Mining of EST-SSR markers in clam Meretrix meretrix larvae from 454 shotgun transcriptome
文献类型：期刊论文
| 作者 | Wang, Hongxia; Huan, Pin ; Lu, Xia; Liu, Baozhong
|
| 刊名 | GENES & GENETIC SYSTEMS
 |
| 出版日期 | 2011-06-01 |
| 卷号 | 86期号:3页码:197-205 |
| 关键词 | High-throughput Marker Identification Est-ssr Developmental Stages Meretrix Meretrix |
| ISSN号 | 1341-7568 |
| 文献子类 | Article |
| 英文摘要 | A total of 2,970 EST-SSRs (2.38%) were identified by transcriptome sequencing of clam Meretrix meretrix (751,970 reads, similar to 310.82 Mbp), using 454 Genome Sequencer FLX next-generation sequencing platform. Dinucleotide SSR was the dominant repeat type (40.2%), followed by trinucleotide (37.8%), tetranuleotide (12.0%) and pentanucleotide (2.0%) SSR. The dominant repeat motif was AT (71.3%) in the dinucleotide SSR type and AAC (45.6%) in the trinucleotide SSR type. Nearly 79% of all microsatellites had flanking sequences suitable for PCR primer design. Half of PAL were found to be polymorphic in a subset of 40 primer pairs randomly selected. Specifically, the density of dinucleotide, trinucleotide and tetranucleotide repeats showed significant variation among four development stages (trochophore, D-veliger, pediveliger and postlarva). The results suggested that dinucleotide, trinucleotide and tetranucleotide SSRs may play an important role in contributing to the different expression profiles in larval stages.; A total of 2,970 EST-SSRs (2.38%) were identified by transcriptome sequencing of clam Meretrix meretrix (751,970 reads, similar to 310.82 Mbp), using 454 Genome Sequencer FLX next-generation sequencing platform. Dinucleotide SSR was the dominant repeat type (40.2%), followed by trinucleotide (37.8%), tetranuleotide (12.0%) and pentanucleotide (2.0%) SSR. The dominant repeat motif was AT (71.3%) in the dinucleotide SSR type and AAC (45.6%) in the trinucleotide SSR type. Nearly 79% of all microsatellites had flanking sequences suitable for PCR primer design. Half of PAL were found to be polymorphic in a subset of 40 primer pairs randomly selected. Specifically, the density of dinucleotide, trinucleotide and tetranucleotide repeats showed significant variation among four development stages (trochophore, D-veliger, pediveliger and postlarva). The results suggested that dinucleotide, trinucleotide and tetranucleotide SSRs may play an important role in contributing to the different expression profiles in larval stages. |
| 学科主题 | Biochemistry & Molecular Biology ; Genetics & Heredity |
| 语种 | 英语 |
| WOS记录号 | WOS:000297428200006 |
| 公开日期 | 2012-07-03 |
| 源URL | [http://ir.qdio.ac.cn/handle/337002/11898]  |
| 专题 | 海洋研究所_实验海洋生物学重点实验室 |
| 作者单位 | Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Peoples R China |
| 推荐引用方式 GB/T 7714 | Wang, Hongxia,Huan, Pin,Lu, Xia,et al. Mining of EST-SSR markers in clam Meretrix meretrix larvae from 454 shotgun transcriptome[J]. GENES & GENETIC SYSTEMS,2011,86(3):197-205. |
| APA | Wang, Hongxia,Huan, Pin,Lu, Xia,&Liu, Baozhong.(2011).Mining of EST-SSR markers in clam Meretrix meretrix larvae from 454 shotgun transcriptome.GENES & GENETIC SYSTEMS,86(3),197-205. |
| MLA | Wang, Hongxia,et al."Mining of EST-SSR markers in clam Meretrix meretrix larvae from 454 shotgun transcriptome".GENES & GENETIC SYSTEMS 86.3(2011):197-205. |
入库方式： OAI收割
来源：海洋研究所
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