf

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Journal of Environmental Sciences 2024年第3期137卷 500-514页

作者： Shan Cao Meng Wang Jiao Pan Dengjie Luo Samavia Mubeen Caijin Wang Jiao Yue Xia Wu Qijing Wu Hui Zhang Canni Chen Muzammal Rehman Sichen Xie Ru Li Peng Chen Guangxi key laboratory of agro-environment and Agric-products safety Key Laboratory of Plant Genetics and BreedingCollege of AgricultureGuangxi UniversityNanning 530004China state key laboratory for Conservation and Utilization of Subtropical agro-bioresources College of Life Science and TechnologyGuangxi UniversityNanning 530004China

Kenaf is considered to have great potential for remediation of heavy metals in ***,studies on molecular mechanisms of root Cd accumulation and tolerance are still *** this study,two differently tolerant kenaf cultivars were selected as materials and the physiological and transcriptomic effects were evaluated under Cd *** study showed that 200μmol/L CdCl_(2) treatment triggered the reactive oxygen species(ROS)explosion and membrane lipid *** with the Cd-sensitive cultivar‘Z',the Cd-tolerant cultivar‘F'was able to resist oxidative stress in cells by producing higher antioxidant enzyme activities and increasing the contents of ascorbic acid(AsA)and glutathione(GSH).The root cell wall of‘F'exhibited higher polysaccharide contents under Cd treatment,providing more Cd-binding *** were 3,439 differentially expressed genes(DEGs)that were co-regulated by Cd treatment in two *** biosynthesis and plant hormone signal transduction pathways were significantly enriched by functional annotation *** associated with pectin,cellulose,and hemi-cellulose metabolism were involved in Cd chelation of root cell wall;V-ATPases,ABCC3 and Narmp3 could participated in vacuolar compartmentalization of Cd;PDR1 was responsible for Cd effux;the organic acid transporters contributed to the absorption of Cd in *** genes might have played key roles in kenaf Cd tolerance and Cd ***,HcZIP2 was identified to be involved in Cd uptake and transport in *** findings provide a deeper understanding of the molecular pathways underlying Cd accumulation and detoxification mechanisms in kenaf.

关键词： Kenaf Cd stress Physiological Transcriptome HcZIP2

Alteration of Terminal Heterochromatin and Chromosome Rearrangements in Derivatives of Wheat-Rye Hybrids

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Journal of genetics and Genomics 2013年第8期40卷 413-420页

作者： Shulan Fu Zhenling Lv Xiang Guo Xiangqi Zhang Fangpu Han state key laboratory of plant Cell and Chromosome Engineering Institute of Geneticsand Developmental BiologyChinese Academy of Sciences key laboratory of plant breeding and genetics Sichuan Agriculture University

Wheat-rye addition and substitution lines and their self progenies revealed variations in telomeric heterochromatin and centromeres, Furthermore, a mitotically unstable dicentric chromosome and stable multicentric chromosomes were observed in the progeny of a Chinese Spring-lmperial rye 3R addition line. An unstable multicentric chromosome was found in the progeny of a 6R/6D substitution line. Drastic variation of terminal heterochromatin including movement and disappearance of terminal heterochromatin occurred in the progeny of wheat- rye addition line 3R, and the 5RS ditelosomic addition line. Highly stable minichromosomes were observed in the progeny ofa monosomic 4R addition line, a ditelosomic 5RS addition line and a 6R/6D substitution line. Minichromosomes, with and without the FISH signals for telomeric DNA （TTTAGGG）n, derived from a monosomic 4R addition line are stable and transmissible to the next generation. The results indicated that centromeres and terminal heterochromatin can be profoundly altered in wheat-rye hybrid derivatives.

关键词： Wheat-Rye addition lines Chromosome rearrangements Multiple centromeres Minichromosomes Heterochromatin

Efficiency and Inheritance of Targeted Mutagenesis in Maize Using CRISPR-Cas9

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Journal of genetics and Genomics 2016年第1期43卷 25-36页

作者： Jinjie Zhu Ning Song Silong Sun Weilong Yang Haiming Zhao Weibin Song Jinsheng Lai state key laboratory of agrobiotechnology and National Maize Improvement Center Department of Plant Genetics and Breeding China Agricultural University

CRISPR/Cas （clustered regularly interspaced short palindromic repeats/CR1SPR-associated proteins） is an adaptive immune system in bacteria and archaea to defend against invasion from foreign DNA fragments. Recently, it has been developed as a powerful targeted genome editing tool for a wide variety of species. However, its application in maize has only been tested with transiently expressed somatic cells or with a limited number of stable transgenic To plants. The exact efficiency and specificity of the CRISPR/Cas system in the highly complex maize genome has not been documented yet. Here we report an extensive study of the well-studied type II CRISPR-Cas9 system for targeted genome editing in maize, with the codon-optimized Cas9 protein and the short non-coding guide RNA generated through a functional maize U6 snRNA promoter. Targeted gene mutagenesis was detected for 90 loci by maize protoplast assay, with an average cleavage efficiency of 10.67 %. Stable knockout transformants for maize phytoene synthase gene （PSYI） were obtained. Mutations occurred in germ ceils can be stably inherited to the next generation. Moreover, no off-target effect was detected at the computationally predicted putative off-target loci. No significant difference between the transcriptomes of the Cas9 expressed and non-expressed lines was detected. Our results confirmed that the CRISPR-Cas9 could be successfully applied as a robust targeted genome editing system in maize.

关键词： CRISPR-Cas9 Targeted mutagenesis Heritability Maize

Defective Kernel 39 encodes a PPR protein required for seed development in maize

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Journal of Integrative plant Biology 2018年第1期60卷 45-64页

作者： Xiaojie Li Wei Gu Silong Sun Zongliang Chen Jing Chen Weibin Song Haiming Zhao Jinsheng Lai state key laboratory of agrobiotechnology and National Maize Improvement Center Department of Plant Genetics and Breeding China Agricultural University

RNA editing is a posttranscriptional process that is important in mitochondria and plastids of higher plants. All RNA editing-specific trans-factors reported so far belong to PLS-class of pentatricopeptide repeat(PPR)proteins. Here, we report the map-based cloning and molecular characterization of a defective kernel mutant dek39 in maize. Loss of Dek39 function leads to delayed embryogenesis and endosperm development, reduced kernel size, and seedling lethality. Dek39 encodes an E subclass PPR protein that targets to both mitochondria and chloroplasts, and is involved in RNA editing in mitochondrial NADH dehydrogenase3(nad3) at nad3-247 and nad3-275. C-to-U editing of nad3-275 is not conserved and even lost in Arabidopsis, consistent with the idea that no close DEK39 homologs are present in Arabidopsis. However, the amino acids generated by editing nad3-247 and nad3-275 are highly conserved in many other plant species, and the reductions of editing at these two sites decrease the activity of mitochondria NADH dehydrogenase complex I,indicating that the alteration of amino acid sequence is necessary for Nad3 function. Our results indicate that Dek39 encodes an E sub-class PPR protein that is involved in RNA editing of multiple sites and is necessary for seed development of maize.

关键词： PPR Defective Kernel 39 encodes a PPR protein required for seed development in maize

Function identification of miR159a,a positive regulator during poplar resistance to drought stress

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Horticulture Research 2023年第12期10卷 120-136页

作者： Tiantian Fu Chun Wang Yuzhang Yang Xiaoqian Yang Jing Wang Lichun Zhang Zeqi Wang Yanwei Wang state key laboratory of Tree genetics and breeding National Engineering Research Center of Tree Breeding and Ecological RestorationKey Laboratory of Genetics and Breeding in Forest Trees and Ornamental PlantsMinistry of EducationThe Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland AdministrationCollege of Biological Sciences and BiotechnologyBeijing Forestry UniversityBeijing 100083China

Drought seriously affects the growth and development of ***159 is a highly conserved and abundant microRNA family that plays a crucial role in plant growth and stress ***,studies of its function in woody plants are still ***,the expression of miR159a was significantly upregulated after drought treatment in poplar,and the overexpression of miR159a(OX159a)significantly reduced the open area of the stomata and improved water-use efficiency in *** drought treatment,OX159a lines had better scavenging ability of reactive oxygen species and damage of the membrane system was less than that in wild-type *** was the target gene of miR159a,as verified by psRNATarget prediction,RT-qPCR,degradome sequencing,and 5′rapid amplification of cDNA ends(5′RACE).Additionally,miR159a-short tandem target mimic suppression(STTM)poplar lines showed increased sensitivity to drought *** analysis comparing OX159a lines with wild-type lines revealed upregulation of a series of genes related to response to water deprivation and metabolite ***,drought-responsive miR172d and miR398 were significantly upregulated and downregulated respectively in OX159a *** investigation demonstrated that miR159a played a key role in the tolerance of poplar to drought by reducing stomata open area,increasing the number and total area of xylem vessels,and enhancing water-use efficiency,and provided new insights into the role of plant miR159a and crucial candidate genes for the molecular breeding of trees with tolerance to drought stress.

关键词： poplar breeding drought

Identification and Characterization of the Populus AREB/ABF Subfamily

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Journal of Integrative plant Biology 2013年第2期55卷 177-186页

作者： Lexiang Ji Jia Wang Meixia Ye Ying Li Bin Guo Zhong Chen Hao Li Xinmin An National Engineering laboratory for Tree breeding NDRC key laboratory of genetics and breeding in Forest Trees and Ornamental plants MOE The Tree and Ornamental plant breeding and biotechnology laboratory SFA College of Biological Sciences and Biotechnology Beijing Forestry University

Abscisic acid （ABA） is a major plant hormone that plays an important role in responses to abiotic stresses. The ABA-responsive element binding protein/ABRE-binding factor （AREB/ABF） gene subfamily contains crucial transcription factors in the ABA-mediated signaling pathway. In this study, a total of 14 putative AREB/ABF members were identified in the Populus trichocarpa Torr. ＆ Gray. genome using five AREB/ABF amino acid sequences from Arabidopsis thaliana L. as probes. The 14 putative Populus subfamily members showed high protein similarities, especially in the basic leucine zipper （bZIP） domain region. A neighbor-joining analysis combined with gene structure data revealed homology among the 14 genes. The expression patterns of the Populus AREB/ABF subfamily suggested that the most abundant transcripts of 11 genes occurred in leaf tissues, while two genes were most transcribed in root tissues. Significantly, eight Populus AREB/ABF gene members were upregulated after treatment with 100 t^M exogenous ABA, while the other six members were downregulated. We identified the expression profiles of the subfamily members in Populus tissues and elucidated different response patterns of Populus AREB/ABF members to ABA stress. This study provided insight into the roles of Populus AREB/ABF homologues in plant response to abiotic stresses.

关键词： Arabidopsis thafiana Populus AREB/ABF bioinformatics qRT-PCR.