Genetic linkage maps for Asian and American lotus constructed using novel SSR markers derived from the genome of sequenced cultivar
文献类型：期刊论文
| 作者 | Liu,Yanling2; Yang,Mei2; Han,Yanni1,2; VanBuren,Robert3; Ming,Ray3; Xu,Liming2; Han,Yuepeng1 |
| 刊名 | BMC Genomics
 |
| 出版日期 | 2012-11-21 |
| 卷号 | 13期号:1 |
| 关键词 | Genetic linkage map Genome sequence Nelumbo SRAP SSR |
| ISSN号 | 1471-2164 |
| DOI | 10.1186/1471-2164-13-653 |
| 英文摘要 | AbstractBackgroundThe genus Nelumbo Adans. comprises two living species, N. nucifera Gaertan. (Asian lotus) and N. lutea Pers. (American lotus). A genetic linkage map is an essential resource for plant genetic studies and crop improvement but has not been generated for Nelumbo. We aimed to develop genomic simple sequence repeat (SSR) markers from the genome sequence and construct two genetic maps for Nelumbo to assist genome assembly and integration of a genetic map with the genome sequence.ResultsA total of 86,089 SSR motifs were identified from the genome sequences. Di- and tri-nucleotide repeat motifs were the most abundant, and accounted for 60.73% and 31.66% of all SSRs, respectively. AG/GA repeats constituted 51.17% of dinucleotide repeat motifs, followed by AT/TA (44.29%). Of 500 SSR primers tested, 386 (77.20%) produced scorable alleles with an average of 2.59 per primer, and 185 (37.00%) showed polymorphism among two parental genotypes, N. nucifera ‘Chinese Antique’ and N. lutea ‘AL1’, and six progenies of their F1 population. The normally segregating markers, which comprised 268 newly developed SSRs, 37 previously published SSRs and 53 sequence-related amplified polymorphism markers, were used for genetic map construction. The map for Asian lotus was 365.67 cM with 47 markers distributed in seven linkage groups. The map for American lotus was 524.51 cM, and contained 177 markers distributed in 11 genetic linkage groups. The number of markers per linkage group ranged from three to 34 with an average genetic distance of 3.97 cM between adjacent markers. Moreover, 171 SSR markers contained in linkage groups were anchored to 97 genomic DNA sequence contigs of ‘Chinese Antique’. The 97 contigs were merged into 60 scaffolds.ConclusionGenetic mapping of SSR markers derived from sequenced contigs in Nelumbo enabled the associated contigs to be anchored in the linkage map and facilitated assembly of the genome sequences of ‘Chinese Antique’. The present study reports the first construction of genetic linkage maps for Nelumbo, which can serve as reference linkage maps to accelerate characterization germplasm, genetic mapping for traits of economic interest, and molecular breeding with marker-assisted selection. |
| 语种 | 英语 |
| WOS记录号 | BMC:10.1186/1471-2164-13-653 |
| 出版者 | BioMed Central |
| 源URL | [http://202.127.146.157/handle/2RYDP1HH/714]  |
| 专题 | 中国科学院武汉植物园 |
| 通讯作者 | Liu,Yanling; Han,Yuepeng |
| 作者单位 | 1.Chinese Academy of Sciences; Key Laboratory of Plant Germplasm Enhancement and Specialty Agricultrue, Wuhan Botanical Garden 2.Wuhan Botanical Garden, Chinese Academy of Sciences; Key Laboratory of Aquatic Plant and Watershed Ecology 3.University of Illinois at Urbana-Champaign; Department of Plant Biology |
| 推荐引用方式 GB/T 7714 | Liu,Yanling,Yang,Mei,Han,Yanni,et al. Genetic linkage maps for Asian and American lotus constructed using novel SSR markers derived from the genome of sequenced cultivar[J]. BMC Genomics,2012,13(1). |
| APA | Liu,Yanling.,Yang,Mei.,Han,Yanni.,VanBuren,Robert.,Ming,Ray.,...&Han,Yuepeng.(2012).Genetic linkage maps for Asian and American lotus constructed using novel SSR markers derived from the genome of sequenced cultivar.BMC Genomics,13(1). |
| MLA | Liu,Yanling,et al."Genetic linkage maps for Asian and American lotus constructed using novel SSR markers derived from the genome of sequenced cultivar".BMC Genomics 13.1(2012). |
入库方式： OAI收割
来源：武汉植物园
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