Multi-species protein similarity clustering reveals novel expanded immune gene families in the eastern oyster Crassostrea virginica
Multi-species protein similarity clustering reveals novel expanded immune gene families in the eastern oyster Crassostrea virginica
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DOI：
10.1016/j.fsi.2016.03.157
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发表时间：
2016-06-01
影响因子：
4.7
通讯作者：
Gomez-Chiarri, Marta
中科院分区：
文献类型：
--
作者：
McDowell, Ian C.;Modak, Tejashree H.;Gomez-Chiarri, Marta
非模式物种的比较基因组学研究突出了无脊椎动物宿主如何拥有复杂多样的免疫分子库。在特定的免疫基因家族的多样化水平似乎不同的无脊椎动物谱系之间，甚至物种之间的谱系，反映的差异不仅在进化史，而且在生活史，环境生态位，和病原体暴露。这项研究的目的是确定在东部牡蛎Crassostrea virginica中经历高度多样化的免疫相关基因家族。家族包含1）在东部牡蛎中响应细菌挑战而差异表达的转录物和2）与其他物种相比数量更多的转录物，包括编码C1 q和C型凝集素结构域的蛋白质的那些（C1 qDC和CTLDC）、免疫相关蛋白的GTP酶（GIMAP）、清道夫受体（SR）、含纤维蛋白原-C结构域的蛋白（也称为FREPs）、多巴胺β-水解酶（DBH）、干扰素诱导型44（IFI 44）、丝氨酸蛋白酶抑制剂、apextrin和皮连蛋白。系统发育分析的两个家庭显着扩大在双壳类，IFI 44和GIMAP，原口类和后口类内呈斑块状分布，表明多个独立的损失和谱系特定的扩展。通过脊椎动物和无脊椎动物门广泛分布的更广泛的非模式物种的基因组信息的增加的可用性可能会导致免疫基因多样化的机制的知识的改进。(C)2016爱思唯尔有限公司版权所有
Comparative genomics research in non-model species has highlighted how invertebrate hosts possess complex diversified repertoires of immune molecules. The levels of diversification in particular immune gene families appear to differ between invertebrate lineages and even between species within lineages, reflecting differences not only in evolutionary histories, but also in life histories, environmental niches, and pathogen exposures. The goal of this research was to identify immune-related gene families experiencing high levels of diversification in eastern oysters, Crassostrea virginica. Families containing 1) transcripts differentially expressed in eastern oysters in response to bacterial challenge and 2) a larger number of transcripts compared to other species included those coding for the C1q and C-type lectin domain containing proteins (C1qDC and CTLDC), GTPase of the immune-associated proteins (GIMAP), scavenger receptors (SR), fibrinogen-C domain containing proteins (also known as FREPs), dopamine beta-hydrolase (DBH), interferon-inducible 44 (IFI44), serine protease inhibitors, apextrin, and dermatopontin. Phylogenetic analysis of two of the families significantly expanded in bivalves, IFI44 and GIMAP, showed a patchy distribution within both protostomes and deuterostomes, suggesting multiple independent losses and lineage-specific expansions. Increased availability of genomic information for a broader range of non-model species broadly distributed through vertebrate and invertebrate phyla will likely lead to improved knowledge on mechanisms of immune-gene diversification. (C) 2016 Elsevier Ltd. All rights reserved.