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An Integrated Quantitative Trait Locus Map of Oil Content in Soybean,Glycine max(L.) Merr.,Generated Using a Meta-Analysis Method for Mining Genes

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Agricultural Sciences in china 2011年第11期10卷 1681-1692页

作者： QI Zhao-ming HAN Xue SUN Ya-nan WU Qiong SHAN Da-peng DU Xiang-yu LIU Chun-yan JIANG Hong-wei HU Guo-hua CHEN Qing-shan Soybean Research Institute Northeast Agricultural University Harbin 150030 P.R. China Crop Research and Breeding Center of Land-Reclamation Harbin 150090 P.R.China Heilongjiang Academy of Agricultural Sciences Suihua Institute Suihua 152052 P.R.China

Soybean is a major cash crop in the world, and its oil content was one of the very important traits. Therefore, the study of gene mapping for oil content in soybean is very important for breeding application. At present, at least 130 QTL loci for soybean oil content have been published; however, the mapping results of oil content were dispersed and a coalescent public map should be established to integrate the published QTLs, and to more efficiently mine genes based on the meta- analysis method of the bioinformatics tools. This study was to construct an integrated map of QTLs for soybean oil content and accelerate the application of bioinformation resource related to oil content improvement in the practice of soybean breeding. We collected information of 130 QTLs reported over the past 20 yr for soybean oil content and used the Software BioMercator 2.1 to project QTLs from their own maps onto a reference map, which was an early-integrated map constructed by Song （2004） for oil-content quantitative trait loci （QTLs） in soybean. Gene mining was performed based on the meta-analysis by running the local ver. GENSCAN and InterProScan. The confidence interval of QTLs was efficaciously narrowed using the meta-analysis method, and 25 consensus QTLs were mapped on the reference map. Using a local version of GENSCAN, 12 805 sequences in the consensus QTL intervals were predicted. With BLAST, these predicted sequences were aligned to gene sequences from the International Protein Index database using InterProScan locally. Thirteen predicted genes were in the class of the geme ontology （GO） accession （0006631）, which were involved in the fatty acid metabolic process. These genes were analyzed using BLAST at the NCBI website to examine whether they were related to oil content. Six genes were found in the oil-synthesis pathway. Twenty-five consensus QTLs and six genes were found in the oil-synthesis pathway. These results would lay the foundation for marker-assisted selection and

关键词： soybean oil content meta-analysis consensus QTL gene ontology (GO)

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A callus transformation system for gene functional studies in soybean

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Journal of Integrative Agriculture 2017年第9期16卷 1913-1922页

作者： XU Kun ZHANG Xiao-mei FAN Cheng-ming CHEN Fu-lu ZHU Jin-long ZHANG Shi-long CHEN Qing-shan FU Yong-fu Key Lab of Soybean Biology(Beijing) Ministry of Agriculture/National Key Facility of Crop Gene Resource and Genetic Improvement/Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081P.R.China Bijie Agricultural Science Research Institute of Guizhou Bijie 551700P.R.China College of Agriculture Northeast Agricultural UniversityHarbin 150030P.R.China

Obtaining transgenic plants is a common method for analyzing gene function. Unfortunately, stable genetic transformation is difficult to achieve, especially for plants（e.g., soybean）, which are recalcitrant to genetic transformation. Transient expression systems, such as Arabidopsis protoplast, Nicotiana leaves, and onion bulb leaves are widely used for gene functional studies. A simple method for obtaining transgenic soybean callus tissues was reported recently. We extend this system with simplified culture conditions to gene functional studies, including promoter analysis, expression and subcellular localization of the target protein, and protein-protein interaction. We also evaluate the plasticity of this system with soybean varieties, different vector constructs, and various Agrobacterium strains. The results indicated that the callus transformation system is efficient and adaptable for gene functional investigation in soybean genotype-, vector-, and Agrobacterium strain-independent modes. We demonstrated an easy set-up and practical homologous strategy for soybean gene functional studies.

关键词： soybean callus gene function studies transformation

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Wheat Elongator subunit 4 is required for epigenetic regulation of host immune response to Rhizoctonia cerealis

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The Crop Journal 2020年第4期8卷 565-576页

作者： Kai Wang Wei Rong Yuping Liu Hui Li Zengyan Zhang The National Key Facility for Crop Gene Resources and Genetic Improvement Key Laboratory of Biology and Genetic Improvement of Triticeae CropsMinistry of AgricultureInstitute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China Institute of Cereal and Oil Crops Hebei Academy of Agriculture and Forestry SciencesShijiazhuang 050035HebeiChina

Wheat(Triticum aestivum)is necessary for global food *** necrotrophic fungus Rhizoctonia cerealis is the causal agent of sharp eyespot,a devastating disease of *** the Elongator complex,composed of six subunits,has been implicated in growth,development,and innate immunity in Arabidopsis,little is known about its functions in wheat or the involvement of Elongator subunit 4 in histone *** this study,we identified the Elongator subunit 4-encoding gene Ta ELP4 in wheat resistance response to ***,and verified that Ta ELP4 increased histone acetylation in regions of defenseassociated genes and regulated immune response to *** ELP4 was more highly expressed in resistant than in susceptible wheat cultivars and was induced in resistant wheat after infection by *** of Ta ELP4 in wheat not only impaired resistance to ***,but also repressed both histone acetylation levels and the expression of a subset of defense-associated genes,including Ta AGC1,Ta CPK7-D,Ta PAL5,Defensin,and *** expression of Ta ELP4 in Arabidopsis increased histone acetylation levels in coding and promoter regions of defense genes and increased their transcription,leading to increased resistance to infection by the pathogen Botrytis *** results suggest that Ta ELP4 positively regulates innate immune responses of wheat and Arabidopsis to *** and *** by increasing histone acetylation levels of defense-associated genes and increasing their *** study has shed light on the involvement of Ta ELP4 in histone acetylation and resistance response against *** ELP4 may potentially be used to improve wheat resistance against sharp eyespot.

关键词： Wheat resistance Arabidopsis

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Identification and characterization of putative CIPK genes in maize

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Journal of Genetics and Genomics 2011年第2期38卷 77-87页

作者： Xifeng Chen Zhimin Gu Dedong Xin Liang Hao Chengjie Liu Ji Huang Bojun Ma Hongsheng Zhang State Key Lab of Crop Genetics and Germplasm Enhaneement Nanjing Agricultural University Naajing 210095 China College of Chemistry and Life Sciences Zhejiang Normal University Jinhua 321004 China

Calcium （Ca） plays a crucial role as a second messenger in intracellular signaling elicited by developmental and environmental cues. Calcineurin B-like proteins （CBLs） and their target proteins, CBL-interacting protein kinases （CIPKs） have emerged as a key Ca^2＋-mediated signaling network in response to stresses in plants. Bioinformatic analysis was used to identify 43 putative ZmC1PK （Zea mays CIPK） genes in the genome of maize inbred line B73. Based on gene structures, these ZmCIPKs were divided into intron-rich and intron-poor groups. Phylogenetic analysis indicated that the ZmCIPK family had a high evolutionary relationship with the rice CIPK family of 30 members. Microarray data and RT-PCR assay showed that ZrnCIPK genes transcriptionally responded to abiotic stresses, and that 24, 31, 20 and 19 ZmCIPK genes were up-regulated by salt, drought, heat and cold stresses, respectively. There were different expression patterns of ZmCIPKs between cold-tolerant inbred line B73 and cold-sensitive inbred line Mo17 under cold stress. Our findings will aid further molecular dissection of biological functions of the CIPKs in maize, and provide new insight into the CBL--CIPK signaling network in plants.

关键词： Maize CIPK family Evolution Expression Abiotic stresses

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Genome editing in large animals: current status and future prospects

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National Science Review 2019年第3期6卷 402-420页

作者： Jianguo Zhao Liangxue Lai Weizhi Ji Qi Zhou State Key Laboratory of Stem Cell and Reproductive Biology Institute of ZoologyChinese Academy of Sciences Savaid Medical School University of Chinese Academy of Sciences Institute of Stem Cell and Regeneration Chinese Academy of Sciences South china Institute for Stem Cell Biology and Regenerative Medicine Guangzhou Institutes of Biomedicine and Health Chinese Academy of Sciences Yunnan Key Laboratory of Primate Biomedicine Research Institute of Primate Translational Medicine Kunming University of Science and Technology CAS Center for Excellence in Brain Science and Intelligence Technology (CEBSIT)

Large animals(non-human primates, livestock and dogs) are playing important roles in biomedical research, and large livestock animals serve as important sources of meat and milk. The recently developed programmable DNA nucleases have revolutionized the generation of gene-modified large animals that are used for biological and biomedical research. In this review, we briefly introduce the recent advances in nuclease-meditated gene editing tools, and we outline these editing tools’ applications in human disease modeling, regenerative medicine and agriculture. Additionally, we provide perspectives regarding the challenges and prospects of the new genome editing technology.

关键词： genome editing large animal disease model agriculture xenotransplantation

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Prokaryotic Expression of Rice Ospgip1 Gene and Bioinformatic Analysis of Encoded Product

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Rice science 2011年第4期18卷 250-256页

作者： Xi-jun CHEN[a][b] Xiao-wei LIU[a] Si-min ZUO[b] Yu-yin MA[a] Yun-hui TONG[a] Xue-biao PAN[b] Jing-you XU[a] [a] Horticulture and Plant Protection College Yangzhou University Yangzhou 225009 China [b] Key Laboratory of Plant Functional Genomics of Ministry of Education / Key Laboratory of Crop Genetics and Physiology of Jiangsu Province Yangzhou University Yangzhou 225009 China

Using the reference sequences of pgip genes in GenBank,a fragment of 930 bp covering the open reading frame(ORF) of rice Ospgip1(Oryza sativa polygalacturonase-inhibiting protein 1) was *** prokaryotic expression product of the gene inhibited the growth of Rhizoctonia solani,the causal agent of rice sheath blight,and reduced its polygalacturonase *** analysis showed that OsPGIP1 is a hydrophobic protein with a molecular weight of 32.8 kDa and an isoelectric point(pI) of *** protein is mainly located in the cell wall of rice,and its signal peptide cleavage site is located between the 17th and 18th amino *** are four cysteines in both the N-and C-termini of the deduced protein,which can form three disulfide bonds(between the 56th and 63rd,the 278th and 298th,and the 300th and 308th amino acids).The protein has a typical leucine-rich repeat(LRR) domain,and its secondary structure comprises α-helices,β-sheets and irregular *** with polygalacturonase-inhibiting proteins(PGIPs) from other plants,the 7th LRR is absent in *** nine LRRs could form a cleft that might associate with proteins from pathogenic fungi,such as polygalacturonase.

关键词： Ospgip1 gene polygalacturonase-inhibiting protein prokaryotic expression bioinformatic analysis rice Rhizoctonia solani

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Molecular Analysis of Rice CIPKs Involved in Both Biotic and Abiotic Stress Responses

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Rice science 2011年第1期18卷 1-9页

作者： CHEN Xi-feng Gu Zhi-min LIU Feng MA Bo-jun ZHANG Hong-sheng State Key Laboratory of Crop Genetics and Germplasm Enhancement Nanjing Agricultural University Nanjing 210095 China College of Chemistry and Life Sciences Zhejiang Normal University Jinhua 321004 China

Plant calcineurin B-like （CBL） proteins have been proposed as important Ca2＋ sensors and specifically interact with CBL-interacting protein kinases （CIPKs） in plant-specific calcium signaling. Here, we identified and isolated 15 CIPK genes in a japonica rice variety Nipponbare based on the predicted sequences of rice CIPK gene family. Gene structure analysis showed that these 15 genes were divided into intron-less and intron-rich groups, and OsCIPK3 and OsCIPK24 exhibited alternative splicing in their mature process. The phylogenetic analyses indicated that rice CIPKs shared an ancestor with Arabidopsis and poplar CIPKs. Analyses of gene expression showed that these OsCIPK genes were differentially induced by biotic stresses such as bacterial blight and abiotic stresses （heavy metal such as Hg2＋, high salinity, cold and ABA）. Interestingly, five OsCIPK genes, OsCIPK1, 2, 10, 11 and 12, were transcriptionally up-regulated after bacterial blight infection whereas four OsCIPK genes, OsCIPK2, 10, 11 and 14, were induced by all treatments, indicating that some of OsCIPK genes are involved in multiple stress response pathways in plants. Our finding suggests that CIPKs play a key role in both biotic and abiotic stress responses.

关键词： rice CBL-interacting protein kinase family gene expression biotic and abiotic stress bacterial blight

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Growth and Reproduction of Artificially Fed Cnaphalocrocis medinalis

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Rice science 2012年第3期19卷 247-251页

作者： Xu Jian LI Chuan-ming YANG Ya-jun QI Jian-hang ZHENG Xu-song Hu Rong-li Lu Zhong-xian LIU Qin Jiangsu Lixiahe Institute of Agricultural Science Yangzhou 225007 China Institute of Plant Protection and Microbiology Zhejiang Academy of Agricultural Science Hangzhou 310021 China

The growth and reproduction of rice leaffolder,Cnaphalocrocis medinalis,fed on an artificial diet were *** results showed that the larvae were able to grow and pupate on the artificial *** durations of larvae and pupas of *** on the artificial diet were 28.1 d and 10.1 d,postponed 4.9 d and 1.7 d respectively,compared with those reared with rice *** number of ovipositions was 41.6 per female,26.2% higher than that fed on rice *** rate curve of larvae was a descent function of mortality-age,with no significant differences from the curve of larvae fed on rice *** net reproductive rate （Ro）,intrinsic rate of increase （rm） and finite rate of increase （λ） of the population fed on diet were 17.6928,0.0884 and 1.0924,respectively,and the mean generation time （T） and double time （td） were prolonged 4.9 d and 1.3 d in comparison with the treatment of rice *** trend index （I） was 3.26,indicating a growing number of the population of *** fed on artificial diet.

关键词： Cnaphalocrocis medinalis artificial diet experimental population growth reproduction

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A pig model carrying heterozygous point mutation of NCSTN simulates familial acne inversa and reveals dysregulated cholesterol biosynthesis via the Notch-p AMPK-HMGCR pathway

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Science Bulletin 2021年第23期66卷 2343-2346页

作者： Ruigao Song Keqiang Liu Yu Wang Guosong Qin Meng Xiao Yaping Liu Jun Yang Ruojun Zong Xinghui Yan Qiantao Zheng Hongyong Zhang Naipeng Hou Jing Yao Xiao Wang Yanfang Wang Jianguo Zhao Xue Zhang State Key Laboratory of Stem Cell and Reproductive Biology Institute of ZoologyChinese Academy of SciencesBeijing 100101China McKusick-Zhang Center for Genetic Medicine State Key Laboratory of Medical Molecular BiologyInstitute of Basic Medical SciencesChinese Academy of Medical Sciences and Peking Union Medical CollegeBeijing 100005China University of Chinese Academy of Sciences Beijing 100049China State Key Laboratory of Animal Nutrition Institute of Animal ScienceChinese Academy of Agricultural SciencesBeijing 100081China Institute for Stem Cell and Regeneration Chinese Academy of SciencesBeijing 100101China Beijing Institute for Stem Cell and Regenerative Medicine Beijing 100101China

Acne inversa(Al,OMIM#142690)is an autosomal dominant chronic inflammatory disease of the hair follicles[1].Despite medications and procedures aimed at treating Al,patient responses vary widely to different therapies,and no curative regimen or treatment is available[2].In 2010,our group first idenrified nicas-trin(NCSTN),an y-secretase component gene,as a pathogenic gene for familial Al patients[3].

关键词： Notch信号通路猪模型皮肤屏障皮肤炎症背部皮肤表皮层动物模型点突变

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