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| Development of Vibrio spp. infection resistance related SNP markers using multiplex SNaPshot genotyping method in the clam Meretrix meretrix | |
Nie, Qing1,2 ; Yue, Xin1; Liu, Baozhong1
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| 2015-04-01 | |
| 发表期刊 | FISH & SHELLFISH IMMUNOLOGY
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| 卷号 | 43期号:2页码:469-476 |
| 文章类型 | Article |
| 摘要 | The clam Meretrix meretrix is a commercially important mollusc species in the coastal areas of South and Southeast Asia. In the present study, large-scale SNPs were genotyped by the Multiplex SNaPshot genotyping method among the stocks of M. meretrix with different Vibrio spp. infection resistance profile. Firstly, the AUTOSNP software was applied to mine SNPs from M. meretrix transcriptome, and 323 SNP loci (including 120 indels) located on 64 contigs were selected based on Uniprot-GO associations. Then, 38 polymorphic SNP loci located on 15 contigs were genotyped successfully in the clam stocks with different resistance to Vibrio parahaemolyticus infection (11-R and 11-S groups). Pearson's Chi-square test was applied to compare the allele and genotype frequency distributions of the SNPs between the different stocks, and seven SNP markers located on three contigs were found to be associated with V. parahaemolyticus infection resistance trait. Haplotype-association analysis showed that six haplotypes had significantly different frequency distributions in 11-S and 11-R (P < 0.05). With selective genotyping between 09-R and 09-C populations, which had different resistance to Vibrio harveyi infection, four out of the seven selected SNPs had significantly different distributions (P < 0.05) and therefore they were considered to be associated with Vibrio spp. infection resistance. Sequence alignments and annotations indicated that the contigs containing the associated SNPs had high similarity to the immune related genes. All these results would be useful for the future marker-assisted selection of M. meretrix strains with high Vibrio spp. infection resistance. (C) 2015 Elsevier Ltd. All rights reserved. |
| 关键词 | Meretrix Meretrix Single Nucleotide Polymorphism (Snp) Selective Genotyping Vibrio Spp. Infection Resistance Marker-trait Association Analysis |
| DOI | 10.1016/j.fsi.2015.01.030 |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000352923700019 |
| 引用统计 | |
| 文献类型 | 期刊论文 |
| 条目标识符 | http://ir.qdio.ac.cn/handle/337002/25483 |
| 专题 | 实验海洋生物学重点实验室 |
| 作者单位 | 1.Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Peoples R China 2.Univ Chinese Acad Sci, Beijing 100039, Peoples R China |
| 第一作者单位 | 实验海洋生物学重点实验室 |
| 推荐引用方式 GB/T 7714 | Nie, Qing,Yue, Xin,Liu, Baozhong. Development of Vibrio spp. infection resistance related SNP markers using multiplex SNaPshot genotyping method in the clam Meretrix meretrix[J]. FISH & SHELLFISH IMMUNOLOGY,2015,43(2):469-476. |
| APA | Nie, Qing,Yue, Xin,&Liu, Baozhong.(2015).Development of Vibrio spp. infection resistance related SNP markers using multiplex SNaPshot genotyping method in the clam Meretrix meretrix.FISH & SHELLFISH IMMUNOLOGY,43(2),469-476. |
| MLA | Nie, Qing,et al."Development of Vibrio spp. infection resistance related SNP markers using multiplex SNaPshot genotyping method in the clam Meretrix meretrix".FISH & SHELLFISH IMMUNOLOGY 43.2(2015):469-476. |
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