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Construction of a high-density genetic linkage map and identification of flowering-related QTL in erect milkvetch(Astragalus adsurgens)

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The Crop Journal 2022年第4期10卷 1141-1150页

作者： Wenlong Gong Lin Ma Qiu Gao Bao Wei Jiangui Zhang Xiqiang Liu Pan Gong Zan Wang Guiqin Zhao College of Pratacultural Science Gansu Agricultural UniversityLanzhou 730070GansuChina College of Grassland Science and Technology China Agricultural UniversityBeijing 100193China Institute of Animal Sciences Chinese Academy of Agricultural SciencesBeijing 100193China National Animal Husbandry Service Beijing 100125China

Erect milkvetch(Astragalus adsurgens)is a perennial legume forage crop with economic and ecological value in livestock grazing and soil-erosion control in arid and semiarid areas worldwide.Genomic information and molecular tools to support breeding and research in the species are limited.The objectives of this investigation were to map its genome using DNA markers and to identify quantitative trait loci(QTL)in the species.An F1 mapping population of 250 plants was developed from a cross between two parents with differing flowering-related traits.A high-density genetic linkage map containing 4821 markers on eight linkage groups(LGs)with a total genetic length of 1395 cM and a mean interval of 0.29 cM between adjacent markers was constructed with SLAF-seq technology.Comparative genomic analyses revealed the highest genome sequence similarity(8.71%)between erect milkvetch and Medicago truncatula,followed by Glycine max(7.65%),Cicer arietinum(7.53%),and Lupinus angustifolius(5.21%).A total of 64 significant QTL for flowering-related traits on six LGs were detected,accounting for 9.38 to 19.1%of the associated phenotype variation.Five and 48 key candidate genes for floret number and inflorescence length were identified based on the Glycyrrhiza uralensis genome.These candidate genes were involved in ubiquitination/degradation,pollen development,cell division,cytokinin biosynthetic process,and plant flowering.These findings shed light on the regulation of flowering traits in erect milkvetch and provide genomic resources for future molecular breeding of the crop.

关键词： Erect milkvetch genetic map Flowering-related traits QTL mapping SLAF-seq

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A genetic map Constructed Using a Doubled Haploid Population Derived from Two Elite Chinese Common Wheat Varieties

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Journal of Integrative Plant Biology 2008年第8期50卷 941-950页

作者： Kun-Pu Zhangi Liang Zhao Ji-Chun Tian Guang-Feng Chen Xiao-Ling Jiang Bin Liu State Key Laboratory of Crop Biology Group of Quality Wheat Breeding of Shandong Agricultural University Tai'an 271018 China Department of Agriculture Dezhou University Dezhou 253015 China

genetic mapping provides a powerful tool for the analysis of quantitative trait loci （QTLs） at the genomic level. Herein, we report a new genetic linkage map developed from an F1-derived doubled haploid （DH） population of 168 lines, which was generated from the cross between two elite Chinese common wheat （Triticum aestivum L.） varieties, Huapei 3 and Yumai 57. The map contained 305 loci, represented by 283 simple sequence repeat （SSR） and 22 expressed sequence tag （EST）-SSR markers, which covered a total length of 2141.7 cM with an average distance of 7.02 cM between adjacent markers on the map. The chromosomal locations and map positions of 22 new SSR markers were determined, and were found to distribute on 14 linkage groups. Twenty SSR loci showed different chromosomal locations from those reported in other maps. Therefore, this map offers new information on the SSR markers of wheat. This genetic map provides new opportunities to detect and map QTLs controlling agronomically important traits. The unique features of this map are discussed.

关键词： common wheat expressed sequence tag-simple sequence repeat genetic map molecular markers quantitative trait locus simple sequence repeat.

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genetic map construction and functional characterization of genes within the segregation distortion regions(SDRs)in the F_(2:3) populations derived from wild cotton species of the D genome

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Journal of Cotton Research 2020年第4期3卷 278-296页

作者： KIRUNGU Joy Nyangasi MAGWANGA Richard Odongo SHIRAKU Margaret Linyerera LU Pu MEHARI Teame Gereziher XU Yuanchao HOU Yuqing AGONG Stephen Gaya ZHOU Yun CAI Xiaoyan ZHOU Zhongli WANG Kunbo LIU Fang State Key Laboratory of Cotton Biology/Institute of Cotton Research Chinese Academy of Agricultural ScienceAnyang 455000HenanChina School of Biological PhysicalMathematics and Actuarial Sciences(SBPMAS)Jaramogi Oginga Odinga University of Science and Technology(JOOUST)210-40601BondoKenya School of Life Science Henan University/State Key Laboratory of Cotton Biology/Henan Key Laboratory of Plant Stress BiologyKeifang 475004HenanChina School of Agricultural Sciences Zhengzhou UniversityZhengzhou 450001HenanChina.

Background:Segregation distortion(SD)is a common phenomenon among stable or segregating populations,and the principle behind it still puzzles many researchers.The F2:3 progenies developed from the wild cotton species of the D genomes were used to investigate the possible plant transcription factors within the segregation distortion regions(SDRs).A consensus map was developed between two maps from the four D genomes,map A derived from F2:3 progenies of Gossypium klotzschianum and G.davidsonii while map B from G.thurberi and G.trilobum F2:3 generations.In each map,188 individual plants were used.Results:The consensus linkage map had 1492 markers across the 13 linkage groups with a map size of 1467.445 cM and an average marker distance of 1.0370 cM.Chromosome D502 had the highest percentage of SD with 58.6%,followed by Chromosome D507 with 47.9%.Six thousand and thirty-eight genes were mined within the SDRs on chromosome D502 and D507 of the consensus map.Within chromosome D502 and D507,2308 and 3730 genes were mined,respectively,and were found to belong to 1117 gourp out of which 622 groups were common across the two chromosomes.Moreover,genes within the top 9 groups related to plant resistance genes(R genes),whereas 188 genes encoding protein kinase domain(PF00069)comprised the largest group.Further analysis of the dominant gene group revealed that 287 miRNAs were found to target various genes,such as the gra-miR398,gramiR5207,miR164a,miR164b,miR164c among others,which have been found to target top-ranked stress-responsive transcription factors such as NAC genes.Moreover,some of the stress-responsive cis-regulatory elements were also detected.Furthermore,RNA profiling of the genes from the dominant family showed that higher numbers of genes were highly upregulated under salt and osmotic stress conditions,and also they were highly expressed at different stages of fiber development.Conclusion:The results indicated the critical role of the SDRs in the evolution of the key regulatory genes in plants.

关键词： genetic map Segregation distortion region Cis-regulatory elements Genes miRNA

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Construction of a high-density adzuki bean genetic map and evaluation of its utility based on a QTL analysis of seed size

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Journal of Integrative Agriculture 2021年第7期20卷 1753-1761页

作者： WANG Li-xia WANG Jie LUO Gao-ling YUAN Xing-xing GONG Dan HU Liang-liang WANG Su-hua CHEN Hong-lin CHEN Xin CHENG Xu-zhen nstitute of Crop Sciences Chinese Academy of Agricultural SciencesBeijing 100081P.R.China Institute of Rice Research Guangxi Academy of Agricultural SciencesNanning 530007P.R.China Institute of Economic Crops Jiangsu Academy of Agricultural SciencesNanjing 210014P.R.China

Adzuki bean(Vigna angularis(Willd.)Ohwi&Ohashi)is an annual cultivated leguminous crop commonly grown in Asia and consumed worldwide.However,there has been limited research regarding adzuki bean genetics,which has prevented the efficient application of genes during breeding.In the present study,we constructed a high-density genetic map based on whole genome re-sequencing technology and validated its utility by mining QTLs related to seed size.Moreover,we analyzed the sequences flanking insertions/deletions(In Dels)to develop a set of PCR-based markers useful for characterizing adzuki bean genetics.A total of 2904 markers were mapped to 11 linkage groups(LGs).The total length of the map was 1365.0 cM,with an average distance between markers of 0.47 cM.Among the LGs,the number of markers ranged from 208(LG7)to 397(LG1)and the total distance ranged from 97.4 cM(LG9)to 155.6 cM(LG1).Twelve QTLs related to seed size were identified using the constructed map.The two major QTLs in LG2 and LG9 explained 22.1 and 18.8%of the total phenotypic variation,respectively.Ten minor QTLs in LG4,LG5 and LG6 explained 3.0–10.4%of the total phenotypic variation.A total of 9718 primer pairs were designed based on the sequences flanking In Dels.Among the 200 selected primer pairs,75 revealed polymorphisms in 24 adzuki bean germplasms.The genetic map constructed in this study will be useful for screening genes related to other traits.Furthermore,the QTL analysis of seed size and the novel markers described herein may be relevant for future molecular investigations of adzuki bean and will be useful for exploiting the mechanisms underlying legume seed development.

关键词： Vigna angularis genetic map QTL seed size PCR-based marker development

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genetic linkage map of Brassica campestris L. using AFLP and RAPD markers

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Journal of Zhejiang University-Science A(Applied Physics & Engineering) 2002年第5期3卷 101-106页

作者：卢钢曹家树陈杭 Institute of Vegetable Science Zhejiang University Hangzhou China Center of National Vegetable Research Beijing China

A genetic linkage map comprised of 131 loci was constructed with an F 2 population derived from an inter subspecific cross between Brassica campestris L. ssp. chinensis cv. ’aijiaohuang’ and ssp. rapifera cv. ’qisihai’. The genetic map included 93 RAPD loci, 36 AFLP loci and 2 morphological loci organized into 10 main linkage groups (LGs) and 2 small groups, covering 1810.9cM with average distance between adjacent markers being approximately 13.8cM. The map is suitable for identification of molecular markers linked to important agronomic traits, QTL analysis, and even for marker assisted selection in breeding programs of Chinese cabbage and turnip.

关键词： genetic map AFLP RAPD Brassica campestris L. ssp. chinensis .

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A genetic Linkage map of Kenaf (Hibiscus cannabinus L.) Based on SRAP, ISSR and RAPD Markers

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Agricultural Sciences in China 2011年第9期10卷 1346-1353页

作者： ZHANG Guang-qing QI Jian-min ZHANG Xiao-chen FNAG Ping-ping SU Jian-guang TAO Ai-fen LAN Tao WU Wei-ren LIU Ai-min Key Laboratory for genetics Breeding and Multiple Utilization of Crops Ministry of Education Fuzhou 350002 P.R.China Crop Sciences Institute Fujian Academy of Agricultural Sciences Fuzhou 350013 P.R.China College of Life Science Fujian Agriculture and Forestry University Fuzhou 350002 P.R. China Institute of Bast Fiber Crops Chinese Academy of Agricultural Sciences Changsha 410205 P.R.China Department of Chemistry and Center for Metals in Biocatalysis University of Minnesota St. Paul MN55108 USA

Kenaf （Hibiscus cannabinus L.） is one of the most economically important crops for non-wood fiber production. The objective of this study was to establish a genetic linkage map of kenaf with higher density of molecular markers. A semi- wild variety Ga42 and a cultivar Alain kenaf were used as parents to construct an F2 population consisting of 155 plants. The genetic linkage map comprising 134 marker loci was constructed, including 65 sequence-related amplified polymorphism （SRAP）, 56 inter-simple sequence repeat （ISSR）, and 13 randomly amplified polymorphic DNA （RAPD） markers. This map spans 2 108.9 cM and contains 20 linkage groups with an average marker density of 15.7 cM between the adjacent markers.

关键词： kenaf genetic map SRAP ISSR RAPD

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genetic map of Cotton with Molecular Markers

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American Journal of Plant Sciences 2015年第2期6卷 289-297页

作者： Camila Campelo de Sousa Livio Carvalho de Figueiredo Maria das Gracas Medina Arrais Sergio Emilio dos Santos Valente Natural Science Department Federal University of Maranhao—Campus CodoCodoBrazil Agriculture Department Federal University of Paraiba—Campus IIIBananeirasBrazil Biology Department Federal University of Piaui—Campus IningaTeresinaBrazil

Cotton (Gossypium spp.) is the most important natural fiber in the world, and its seeds are also used as a food source. Breeding cotton for traits of interest, such as production and processing of fibers, will ensure that this natural product is as competitive as renewable synthetic fibers derived from petroleum. Thus, the mapping of the cotton genome for traits of interest may be the basis for its subsequent use in breeding programs. This work consists of a literature review, with the aim of bringing together works from different research groups working with the mapping of the cotton genome with molecular markers.

关键词： Cotton Genome genetic map Gossypium Molecular Markers Quantitative Trait Loci

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Construction of a genetic Linkage map of Mango Based on SRAP, AFLP and ISSR Markers

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Agricultural Biotechnology 2017年第6期6卷 9-12,16页

作者： Zhiguo DANG Yeyuan CHEN Tropical Crops genetic Resources Institute Chinese Academy of Tropical Agricultural Sciences Danzhou 571737 China

A hybrid Ft population was obtained by crossing between mango cultivars ＇ Jinhuang＇ and ＇ Guifei＇. Among the hybrid population, 98 F1 plants were selected as the mapping population. The molecular genetic map of mango was constructed by linkage analysis by SRAP, AFLP and ISSR markers using Joinmap4. 0 software. The genetic linkage map consisted of 33 linkage groups, with a total genetic distance of 1 561.1 cM. Moreover, the genetic linkage map involved 245 polymorphic markers, including 149 SRAP markers, 90 AFLP markers and 6 ISSR markers, with an average genetic distance of 6.37 cM. This study laid a founda- tion for further investigation of the important agronomic traits of mango.

关键词： Mango SRAP AFLP ISSR genetic map

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An Integrated map of Soybean Physical map and genetic map

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Journal of Northeast Agricultural University(English Edition) 2009年第2期16卷 12-16页

作者： QI Zhaoming LI Hui WU Qiong SUN Yanan LIU Chunyan HU Guohua CHEN Qingshan College of Agriculture Northeast Agricultural University Harbin 150030 China The Crop Research and Breeding Center of Land-Reclamation Harbin 150090 China

Soybean is a major crop in the world, and it is a main source of plant proteins and oil. A lot of soybean genetic maps and physical maps have been constructed, but there are no integrated map between soybean physical map and genetic map. In this study, soybean genome sequence data, released by JGI （US Department of Energy＇s Joint Genome Institute）, had been downloaded. With the software Blast 2.2.16, a total of 161 super sequences were mapped on the soybean public genetic map to construct an integrated map. The length of these super sequences accounted for 73.08% of all the genome sequence. This integrated map could be used for gene cloning, gene mining, and comparative genome of legume.

关键词： soybean genome integrated map physical map genetic map local blast

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Construction of Soybean genetic map with RIL Population by Charleston ×Dongnong 594

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Agricultural Sciences in China 2005年第11期4卷 801-805页

作者： CHEN Qing-shan ZHANG Zhong-chen LIU Chun-yan WANG Wei-quan LI Wen-bin Soybean Research Institute Northeast Agricultural University Harbin 150030 P.R.China Sun Yat-sen University Guangzhou 510275 P.R. China

F2：10 RIL population with 154 lines, crossed by Charleston as female parent and Dongnong 594 as male parent were used. 164 SSR primers were screened with the two parents and amplified on the 154 lines. A new soybean molecular genetics map, named NEAUSRI-GMS, was constructed by mapmaker. The total length of the soybean genetic map is 1 913.5 cM, and the average distance among markers is 11.89 cM. The length of linkage group varied from 0.4 to 309.5 cM, and the markers on the linkage group varied from 2 to 28. The distribution of SSR markers on every linkage group is not even. High density region of markers existed on linkage group A1, C2, and Dla. Compared with 5 soybean genetic maps constructed at home and abroad, NEAUSRI-GMS has high homologous with the public genetic map abroad.

关键词： Soybean genetic map SSR Construction

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