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Molecular identification of the cytoplasmic male sterile source from dongxiang wild rice(Oryza rufipogon Griff.)

Journal of Integrative Agriculture 2017年第8期16卷 1669-1675页

作者： YAN Song ZHU Shan MAO Ling-hua HUANG Ren-liang XIONG Hong-liang SHEN Lin-jun SHEN Xian-hua rice National Engineering Laboratory(Nanchang)/Nanchang Sub-center National Rice Improvement Center/Jiangxi Provincial Key Laboratory of Rice Physiology and Genetics/Rice Research InstituteJiangxi Academy of Agricultural Sciences Key Laboratory of Crop Physiology Ecology and Genetic BreedingMinistry of Education/College of AgronomyJiangxi Agricultural University Jiangxi Super-rice Research and Development Center Jiangxi Academy of Agricultural Sciences

The use of cytoplasm male sterility （CMS） is crucial for three-line hybrid seed production. Two types of CMS have been discovered from dongxiang wild rice, namely the wild abortion type CMS （CMS-WA） and the dongxiang wild type CMS （CMS-DW）. In this study, we show the molecular identification of the two types of CMS in dongxiang wild rice. WA352, which conferred CMS-WA, was not detected in dongxiang wild iice, implying dongxiang wild rice does not carry the CMS- WA source. Further analysis of WA352 in DYIA, a CMS-DW line, by PCR amplification and sequencing, revealed two insertion-deletion polymorphisms occurred in CMS-DW compared to WA352 of CMS-WA. It was reported that WA352 was comprised of an unknown origin sequence and partial sequences of three open reading frames （ORFs）, orf284, orf224 and orf288. The 42-bp insertion was located between the two segments of orf224 and orf288, which created a new chimeric ORF, orf216. This new ORF was also detected in CMS-HL. Based on the 9-bp deletion in orf284, a specific mitochon- drial marker of DW-M1 was developed, which could be used to specifically distinguish the DW-type source. Moreover, semi-quantitative RT-PCR analysis preliminarily suggested that both orf216 and orf284 could be considered as candidates for CMS-DW. These findings present a preliminary understanding of CMS-DW at the molecular level.

关键词： dongxiang wild rice cytoplasm male sterile WA352 orf216 orf284 mitochondrial marker

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Dissecting Genetic Basis of Deep Rooting in dongxiang wild rice

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rice science 2022年第3期29卷 277-287页

作者： NIE Yuanyuan XIA Hui MA Xiaosong LOU Qiaojun LIU Yi ZHANG Anling CHENG Liang YAN Longan LUO Lijun Huazhong Agricultural University Wuhan 430070China Shanghai Agrobiological Gene Center Shanghai 201106China Jiangxi Research and Development Center of Super rice/Nanchang Branch of Chinese National Center for rice Improvement Nanchang 330200China

Deep rooting is an important trait in rice drought *** resources of deep-rooting varieties are valuable in breeding of water-saving and drought-resistant *** the present study,234BC2F7 backcross introgression lines were derived from a cross of Dongye 80(an accession of dongxiang wild rice as the donor parent)and R974(an indica restorer line as the recurrent parent).A genetic linkage map containing 1977 bin markers was constructed by ddRADSeq for QTL ***-one QTLs for four root traits(the number of deep roots,the number of shallow roots,the total number of deep roots and the ratio of deep roots)were assessed on six rice chromosomes in two environments(2020 Shanghai and 2021 Hainan).Two of the QTLs,qDR5.1 and qTR5.2,were located on chromosome 5 in a 70-kb *** were detected in both ***5.1 explained 13.35%of the phenotypic variance in 2020 Shanghai and 12.01%of the phenotypic variance in 2021 ***5.2 accounted for 10.88%and 10.93%of the phenotypic variance,*** QTL(qRDR2.2)for the ratio of deep roots was detected on chromosome 2 in a 210-kb interval and accounted for 6.72%of the phenotypic variance in *** positive effects of these three QTLs were all from dongxiang wild ***,nine and four putative candidate genes were identified in qRDR2.2 and qDR5.1/qTR5.2,*** findings added to our knowledge of the genetic control of root traits in *** addition,this study will facilitate the future isolation of candidate genes of the deep-rooting trait and the utilization of dongxiang wild rice in the improvement of rice drought resistance.

关键词： dongxiang wild rice backcross introgression line deep rooting genetic analysis QTL

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Systematic Characterization of Long Non-Coding RNAs and Their Responses to Drought Stress in dongxiang wild rice

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rice science 2020年第1期27卷 21-31页

作者： QI Weidong CHEN Hongping YANG Zuozhen HU Biaolin LUO Xiangdong AI Bing LUO Yuan HUANG Yu XIE Jiankun ZHANG Fantao College of Life Sciences Jiangxi Normal UniversityNanchang 330022China rice Research Institute Jiangxi Academy of Agricultural SciencesNanchang 330200China Cipher Gene Limited Liability Company Beijing 100080China

Long non-coding RNAs(lncRNAs) play important roles in response to various biotic and abiotic stresses. So far, systematic identification and characterization of lncRNAs have been reported in a few model plant species and major crops, but their roles in abiotic stress response have not yet been reported in common wild rice(Oryza rufipogon). dongxiang wild rice(DXWR) possesses a high degree of drought resistance and has been well recognized as a precious genetic resource for drought resistant rice breeding. We presented the reference catalog of 1 655 novel lncRNA transcripts in DXWR using strand-specific RNA sequencing and bioinformatics approaches. Meanwhile, a total of 1092 lncRNAs were determined as differentially expressed lncRNAs under drought stress. Quantitative real-time PCR results exhibited a high concordance with RNA sequencing data, which confirmed that the expression patterns of lncRNAs based on RNA sequencing were highly reliable. Furthermore, 8 711 transcripts were predicted as target genes of the differentially expressed lncRNAs. Functional annotation analysis based on Gene Ontology and Kyoto Encyclopedia of Genes and Genomes databases showed that the target genes were significantly enriched in cellular and metabolic processes, cell part, binding and plant hormone signal transduction, as well as many other terms related to abiotic stress resistance. These results expanded our understanding of lncRNA biology and provided candidate regulators for genetic improvement of drought resistance in rice cultivars.

关键词： dongxiang wild rice drought stress long non-coding RNA systematic characterization

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Identification and Characterization of Drought Stress-Responsive Novel microRNAs in dongxiang wild rice

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rice science 2018年第4期25卷 175-184页

作者： ZHANG Fantao LUO Yuan ZHANG Meng ZHOU Yi CHEN Hongping HU Biaolin XIE Jiankun College of Life Sciences Jiangxi Normal University rice Research Institute Jiangxi Academy of Agricultural Sciences

MicroRNAs （miRNAs） are non-coding small RNAs, which play important regulatory roles in response to biotic and abiotic stresses. dongxiang wild rice （Oryza rufipogon, DXWR） can survive in extreme drought environment, but its molecular mechanism of drought resistance is still largely unknown. To further explore miRNA regulatory mechanisms involved in drought resistance, we identified 138 novel miRNAs in DXWR using small RNA sequencing and bioinformatics approaches, and found that the expression levels of 67 novel miRNAs were significantly affected by drought stress. In total, 200 candidate target genes were predicted and annotated for the drought stress-responsive novel miRNAs. Gene Ontology （GO） analysis and Kyoto Encyclopedia of Genes and Genomes （KEGG） pathways suggested that most of the target genes were related to metabolism. Stem-loop quantitative real-time PCR （qRT-PCR） results exhibited high concordance with sequencing data, which confirmed that miRNA expression patterns based on small RNA sequencing in the present study were reliable. Meanwhile, qRT-PCR validated the inverse expression patterns between several miRNAs and their target genes. These results will enhance our understanding of miRNA regulatory mechanisms in response to drought stress in DXWR, and can serve as an important reference for the protection and utilization of this valuable genetic resource.

关键词： dongxiang wild rice drought stress genetic resource novel microRNA small RNA sequencing

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Identification and Genetic Analysis of Fertility Restoration Ability in dongxiang wild rice (Oryza rufipogon)

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rice science 2008年第1期15卷 21-28页

作者： CHEN Xiao-rong YANG Kong-song FU Jun-ru ZHU Chang-lan PENG Xiao-song HE Xiao-peng HE Hao-hua College of Agronomy Jiangxi Agricultural University~Key Laboratory of Crop Physiology Ecology Genetic and Breeding JiangxiProvince Nanchang 330045 China

Two populations of dongxiang wild rice （Oryza rufipogon）, Shuitaoshu and Dongtangshang, were crossed with five male sterile rice lines with different cytoplasmic backgrounds （B06S, Zhenshan 97A, Xieqingzao A, Zhong 9A, and Yuetai A）, and the seed setting rate of the F1 was used to judge the fertility restoration ability in the dongxiang wild rice. With P1, F1, P2, and F2 populations as materials, the Akaike＇s Information Criterion （AIC） was used to identify the major genes affecting quantitative traits, and when the major genes existed, the genetic effects of the major gene and the polygene and their genetic variance were estimated through segregation analysis. The seed setting rates of the F1 generation varied from 45.98% to 76.57%, suggesting that the dongxiang wild rice had the fertility restoration ability. One major gene plus polygene mixed inheritance model was the most fitted genetic model for this trait in all the F2 populations. The heritability values of the major genes varied from 56.63% to 88.29% and those of the polygenes from 2.74% to 30.97%, and the total heritability values were from 63.17% to 94.01%. The major gene inheritance of the combination Zhong 9A/Dongtangshang was controlled by the additive effect without dominant effect, and the other nine combinatfons were by the completely dominant inheritance.

关键词： dongxiang wild rice fertility restoration identification genetic effect Oryza rufipogon

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Development of Novel Cytoplasmic Male Sterile Source from dongxiang wild rice(Oryza rufipogon)

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rice science 2013年第5期20卷 379-382页

作者： SHEN Xian-hua YAN Song HUANG Ren-liang ZHU Shan XIONG Hong-liang SHEN Lin-jun rice Research Institute Jiangxi Academy of Agricultural Sciences/Jiangxi Provincial Key Laboratory for Physiology and Genetics of Rice

This study was conducted to develop and characterize a novel cytoplasmic male sterile （CMS） source which was identified from dongxiang wild rice （Oryza rufipogon） by crossing dongxiang wild rice as female with Zhongzao 35, an indica inbred variety, as male and continuous backcrossing with Zhongzao 35. Observation under optical microscope manifested that this novel CMS belonged to typical abortion type with less pollen compared with wild abortive type cytoplasm （CMS-WA）. Sequential planting showed that this novel CMS has complete and stable male sterility. Testcross experiment showed that all the 24 tested materials including maintainer and restorer lines of CMS-WA and Honglian type cytoplasm （CMS-HL） and other indica inbred varieties are the maintainers with complete maintaining ability, suggesting that this novel CMS has fertility restoration totally different from CMS-WA and CMS-HL and belongs to a novel type of CMS. So far, we only discovered a unique fertility restoration source for this novel CMS. Inheritance analysis showed that the fertility restoration of this CMS was governed by three pairs of independent dominant genes. Prospect for application of this novel CMS system in hybrid rice breeding was also discussed.

关键词： dongxiang wild rice cytoplasmic male sterility fertility restoration Oryza rufipogon

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Genetic Diversity of dongxiang wild rice(Oryza rufipogon Griff.)Detected by SSLP Markers

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Agricultural Sciences in China 2003年第7期2卷 715-721页

作者： XIEJian-kun CHENDa-zhou XIAOYe-qing LUOShi-you ZHENGKang-le ZHUANGJie-yun riceResearchInstitute JiangxiAcademyofAgriculturalSciencesNanchang330200；P.R.China NationalCenterforriceImprovement ChinaNationalRiceResearchInstituteHangzhou310006P.R.China

The genetic diversity of dongxiang wild rice populations was evaluated by using 14 SSR primer pairs. Twelve of the primer pairs amplified polymorphic bands. A total of 70 polymorphic DNA bands were generated with average 5. 83 polymorphic bands per primer pair, indicating that the genetic diversity of dongxiang wild rice was high. Cluster analysis showed that there were highly variant individuals within and among populations, while others were highly similar to each other. The within-population genetic distances were 0. 23 - 0.47, being smaller than 0.40 - 0.55 of among-population. Strict management must be taken for the preservation of dongxiang wild rice.

关键词： dongxiang wild rice Genetic diversity SSLP

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Physiological Analysis on Mechanisms of Cold-tolerance of dongxiang wild rice(Ⅰ)

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Agricultural Science & Technology 2010年第2期11卷 39-43页

作者：徐梅珍刘晓余丽琴刘世强曾黎明陈蓉蓉王义华江西农业大学职业师范技术学院江西南昌330045 江西农业大学理学院江西南昌330045 江西省农业科学院水稻研究所江西南昌330200 农业部双季稻生理生态与栽培重点开放实验室江西农业大学江西南昌330045 作物生理生态与遗传育种教育部重点实验室江西农业大学江西南昌330045

[Objective] The research aimed to study the effects of soluble substance concentration in cell and the scavenging activity of active oxygen radicals on the cold-tolerance physiology of dongxiang wild rice.[Method] dongxiang wild rice was used as materials to detect and compare the content of soluble sugar,free proline and soluble protein,POD activity,CAT activity,MDA content in the leaves in different growth *** with control of two species of common cultivated rice Xieqingzao and Nongda 288.[Resul...

关键词： dongxiang wild rice Cold tolerance POD CAT

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Studies on the Microbial Community in the Rhizosphere Soil of dongxiang wild rice

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Agricultural Science & Technology 2011年第4期12卷 527-529页

作者：戴菲黄运红彭伟梦李鹿鸣龙中儿江西师范大学生命科学学院江西南昌330022

[Objective] The aim was to study the characteristics of microbial community in the rhizosphere soil of dongxiang wild rice（Oryza rufipogon Griff.）.[Method] The microbial biomass carbon and nitrogen was estimated by the chloroform fumigation extraction method;the microbial community composition and Nitrogen cycling microbial functional groups were investigated by the Dilution plate culture method and the most probable number methods respectively.[Result] The microbial biomass carbon and nitrogen,in rhizosphere soil of dongxiang wild rice was 83.02±18.23 mg/kg soil and 16.98±2.54 mg/kg soil,which was lower than that of ordinary cultivated rice;The relationship between the number of culturable microbial groups was bacteriaactinomycetesfungi,and the Nitrogen cycling microbial physiological groups was as the following：ammonifying bacteriaaerobic azotobacteriadenitrobacteriaanaerobic azotobacterianitrobacterianitrosobacteria.[Conclusion] The microbial community in the rhizosphere soil of dongxiang wild rice was different from that of the ordinary cultivated rice.

关键词： dongxiang wild rice Rhizosphere microorganisms Community composition

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Morphological characteristics of homozygous wild rice phytoliths and their significance in the study of rice origins

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Science China Earth Sciences 2022年第1期65卷 107-117页

作者： Xiangan TANG Houyuan LU Zhibin CAO Jinshui XIE School of Agriculture Sciences Jiangxi Agricultural UniversityNanchang 330045China Key Laboratory of Cenozoic Geology and Environment Institute of Geology and GeophysicsChinese Academy of SciencesBeijing 100029China Jiangxi Academy of Agricultural Sciences Nanchang 330200China

The analysis of wild rice cell structures,tissues,organs,and other morphological characteristics and the development of identification markers for wild rice are the basis for identifying the origins and evolution of prehistorical rice ***,contemporary wild rice strains are often subject to gene introgression from domesticated rice cultivated by humans during the evolutionary process,which may affect the accuracy of wild rice identification *** means that how to eliminate the effects of gene introgression from domesticated rice and other plants on the identification of origin markers,and the purification of the morphological characteristics of wild rice have become critical in research to identify the origin of *** this study,we compared and analysed the phytolith morphologies of three common wild rice species(Oryza rufipogon Griff.)from various habitats and one species of ectopically preserved homozygous common wild rice after six consecutive generations of *** found that the morphology of the bulliform phytolith in the homozygous wild rice with reduced domestication gene introgression had three significant differences compared with native wild rice:(1)an overall reduction in size(body length decreased from 41.9μm in VLnativeto 38.6μm in VLhomozygous);(2)an increase in the proportion of the long-stalked phenotype,with the ratio of B/A decreasing from 1.22±0.47 in B/Anativeto 0.92±0.30 in B/Ahomozygous;and(3)a decrease in the number of fish-scale decorations,with the proportion of bulliform phytoliths with≥9 fish-scale decorations reduced from 53.4%in native wild rice to 37.2%in homozygous wild ***,this study provides a reliable reference for the identification of rice origins using rice phytolith morphology.

关键词： dongxiang wild rice Common wild rice Bulliform phytolith Homozygous lineage Native habitats rice origins

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