Identification of SNPs related to hypermelanosis of the blind side by transcriptome profiling in the Japanese flounder (Paralichthys olivaceus).
Identification of SNPs related to hypermelanosis of the blind side by transcriptome profiling in the Japanese flounder (Paralichthys olivaceus).
复制标题
通过日本牙鲆 (Paralichthys olivaceus) 转录组分析鉴定与盲侧黑色素过多相关的 SNP。
DOI：
10.1016/j.aquaculture.2019.734906
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发表时间：
2020
期刊：
影响因子：
4.5
通讯作者：
Bao B
中科院分区：
文献类型：
--
作者：
Peng K;Zhang B;Xu J;Zhao N;Jia L;Che J;He X;Liu K;Bao B
在比目鱼中，体色不对称和色素沉着不良是许多水产养殖从业者面临的主要问题。然而，比目鱼色素沉着不良的分子机制仍不清楚。在这项研究中，我们使用novotranscriptome测序和组装来构建日本比目鱼，Paralichthys olivaceus的皮肤转录组;我们从正常鱼的眼侧收集皮肤样品，从黑色素沉着鱼的盲侧收集色素沉着皮肤和非色素沉着皮肤。在12个基因的编码区发现了6条色素合成相关KEGG通路的22个SNP位点，其中位于环腺苷酸依赖性转录因子（cyclicAMP-dependent transcription factor，ATF）-4-like基因上的2个SNP（ATF-3004-G/A和ATF-3155-C/T）可能与盲侧黑色素沉着症相关。据我们所知，这是第一次在比目鱼中发现与色素沉着不良相关的SNP。在ATF-3004-G/A位点上，正常牙鲆的基因型以GG纯合型为主（占64.71%），而高黑色素症牙鲆的基因型以GA杂合型为主（占46%），其次为GG（38%）和AA（16%）。在ATF-3155-C/T基因座上，正常牙鲆的CC纯合子占92.16%，而高黑色素症牙鲆的基因型主要为GA杂合子（52.94%），其次为GG（45.10%）和AA（1.96%）。这两个SNP位点可用于筛选和淘汰不正常亲本，选育优良品种。橄榄色。这两个SNPS与黑色素沉着症相关，位于ATF 4，其参与甲状腺激素合成和色素合成相关途径。ATF 4在高黑素血症患者盲侧皮肤中的表达高于对照组。橄榄色，无论皮肤是有色还是非有色。正常人眼侧皮肤ATF 4 mRNA相对表达量与盲侧相比差异有显著性意义。olivaceus和hypermelanoticP.而高黑素血症患者盲侧色素皮肤与非色素皮肤之间无显著性差异。橄榄色。
In flatfish, body coloration asymmetry and malpigmentation are major issues faced by many aquaculture practitioners. However, the molecular mechanism underlying malpigmentation in flatfish is still unclear. In this study, we usedde novotranscriptome sequencing and assembly to construct the skin transcriptome of the Japanese flounder,Paralichthys olivaceus; we collected skin samples from the ocular side of normal fish and pigmented skin and non-pigmented skin from the blind side of hypermelanotic fish. Twenty-two SNP loci at the coding regions of 12 genes were identified as candidate SNPs in six pigment synthesis-related KEGG pathways, and two SNPs located on the cyclic AMP-dependent transcription factor (ATF)-4-like gene, named ATF-3004-G/A and ATF-3155-C/T, may be associated with hypermelanosis in the blind side. To the best of our knowledge, this is the first time that SNPs associated with malpigmentation has been identified in flatfish. The predominant genotypes of normal flounder at the ATF-3004-G/A locus were GG homozygous (accounting for 64.71%), whereas the predominant genotypes of hypermelanotic flounder were GA heterozygous (accounting for 46%), followed by GG (38%) and AA (16%). At the ATF-3155-C/T locus, CC homozygotes accounted for 92.16% in the normal flounders, whereas the predominant genotypes of hypermelanotic flounder were GA heterozygous (accounting for 52.94%), followed by GG (45.10%) and AA (1.96%). The two SNPs may be used to screen and eliminate the abnormal parents for breeding fine varieties ofP. olivaceus. The two SNPS are associated with hypermelanosis and located inATF4, which is involved in both thyroid hormone synthesis and pigment synthesis-related pathways. The expression ofATF4was higher in the skin on the blind side of hypermelanoticP. olivaceus, whatever the skin was pigmented or non-pigmented. The relative expression ofATF4mRNA on the ocular side skin was significantly different from that on the blind side of normalP. olivaceusas well as that of hypermelanoticP. olivaceus, whereas no significant differences were detected between the blind sides pigment skin and non-pigment skin of hypermelanoticP. olivaceus.