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Analysis of Genetic Similarity for Improved Japonica Rice Varieties from Different Provinces and Cities in China

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Agricultural Sciences in China 2010年第8期9卷 1093-1100页

作者： SHU Ai-ping ZHANG Yuan-yuan CAO Gui-lan LU Qin ZHANG San-yuan HAN Long-zhi Institute of Crop Sciences Chinese Academy of Agricultural Sciences/National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI)/Key Laboratory of Crop Germplasm Resources and Utilization Ministry of Agriculture Beijing 100081 P.R. China College of Crop Science Fujian Agricultural and Forestry University Fuzhou 350002 P.R. China Rice Research Institute Jiangxi Academy of Agricultural Sciences Nanchang 330200 P.R.China Institute of Rice Research Jilin Academy of Agricultural Sciences Gongzhuling 136100 P.R.China

To provide a genetic basis for japonica rice breeding, the genetic similarity and cluster of 139 accessions of improved japonica rice varieties from 12 provinces and cities of China were analyzed using 34 ssr markers. Totally 198 alleles were detected among these improved japonica rice varieties with the average number of alleles per pair of primers was 5.3235. RM320, RM531, RM1, RM286, and RM336 showed more alleles, which were 15, 12, 11, 9, and 9, respectively. RM320, RM336, RM286 and RM531 showed higher genetic diversity indexes; which were 2.3324, 2.0292, 1.8996, and 1.7820, respectively. The range of genetic similar index among improved japonica rice varieties from different provinces was from 0.321 to 0.914, with the average of 0.686. There was a high genetic similarity among improved japonica rice varieties from Heilongjiang, Jilin, Liaoning, Ningxia, and Yunnan, which were located in similar latitude or similar ecological environment, while there was a low genetic similarity between improved japonica rice varieties from Guizhou and Jiangsu, and other provinces which were located in more different latitudes and ecological environments. The markers of RM320, RM531, RM1, RM286, and RM336 fit to be used in analysis of genetic diversity for improved japonica rice variety. The genetic similarity among improved japonica rice varieties from different provinces was closely associated with genetic basis of parents, and was also correlated with latitude and ecological environment where the varieties were bred.

关键词： improved japonica rice variety genetic similarity genetic basis of parent ecological and climatic environment ssr marker

Characterization of the Genetic Structure of A Poisonous Forb Oxytropis Ochrocephala by ssr markers

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Characterization of the Genetic Structure of A Poisonous For...

Characterization of the genetic structure of a poisonous forb Oxytropis ochrocephala by ssr markers

中国草学会第九次全国会员代表大会暨学术讨论会

作者： WEI He GUO Lin-wei WEI Ya-hui Department of Biology Northwest University

Introduction Oxytropis ochrocephala is one of the most hazardous locoweed species distributed extensively on grasslands of western ***,it is becoming invasive by replacing local forage grass species in natural grassland plant *** the genetic structure of invasive plants is important in elucidating their evolutionary history and migration route,and help in explaining the

关键词： Oxytropis ochrocephala ssr marker Genetic diversity Population structure

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Characterization of the genetic structure of a poisonous for...

Mapping of QTL conferring leaf rust resistance in Chinese wheat lines W014204 and Fuyu 3 at adult plant stage

第五届毒物史研讨会暨《世界毒物全史》（百卷本）首发座谈会

作者： Wei He Linwei Guo Yahui Wei Department of Biology Northwest University

关键词： Oxytropis ochrocephala ssr marker genetic diversity population structure

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Journal of Integrative Agriculture 2016年第1期15卷 18-28页

作者： QI Ai-yong ZHANG Pei-pei ZHOU Yue YAO Zhan-jun LI Zai-feng LIU Da-qun Department of Plant Pathology College of Plant Protection Agricultural University of Hebei Department of Biochemistry Baoding University College of Agronomy Agricultural University of Hebei

Wheat leaf rust is a destructive foliar disease of common wheat （Triticum aestivum L.） worldwide. The most effective, economical s to control the disease is growing resistant cultivars with adult plant resistance （APR）. The Chinese wheat tines W014204 and Fuyu 3 showed high leaf rust resistance in the field. To identify leaf rust APR genes in the two lines, two mapping populations with 215 and 163 F2：3 lines from the crosses W014204/Zhengzhou 5389 and Fuyu 3/Zhengzhou 5389, respectively, were phenotyped for leaf rust severities during the 2010-2011, 2011-2012 and 2012-2013 cropping seasons in the field at Baoding, Hebei Province, China. A total of 1 215 ssr markers were used to identify the quantitative trait loci （QTLs） for leaf rust APR in the two populations. In the W014204/Zhengzhou 5389 population, three QTLs were detected and designated as ***-lBL.1, ***-2BS.1 and ***-7DS, and explained 2.9-8.4, 11.5-38.3 and 8.5-44.5% of the phenotypic variance, respectively; all the resistance alleles at these loci were derived from W014204. In the Fuyu 3/Zhengzhou 5389 population, three QTLs, ***-lBL.2, ***-2BS.2 and ***-7BL, explained 12.0-19.2, 22.3-38.9 and 4.1-4.3% of the phenotypic variance, respectively, and all resistance alleles were contributed by Fuyu 3. Based on chromosome positions of closely linked markers, both ***-lBL. 1 and ***-lBL.2 are Lr46, and ***-7DS is Lr34. ***-7BL was mapped on chromosome 7BL near to Lr68 and they are likely the same gene. Based on chromosome positions, pedigree and field reactions, the two 2BS QTLs are different from all the known APR genes and are likely to be newAPR QTL for leaf rust. These QTLs and their closely linked markers are potentially useful for improving leaf rust resistance in wheat breeding.

关键词： Triticum aestivum Puccinia triticina APR ssr marker

Analysis on Genetic Similarity of Japonica Rice Variety from Different Origins of Geography in the World

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Agricultural Sciences in China 2009年第5期8卷 513-520页

作者： SHU Ai-ping Kim Jong hwan ZHANG San-yuan CAO Gui-lan NAN Zhong-hao Lee Kyu seong LU Qin HAN Long-zhi Institute of Crop Sciences Chinese Academy of Agricultural Sciences/The National Key Facility for Crop Gene Resources and Genetic Improvement （NFCRI）/Key Laboratory of Crop Germplasm Resources and Biotechnology Ministry of Agriculture Beijing 100081 P.R. China Fujian Agriculture and Forestry University Fuzhou 350002 P.R. China National Institute of Crop Sciences Rural Development Administration Suwon 441-857 Korea Institute of Rice Research Jilin Academy of Agricultural Sciences Gongzhuling 136100 P.R. China

The genetic similarity and genetic difference among improved japonica rice varieties from different countries （or regions and organizations） were detected. The aim is to provide genetic basis to the breeding of japonica rice varieties. The genetic similarity and cluster of 313 improved japonica varieties from 20 countries （or regions and organizations） were analyzed using the ssr marker. With 34 ssr primers which were polymorphic and uniformly distributed in rice genome, totally 198 alleles were detected among these improved varieties with the average number of alleles per pair of primers of 5.8235. RM320, RM531, RM1, RM21, and RM336 located more alleles, which were 16, 13, 12, 10, and 10 respectively. RM320, RM336, RM286, RM531, and RM21 showed higher genetic diversity indexes, which were 2.3668, 2.0041, 1.9684, 1.9508, and 1.7203, respectively. The genetic similarity for improved japonica varieties among different countries （or regions and organizations） were ranged from 0.279 to 0.918, and the mean value was 0.653. The rice varieties from countries whose latitude and geography position were all nearer were clustered together with higher genetic similarity indexes. The rice varieties from countries who had more different latitude and far geography position were clustered separately with lower genetic similarity indexes. The results indicated the genetic similarity indexes among improved japonica varieties had a close relationship with the geographical position, especially with the latitude.

关键词： japonica rice genetic similarity geography origin latitude ssr marker

Characterization of Leaf Transcriptome in Banksia hookeriana

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Genomics, Proteomics & Bioinformatics 2017年第1期15卷 49-56页

作者： Sim Lin Lim Haylee M.D'Agui Neal J.Enright Tianhua He Department of Environment and Agriculture Curtin UniversityPerthWA 6845Australia School of Veterinary and Life Sciences Murdoch UniversityPerthWA 6150Australia

Abstract Banksia is a significant element in vegetation of southwestern Australia, a biodiversity hotspot with global significance. In particular, Banksia hookeriana represents a species with significant economic and ecological importance in the region. For better conservation and management, we reported an overview of transcriptome of B. hookeriana using RNA-seq and de novo assembly. We have generated a total of 202.7 million reads （18.91 billion of nucleotides） from four leaf sam- ples in four plants of B. hookeriana, and assembled 59,063 unigenes （average size = 1098 bp） through de novo transcriptomc assembly. Among them, 39,686 unigenes were annotated against the Swiss-Prot, Clusters of Orthologous Groups （COG）, and NCBI non-redundant （NR） protein databases. We showed that there was approximately one single nucleotide polymorphism （SNP） per 5.6-7.1 kb in the transcriptome, and the ratio of transitional to transversional polymorphisms was approximately 1.82. We compared unigenes of B. hookeriana to those of Arabidopsis thaliana and Nelumbo nucifera through sequence homology, Gene Ontology （GO） annotation, and KEGG pathway analyses. The comparative analysis revealed that unigenes of B. hookeriana were closely related to those of N. nucifera. B. hookeriana, N. nucifera, and A. thaliana shared similar GO anno- tations but different distributions in KEGG pathways, indicating that B. hookeriana has adapted to dry-Mediterranean type shrublands via regulating expression of specific genes. In total 1927 potential simple sequence repeat （ssr） markers were discovered, which could be used in the genotype and genetic diversity studies of the Banksia genus. Our results provide valuable sequence resource for further study in Banksia.

关键词： Banksia hookeriana Gene annotation RNA-seq ssr marker Transcriptome

Analysis of ssr Fingerprints in Introduced Silkworm Germplasm Resources

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Agricultural Sciences in China 2007年第5期6卷 620-627页

作者： HOU Cheng-xiang LI Mu-wang ZHANG Yue-hua QIAN He-ying SUN Ping-jiang XU An-ying MIAO Xue-xia GUO Qiu-hong XIANG Hui HUANG Yong-ping Sericultural Research Institute Chinese Academy of Agricultural Sciences Zhenjiang 212018 P.R.China Institute of Plant Physiology and Ecology Shanghai Institute for Biological Sciences Chinese Academy of Sciences Shanghai 200032 P.R. China

Thirty-five ssr markers were used to construct 96 silkworm races fingerprint. All the ssr markers were polymorphic and unambiguously separated silkworm strains from each other. A total of 467 alleles were detected with a mean value of 13.34 alleles/locus （range 3-28）. The mean polymorphism index content （PIC） was 0.71 （range 0.299-0.919）. UPGMA cluster analysis of Nei＇s genetic distance grouped silkworm strains on the basis of their origin. The results indicated that ssr markers are efficient tools for fingerprinting cultivars and conducting genetic diversity studies in the silkworm.

关键词： silkworm (Bombyx mori L.) germplasm ssr marker fingerprint

Identification of the Parentage of Corn Variety Using ssr markers

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Agricultural Science & Technology 2009年第4期10卷 55-60页

作者：沈童伟陆徐忠刘勋辉李莉杨剑波安徽农业大学生命科学学院安徽合肥230036 安徽农业科学院水稻所安徽合肥230031

[Objective] The study was to explore the molecular interpretation standards on parentage in the seeds of corn variety. [Method] With 16 hybrids and their parents and 202 inbred elites as materials for screening primers, the artificial groups of two standard diad and two standard triad were respectively established as the verification materials. Genomic DNA of seedlings was extracted by using CTAB method. 137 pairs of ssr primers were selected for ssr amplification and product detection, which was used for the parentage identification of maize varieties. [ Result] Twenty pairs of corn primers with high polymorphism information content （ PIC value）, clearly amplified bands and good reproducibility were screened from 137 pairs of corn ssr primers tested. The identification results of using ssr molecular were consistent with the actual situation. [ Conclusion] It is feasible to identify the parentage of maize variety using ssr markers.

关键词： Maize ssr marker Corn primer Parentage identification

QTL Analysis of Grain Storage Durability for Maize Under Controlled Deterioration Conditions Using ssr markers

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Agricultural Science & Technology 2012年第6期13卷 1222-1225页

作者：程昕昕耿广汉刘正安徽科技学院安徽凤阳233100

[Objective] This study aimed to analyze the quantitative trait loci （QTLs） of grain storage durability for maize under controlled deterioration conditions by using ssr markers. [Method] The recombinant inbred line population F 2 derived from the cross of shen 137/02-50 was used to do the simple sequence repeats （ssrs） and QTL analysis. [Result] The 2 parents showed good polymorphisms. Three loci were detected on chromosome 1, chromosome 6 and chromosome 9, accounting for 41.2% of total phenotypic. [Conclusion] This study provided theoretical basis for using molecular marker to assist the breeding of storage durable maize varieties.

关键词： Maize Storage locus Controlled deterioration ssr marker