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Comparative Proteomic Analysis of Spike-Development Inhibited and Normal Tillers of Wheat 3558

Journal of Integrative Agriculture 2013年第3期12卷 398-405页

作者： ZHENG Yong-sheng MA Xiao-gang CHI De-zhao GAO Ai-nong LI Li-hui LIU Wei-hua national key facility for crop gene resources and genetic improvement/institute of crop sciences Chinese Academy of Agricultural Sciences Qinghai Academy of Agriculture and Forestry

Spike number is one of three yield-related factors and is closely related to wheat yield. In the present study, we found that the inhibited and normal tillers of the 3558 line presented phenotypic differences at the elongation stage by morphological and anatomical analysis. We then initiated a proteomic study using two-dimensional electrophoresis （2-DE） and nano- scale liquid chromatography-high-definition tandem mass spectroscopy, to isolate and identify the key proteins and metabolic pathways related to spike-development inhibition. A total of 31 differentially expressed proteins （DEPs）, which were mainly involved in cell cycle regulation, photosynthesis, glycolysis, stress response, and oxidation-reduction reactions, were isolated and identified. 14-3-3-1ike proteins and proliferating cell nuclear antigen （PCNA）, involved in cell-cycle regulation, were dramatically down-regulated in inhibited tillers compared to normal tillers. Six spots corresponding to degraded Rubisco large subunits, involved in photosynthesis, were detected in different locations of the 2-DE gels and were up-regulated in inhibited tillers. In addition, the relative levels of DEPs involved in glycolysis and oxidation- reduction reactions changed dramatically. Development was blocked or delayed at the elongation stage in the inhibited tillers of 3558. Weakened energy metabolism might be one reason that the inhibited tillers could not joint and develop into spikes. These DEPs and related metabolic pathways are significant for understanding the mechanism of spike-development inhibition and studying the spike-development process in wheat.

关键词： wheat spike-development inhibition 2-DE differentially expressed proteins

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Fine Mapping of qPAA8,a gene Controlling Panicle Apical Development in Rice

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Journal of Integrative Plant Biology 2011年第9期53卷 710-718页

作者： Zhi-Jun Cheng Bi-Gang Mao Su-Wei Gao Ling Zhang Jiu-Lin Wang Cai-Lin Lei Xin Zhang Fu-Qing Wu Xiu-Ping Guo Jianmin Wan national key facility for crop gene resources and genetic improvement Institute of Crop ScienceChinese Academy of Agriculture SciencesBeijing 100081China

In rice,one detrimental factor influencing single panicle yield is the frequent occurrence of panicle apical abortion（PAA） under unfavorable climatic *** now,no detailed genetic information has been available to avoid PAA in rice ***,we show that the occurrence of PAA is associated with the accumulation of excess hydrogen *** trait loci（QTLs） mapping for PAA in an F2 population derived from the cross of L-05261（PAA line） × IRAT129（non-PAA variety） identified seven QTLs over a logarithm of the odd（LOD） threshold of 2.5,explaining approximately 50.1% of phenotypic variance for PAA in *** of the QTLs with an increased effect from L-05261,were designated as qPAA3-1,qPAA3-2,qPAA4,qPAA5 and qPAA8,and accounted for 6.8%,5.9%,4.2%,13.0% and 12.2% of phenotypic variance,*** found that the PAA in the early heading plants was mainly controlled by ***,using the sub-populations specific for qPAA8 based on markerassisted selection,we further narrowed qPAA8 to a 37.6-kb interval delimited by markers RM22475 and *** results are beneficial for PAA gene clone.

关键词： Rice Inflorescences Phenotypes Political systems Breeds (animals) Accounting Quantitative trait loci

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Two major er1 alleles confer powdery mildew resistance in three pea cultivars bred in Yunnan Province, China

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The crop Journal 2016年第5期4卷 353-359页

作者： Suli Sun Yuhua He Cheng Dai Canxing Duan Zhendong Zhu national key facility for crop gene resources and genetic improvement Institute of Crop Science Chinese Academy of Agricultural Sciences Yunnan Academy of Agricultural sciences

Powdery mildew, caused by Erysiphe pisi D.C., is an important disease of pea(Pisum sativum L.).The use of cultivars carrying powdery mildew resistance alleles at the er1 locus is the most effective and economical means of controlling this disease. The objectives of this study were to screen Chinese elite pea cultivars for resistance to E. pisi and to identify the responsible gene at the er1 locus. Among the 37 pea cultivars tested, three(Yunwan 8, Yunwan 21, and Yunwan 23) were immune to E. pisi infection in phenotypic evaluations. The full-length cD NA sequences of the er1 candidate gene, PsM LO1, from the three resistant cultivars and control plants were analyzed. Comparison of the cD NA sequences of 10 clones revealed differences among the powdery mildew-resistant cultivars, susceptible controls, and wild-type cultivar Sprinter. The observed resistance in Yunwan 8 plants resulted from a point mutation(C → G) at position 680 of PsM LO1 that introduced a stop codon, leading to premature termination of protein synthesis. The responsible resistance allele was identified as er1–1. Powdery mildew resistance in Yunwan 21 and Yunwan 23 plants was caused by identical insertions or deletions in PsM LO1. Three distinct PsM LO1 transcripts were observed in Yunwan 21 and Yunwan 23 plants. These transcripts were characterized by a129-bp deletion and 155- and 220-bp insertions, respectively. The responsible resistance allele was identified as er1–2. We have characterized two important er1 alleles in three E. pisi-resistant pea cultivars bred in Yunnan Province, China. These cultivars represent important genetic resources for the breeding of powdery mildew-resistant pea cultivars.

关键词： Erysiphe pisi er1 Pea Powdery mildew Yunnan Province

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A novel secreted protein, NISP1, is phosphorylated by soybean Nodulation Receptor Kinase to promote nodule symbiosis

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Journal of Integrative Plant Biology 2023年第5期65卷 1297-1311页

作者： Baolan Fu Zhipeng Xu Yutao Lei Ru Dong Yanan Wang Xiaoli Guo Hui Zhu Yangrong Cao Zhe Yan State key Lab of Agricultural Microbiology Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhan 430070China State key Lab of Agricultural Microbiology College of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan 430070China national key facility for gene resources and genetic improvement Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing100081China

Nodulation Receptor Kinase(NORK) functions as a co-receptor of Nod factor receptors to mediate rhizobial symbiosis in legumes, but its direct phosphorylation substrates that positively mediate root nodulation remain to be fully ***, we identified a GmNORK-Interacting Small Protein(GmNISP1) that functions as a phosphorylation target of GmNORK to promote soybean nodulation. GmNORKα directly interacted with and phosphorylated GmNISP1. Transcription of GmNISP1 was strongly induced after rhizobial infection in soybean roots and nodules. GmNISP1 encodes a peptide containing 90 amino acids with a “DY” consensus motif at its ***1 protein was detected to be present in the apoplastic space. Phosphorylation of GmNISP1 by GmNORKα could enhance its secretion into the apoplast. Pretreatment with either purified GmNISP1 or phosphorylation-mimic GmNISP1~(12D) on the roots could significantly increase nodule numbers compared with the treatment with phosphorylation-inactive GmNISP1~(12A).The data suggested a model that soybean GmNORK phosphorylates GmNISP1 to promote its secretion into the apoplast, which might function as a potential peptide hormone to promote root nodulation.

关键词： legume-rhizobia symbiosis Nodulation Receptor Kinase protein phosphorylation root nodule symbiosis soybean

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Genome sequencing reveals the evolution and pathogenic mechanisms of the wheat sharp eyespot pathogen Rhizoctonia cerealis

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The crop Journal 2023年第2期11卷 405-416页

作者： Lin Lu Feilong Guo Zhichao Zhang Xiuliang Zhu Yu Hao Jinfeng Yu Wenwu Ye Zengyan Zhang national key facility for crop gene resources and genetic improvement/key Laboratory of Biology and genetic improvement of Triticeae crops Ministry of Agriculture and Rural Affairs of the People’s Republic ChinaInstitute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China Department of Plant Pathology/key Laboratory of Soybean Disease and Pest Control(Ministry of Agriculture and Rural Affairs of the People’s Republic China) The Key Laboratory of Plant ImmunityNanjing Agricultural UniversityNanjing 210095JiangsuChina College of Plant Protection Shandong Agricultural UniversityTai’an 271018ShandongChina

The necrotrophic fungus Rhizoctonia cerealis is the causal agent of devastating diseases of cereal crops including wheat(Triticum aestivum).We present a high-quality genome assembly of *** Rc207,a virulent strain causing wheat sharp *** assembly(56.36 Mb)is composed of 17.87%repeat sequences and 14,433 predicted protein-encoding *** Rc207 genome encodes a large and diverse set of genes involved in pathogenicity,especially rich in those encoding secreted proteins,carbohydrateactive enzymes(CAZymes),peptidases,nucleases,cytochrome P450,and secondary metabolismassociated *** secretory protein-encoding genes,including CAZymes,peroxygenases,dehydrogenases,and cytochrome P450,were up-regulated during fungal infection of *** identified 831 candidate secretory effectors and validated the functions of 10 up-regulated candidate effector *** them,nine were confirmed as necrotrophic pathogen’s effectors promoting fungal *** potential mobile or plastic genomic regions rich in repeat sequences suggest their roles in fungal adaption and virulence-associated genomic *** study provides valuable resources for further comparative and functional genomics on important fungal pathogens,and provides essential tools for development of effective disease control strategies.

关键词： Effector Evolution Pathogenesis Rhizoctonia cerealis Secretory proteins Sharp eyespot Wheat(Triticum aestivum)

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Breeding design in wheat by combining the QTL information in a GWAS panel with a general genetic map and computer simulation

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The crop Journal 2023年第6期11卷 1816-1827页

作者： Xiaobo Wang Weiwei Mao Yongfa Wang Hongyao Lou Panfeng Guan Yongming Chen Huiru Peng Jiankang Wang State key Laboratory of crop gene resources and Breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China Frontiers Science Center for Molecular Design Breeding(MOE) Key Laboratory of Crop Heterosis and UtilizationKey Laboratory of Crop Genetic ImprovementCollege of Agronomy and BiotechnologyChina Agricultural UniversityBeijing 100193China Hainan Yazhou Bay Seed Laboratory Sanya 572025HainanChina national Nanfan Research institute(Sanya) Chinese Academy of Agricultural SciencesSanya 572024HainanChina

A large amount of genome-wide association study(GWAS)panels together with quantitative-trait locus(QTL)information associated with breeding-targeted traits have been described in wheat(Triticum aestivum L.).However,the application of mapping results from a GWAS panel to conventional wheat breeding remains a *** this study,we first report a general genetic map which was constructed from 44 published linkage *** permits the estimation of genetic distances between any two genetic loci with physical map positions,thereby unifying the linkage relationships between QTL,genes,and genomic markers from multiple genetic ***,we describe QTL mapping in a wheat GWAS panel of 688 accessions,identifying 77 QTL associated with 12 yield and grain-quality *** these QTL have known physical map positions,they could be mapped onto the general ***,we present a design approach to wheat breeding by using known QTL information and computer *** crosses between parents in the GWAS panel may be evaluated by the relative frequency of the target genotype,trait correlations in simulated progeny populations,and genetic gain of selected *** is possible to simultaneously improve yield and grain quality by suitable parental selection,progeny population size,and progeny selection *** the design approach will allow identifying the most promising crosses and selection schemes in advance of the field experiment,increasing predictability and efficiency in wheat breeding.

关键词： Wheat breeding Breeding design GWAS panel general genetic map Computer simulation

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Nonfunctional alleles of long-day suppressor genes independently regulate flowering time

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Journal of Integrative Plant Biology 2016年第6期58卷 540-548页

作者： Xiao-Ming Zheng Li Feng Junrui Wang Weihua Qiao Lifang Zhang Yunlian Cheng Qingwen Yang national key facility for crop gene resources and genetic improvement Institute of Crop Sciences the Chinese Academy of Agricultural Sciences College of Life sciences Hubei University

Due to the remarkable adaptability to various environments, rice varieties with diverse flowering times have abeen domesticated or improved from Oryza *** knowledge of the genetic factors controlling flowering time will facilitate understanding the adaptation mechanism in cultivated rice and enable breeders to design appropriate genotypes for distinct preferences. In this study,four genes（Hd1, DTH8, Ghd7 and OsPRR37） in a rice long-day suppression pathway were collected and sequenced in 154, 74,69 and 62 varieties of cultivated rice（Oryza sativa）respectively. Under long-day conditions, varieties with nonfunctional alleles flowered significantly earlier than those with functional alleles. However, the four genes have different genetic effects in the regulation of flowering time： Hd1 and Os PRR37 are major genes that generally regulate rice flowering time for all varieties, while DTH8 and Ghd7 only regulate regional rice varieties. Geographic analysis and network studies suggested that the nonfunctional alleles of these suppression loci with regional adaptability were derived recently and independently. Alleles with regional adaptability should be taken into consideration for genetic improvement. The rich genetic variations in these four genes,which adapt rice to different environments, provide the flexibility needed for breeding rice varieties with diverse flowering times.

关键词： Domestication flowering time long-day suppressor genes loss-function allele rice

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genetic characteristics of a wheat founder parent and a widely planted cultivar derived from the same cross

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Journal of Integrative Agriculture 2018年第4期17卷 775-785页

作者： CHANG Li-fang LI Hui-hui WU Xiao-yang LU Yu-qing ZHANG Jin-peng YANG Xin-ming LI Xiu-quan LIU Wei-hua LI Li-hui national key facility for gene resources and genetic improvement/key Laboratory of crop Germplasm Utilization Ministry of Agriculture/Institute of Crop Sciences Chinese Academy of Agricultural Sciences

Founder parents have contributed significantly to the improvement of wheat breeding and production. In order to investigate the genetic characteristics of founder parents and widely planted cultivars, Mazhamai(M), Biyumai(B) and six sibling lines(BM1–6) derived from the cross M×B were phenotyped for eight yield-related traits over multiple years and locations and genotyped using the the wheat 90 K single nucleotide polymorphism(SNP) assay. BM4 has been used as a founder parent, and BM1 has been widely planted, whereas BM2, 3, 5, and 6 have not been used extensively for breeding or planting in China. Phenotypic comparisons revealed that BM4 and BM1 displayed a better overall performance than the other sibling lines. BM1 showed higher thousand-grain weight than BM4, whereas BM4 exhibited lower coefficient of variation for most of the yield-related traits across different years and locations, indicating that BM4 was widely adaptable and more stable in different environments. SNP analysis revealed that BM4 and BM1 inherited similar proportions of the M genome but are dissimilar to BM2, 3, 5, and 6. Both BM1 and BM4 have specific alleles that differ from the other BM lines, and most of these alleles are concentrated in specific chromosomal regions that are found to associate with favorable QTLs, these SNPs and their surrounding regions may carry the genetic determinants important for the superior performance of the two lines. But BM4 has more genetic diversity than BM1 with more specific alleles and pleiotropic regions, indicating that the genome of BM4 may be more complex than the other sibling lines and has more favorable gene resources. Our results provide valuable information that can be used to select elite parents for wheat and self-pollinating crop breeding.

关键词： wheat founder parents widely planted cultivars SNP

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The Statistical Power of Inclusive Composite Interval Mapping in Detecting Digenic Epistasis Showing Common F_2 Segregation Ratios

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Journal of Integrative Plant Biology 2012年第4期54卷 270-279页

作者： Luyan Zhang Huihui Li Jiankang Wang institute of crop sciences The National Key Facility for Crop Gene Resources and Genetic Improvementand CIMMYT ChinaChinese Academy of Agricultural SciencesBeijing 100081China

Epistasis is a commonly observed genetic phenomenon and an important source of variation of complex traits, which could maintain additive variance and therefore assure the long-term genetic gain in breeding. Inclusive composite interval mapping （ICIM） is able to identify epistatic quantitative trait loci （QTLs） no matter whether the two interacting QTLs have any additive effects. In this article, we conducted a simulation study to evaluate detection power and false discovery rate （FDR） of ICIM epistatic mapping, by considering F2 and doubled haploid （DH） populations, different F2 segregation ratios and population sizes. Results indicated that estimations of QTL locations and effects were unbiased, and the detection power of epistatic mapping was largely affected by population size, heritability of epistasis, and the amount and distribution of genetic effects. When the same likelihood of odd （LOD） threshold was used, detection power of QTL was higher in F2 population than power in DH population; meanwhile FDR in F2 was also higher than that in DH. The increase of marker density from 10 cM to 5 cM led to similar detection power but higher FDR. In simulated populations, ICIM achieved better mapping results than multiple interval mapping （MIM） in estimation of QTL positions and effect. At the end, we gave epistatic mapping results of ICIM in one actual population in rice （Oryza sativa L.）.

关键词： Epistasis false discovery rate inclusive composite interval mapping power analysis simulation study.

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A dCAPS marker developed from a stress associated protein gene TaSAP7-B governing grain size and plant height in wheat

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Journal of Integrative Agriculture 2018年第2期17卷 276-284页

作者： WANG Yi-xue XU Qiao-fang CHANG Xiao-ping HAO Chen-yang LI Run-zhi JING Rui-lian College of Agronomy Shanxi Agricultural University national key facility for crop gene resources and genetic improvement/institute of crop sciences Chinese Academy of Agricultural Sciences

Stress associated proteins（SAPs） are the A20/AN1 zinc-finger proteins which confer to abiotic stresses in plants. In this study, TaSAP7-B, including two AN1 domains, was isolated from B genome of wheat（Triticum aestivum L.）. Sequencing analysis on TaSAP7-B illustrated one In Del（insertion-deletion） and one SNP（single nucleotide polymorphism） in the promoter region while no diversity was observed in the coding region. On the basis of SNP in the promoter region（–260 bp）, a dCAPS（derived cleaved amplified polymorphic sequences） marker SNP-260 was developed for TaSAP7-B. Using a natural population consisting of 262 wheat accessions, significant associations were detected between the marker SNP-260 and agronomic traits, such as plant height（PH）, peduncle length（PL）, length of penultimate internode（LPI）, number of spike per plant（NSP）, and 1 000-grain weight（TGW）. Two genotypes were identified using marker SNP-260 in the natural population. Among them, the genotypes possessing C allele exhibited a higher TGW and shorter PH than the T genotypes. Hence, base C was considered as the superior allele. The dCAPS marker of TaSAP7-B can be instrumental for marker-assisted selection for high grain size and short plant height.

关键词： Triticum aestivum L. TaSAP7-B single nucleotide polymorphism association analysis plant height 1000-grain weight

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