Yu Cui

Xi'an Jiaotong University

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Zhiyong Liu

Chinese Academy of Sciences

Junjie Fu

Chinese Academy of Agricultural Sciences

Qiuhong Wu

Institute of Genetics and Developmental Biology

Riliang Gu

China Agricultural University

Qixin Sun

China Agricultural University

Yong Liang

Tel Aviv University

Guoying Wang

Anhui University of Science and Technology

Jingzhong Xie

Chinese Academy of Sciences

Shuhong Ouyang

Agricultural Research Service

Yongxing Chen

Zhoukou Normal University

Cooperative Institutions

China Agricultural University

Chinese Academy of Agricultural Sciences

Chinese Academy of Sciences

Nanjing Medical University

Institute of Crop Sciences

Ministry of Agriculture and Rural Affairs

University of California, Davis

Agricultural Research Service

Zhejiang University

United States Department of Agriculture

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Mobile Messenger RNAs in Grafts of Salix matsudana Are Associated with Plant Rooting

Forests (2022)

Peng Yin Baoliang Lan Xiao Liu Yu Cui Yan Wang

Messenger RNAs exchanged between scions and rootstocks of grafted plants seriously affect their traits performance. The study goals were to identify the long-distance mRNA transmission events in grafted willows using a transcriptome analysis and to reveal the possible effects on rooting traits. The results showed that the Salix matsudana variety 9901 has better rooting ability than YJ, which reasonably improved the rooting performance of the heterologous grafts 9901 (scion)/YJ (rootstock). A transcriptome analysis showed that 2948 differentially expressed genes (DEGs) were present in the rootstock of 9901/YJ grafted plants in comparison with YJ/YJ. Among them, 692 were identified as mRNAs moved from 9901 scion based on SNP analysis of two parents. They were mostly 1001–1500 bp, had 40–45% GC contents, or had expression abundance values less than 10. However, mRNAs over 4001 bp, having 50–55% GC contents, or having expression abundance values of 10–20 were preferentially transferred. Eight mRNAs subjected to long-distance trafficking were involved in the plant hormone pathways and may significantly promote the root growth of grafted plants. In summary, heterologous grafts of Salix matsudana could efficiently influence plant rooting of the mRNAs transport from scion to rootstock.

Heterologous

10.3390/f13020354

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Effects of exogenous glucose on photochemistry activities of PSII in leaves of hawthorn under salt stress.

Chih Wu Sheng Li Hsueh T'ung Hsun (2009)

Yu Cui Lu DeGuo Yang Lei Sijun Qin Huaiyu Ma

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Genome sequencing and analysis of the model grass Brachypodium distachyon

Nature (2010)

John P. Vogel David F. Garvin Todd C. Mockler Jeremy Schmutz Daniel S. Rokhsar

Brachypodium distachyon

Brachypodium

Subfamily

10.1038/nature08747

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Citations (1,772)

Identification of the sex-linked region of Siniperca scherzeri and development of sex-specific markers

Aquaculture (2025)

Yang Li Yu Cui Xiaojun Ye Maoyuan Wang L. Xu

Identification

10.1016/j.aquaculture.2025.742231

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Dek504 Encodes a Mitochondrion-Targeted E+-Type Pentatricopeptide Repeat Protein Essential for RNA Editing and Seed Development in Maize

International Journal of Molecular Sciences (2022)

Zheyuan Wang Weiwei Chen Song Zhang Jiawen Lu Rongrong Chen

In flowering plants, RNA editing is a post-transcriptional process that selectively deaminates cytidines (C) to uridines (U) in organellar transcripts. Pentatricopeptide repeat (PPR) proteins have been identified as site-specific recognition factors for RNA editing. Here, we report the map-based cloning and molecular characterization of the defective kernel mutant dek504 in maize. Loss of Dek504 function leads to delayed embryogenesis and endosperm development, which produce small and collapsed kernels. Dek504 encodes an E+-type PPR protein targeted to the mitochondria, which is required for RNA editing of mitochondrial NADH dehydrogenase 3 at the nad3-317 and nad3-44 sites. Biochemical analysis of mitochondrial protein complexes revealed a significant reduction in the mitochondrial NADH dehydrogenase complex I activity, indicating that the alteration of the amino acid sequence at nad3-44 and nad3-317 through RNA editing is essential for NAD3 function. Moreover, the amino acids are highly conserved in monocots and eudicots, whereas the events of C-to-U editing are not conserved in flowering plants. Thus, our results indicate that Dek504 is essential for RNA editing of nad3, which is critical for NAD3 function, mitochondrial complex I stability, and seed development in maize.

Pentatricopeptide repeat

10.3390/ijms23052513

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Integrated Multi-Omics Reveals Significant Roles of Non-Additively Expressed Small RNAs in Heterosis for Maize Plant Height

International Journal of Molecular Sciences (2023)

Jie Zhang Yuxin Xie Hongwei Zhang Cheng He Xiaoli Wang

Heterosis is a complex biological phenomenon regulated by genetic variations and epigenetic changes. However, the roles of small RNAs (sRNAs), an important epigenetic regulatory element, on plant heterosis are still poorly understood. Here, an integrative analysis was performed with sequencing data from multi-omics layers of maize hybrids and their two homologous parental lines to explore the potential underlying mechanisms of sRNAs in plant height (PH) heterosis. sRNAome analysis revealed that 59 (18.61%) microRNAs (miRNAs) and 64,534 (54.00%) 24-nt small interfering RNAs (siRNAs) clusters were non-additively expressed in hybrids. Transcriptome profiles showed that these non-additively expressed miRNAs regulated PH heterosis through activating genes involved in vegetative growth-related pathways while suppressing those related to reproductive and stress response pathways. DNA methylome profiles showed that non-additive methylation events were more likely to be induced by non-additively expressed siRNA clusters. Genes associated with low-parental expression (LPE) siRNAs and trans-chromosomal demethylation (TCdM) events were enriched in developmental processes as well as nutrients and energy metabolism, whereas genes associated with high-parental expression (HPE) siRNAs and trans-chromosomal methylation (TCM) events were gathered in stress response and organelle organization pathways. Our results provide insights into the expression and regulation patterns of sRNAs in hybrids and help to elucidate their potential targeting pathways contributing to PH heterosis.

10.3390/ijms24119150

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Identification and genetic mapping of powdery mildew resistance gene MLW E27 in common wheat introgressed from Triticum dicoccoides.

Journal of Pharmaceutical and Biomedical Sciences (2010)

Wei Hua Xia Guo Jie Zhu Ziji Liu Yu Cui

Powdery mildew, caused by Blumeria graminis f. sp. tritici, is one of the most important wheat diseases worldwide. The common wheat (Triticum aestivum) line 3D256, a derivative of wild emmer (Triticum dicoccoides) with pedigree Yanda1817/WE27//Nongda015/3/941, is highly resistant to prevailing local wheat powdery mildew isolate E09 in Beijing area. Genetic analysis of the F2 population and their F3 lines, developed from 3D256 and a susceptible common wheat line Xuezao, indicated that the powdery mildew resistance in 3D256 was controlled by a single dominant gene, designa ted temporarily MlWE27. Molecular markers and the bulked segregant analysis DOI: 10.3969/j.issn.1674-7968.2010.01.002 基金项目:本研究由国家 863 项目(2006AA100102; 2006AA10Z1E9; 2006AA10Z1C4; 2006BAD01A02)、国家自然科学基金项目 (30425039; 30771341)、教育部长江学者和创新团队发展计划项目和高等学校学科创新引智计划项目(111-2-03)共同资助收稿日期:2009-01-05 接受日期:2009-03-05 农业生物技术学报 Journal of Agricultural Biotechnology were used to characterize the powdery mildew resistance gene MlWE27. Three SSR markers (Xwmc243、Xwmc154 and Xbarc318), one EST-SSR marker (Xdp358), one AFLP-derived SCAR markers (XCAUG1) and one RFLP-derived STS marker (XWG516-1) were found to be linked to the powdery mildew resistance gene MlWE27, with an order of Xdp357 MlWE27 XCAUG1 XWG516-1 Xwmc243 Xwmc154 Xbarc318 in the genetic linkage map. Using Chinese Spring nullisomic-tetrasomics, ditelosomics and deletion lines, MlWE27 was physically mapped on chromosome 2BS terminal bin 0.84-1.00. The new developed common wheat powdery mildew resistance line 3D256 and its resistance gene linked molecular markers provide useful germplasm and tool in disease resistance genes pyramiding and marker-assisted selection (MAS) in wheat breeding program.

Blumeria graminis

Common wheat

Bulked segregant analysis

Germ plasm

Marker-Assisted Selection

Molecular marker

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Citations (2)

Proteomic analysis of testes in man treated with injectable testosterone undecanoate

Cell Biology International (2008)

Yu Cui Yefei Zhu Hui Zhu Yue Jia Yanhe Lue

Reproductive Endocrinology

10.1016/j.cellbi.2008.01.180

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Brachypodium distachyon line Bd3-1 resistance is elicited by the barley stripe mosaic virus triple gene block 1 movement protein

Journal of General Virology (2012)

Mi Yeon Lee Lijie Yan Florien A. Gorter Brian Y. T. Kim Yu Cui

Barley stripe mosaic virus North Dakota 18 (ND18), Beijing (BJ), Xinjiang (XJ), Type (TY) and CV21 strains are unable to infect the Brachypodium distachyon Bd3-1 inbred line, which harbours a resistance gene designated Bsr1 , but the Norwich (NW) strain is virulent on Bd3-1. Analysis of ND18 and NW genomic RNA reassortants and RNAβ mutants demonstrates that two amino acids within the helicase motif of the triple gene block 1 (TGB1) movement protein have major effects on their Bd3-1 phenotypes. Resistance to ND18 correlates with an arginine residue at TGB1 position 390 (R 390 ) and a threonine at position 392 (T 392 ), whereas the virulent NW strain contains lysines (K) at both positions. ND18 TGB1 R390K ( ND TGB1 R390K ) and ND TGB1 T392K single substitutions, and an ND TGB1 R390K,T392K double mutation resulted in systemic infections of Bd3-1. Reciprocal ND TGB1 substitutions into NW TGB1 ( NW TGB1 K390R and NW TGB1 K392T ) failed to affect virulence, implying that K 390 and K 392 compensate for each other. In contrast, an NW TGB1 K390R,K392T double mutant exhibited limited vascular movement in Bd3-1, but developed prominent necrotic streaks that spread from secondary leaf veins. This phenotype, combined with the appearance of necrotic spots in certain ND18 mutants, and necrosis and rapid wilting of Bd3-1 plants after BJ strain ( BJ TGB1 K390,T392 ) inoculations, show that Bd3-1 Bsr1 resistance is elicited by the TGB1 protein and suggest that it involves a hypersensitive response.

Brachypodium distachyon

Movement protein

Hypersensitive response

10.1099/vir.0.045880-0

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Citations (36)

Epigenetic Mutation in a Tubulin-Folding Cofactor B (ZmTFCB) Gene Arrests Kernel Development in Maize

Plant and Cell Physiology (2022)

Yingmei Guo Yan Chen Jie Zhang Jiankun Li Kaijian Fan

Abstract Epialleles, the heritable epigenetic variants that are not caused by changes in DNA sequences, can broaden genetic and phenotypic diversity and benefit to crop breeding, but very few epialleles related to agricultural traits have been identified in maize. Here, we cloned a small kernel mutant, smk-wl10, from maize, which encoded a tubulin-folding cofactor B (ZmTFCB) protein. Expression of the ZmTFCB gene decreased in the smk-wl10 mutant, which arrested embryo, endosperm and basal endosperm transfer layer developments. Overexpression of ZmTFCB could complement the defective phenotype of smk-wl10. No nucleotide sequence variation in ZmTFCB could be found between smk-wl10 and wild type (WT). Instead, we detected hypermethylation of nucleotide CHG (where H is A, C or T nucleotide) sequence contexts and increased level of histone H3K9me2 methylation in the upstream sequence of ZmTFCB in smk-wl10 compared with WT, which might respond to the attenuating transcription of ZmTFCB. In addition, yeast two-hybrid and bimolecular fluorescence complementation assays identified a strong interaction between ZmTFCB and its homolog ZmTFCE. Thus, our work identifies a novel epiallele of the maize ZmTFCB gene, which might represent a common phenomenon in the epigenetic regulation of important traits such as kernel development in maize.

10.1093/pcp/pcac092

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