Genomic microsatellite characteristics analysis of Dysommaanguillare (Anguilliformes, Dysommidae), based on high-throughput sequencing technology.

IF 2.5 2区 经济学 Q2 ECONOMICS Journal of Economic Psychology Pub Date : 2023-04-07 eCollection Date: 2023-01-01 DOI:10.3897/BDJ.11.e100068
Ziyan Zhu, Yuping Liu, Shufei Zhang, Sige Wang, Tianyan Yang
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Abstract

Microsatellite loci were screened from the genomic data of Dysommaanguillare and their composition and distribution were analysed by bioinformatics for the first time. The results showed that 4,060,742 scaffolds with a total length of 1,562 Mb were obtained by high-throughput sequencing and 1,160,104 microsatellite loci were obtained by MISA screening, which were distributed on 770,294 scaffolds. The occurrence frequency and relative abundance were 28.57% and 743/Mb, respectively. Amongst the six complete microsatellite types, dinucleotide repeats accounted for the largest proportion (592,234, 51.05%), the highest occurrence frequency (14.58%) and the largest relative abundance (379.27/Mb). A total of 1488 microsatellite repeats were detected in the genome of D.anguillare, amongst which the hexanucleotide repeat motifs were the most abundant (608), followed by pentanucleotide repeat motifs (574), tetranucleotide repeat motifs (232), trinucleotide repeat motifs (59), dinucleotide repeat motifs (11) and mononucleotide repeat motifs (4). The abundance of microsatellites of the same repeat type decreased with the increase of copy numbers. Amongst the six types of nucleotide repeats, the preponderance of repeated motifs are A (191,390, 43.77%), CA (150,240, 25.37%), AAT (13,168, 14.05%), CACG (2,649, 8.14%), TAATG (119, 19.16%) and CCCTAA (190, 19.16%, 7.65%), respectively. The data of the number, distribution and abundance of different types of microsatellites in the genome of D.anguillare were obtained in this study, which would lay a foundation for the development of high-quality microsatellite markers of D.anguillare in the future.

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基于高通量测序技术的Dysommaanguillare(鳗形目,鳐科)基因组微卫星特征分析
首次从痢疾杆菌基因组数据中筛选出微卫星位点,并利用生物信息学方法对其组成和分布进行了分析。结果表明,通过高通量测序获得了总长度为1,562 Mb的4,060,742个支架,通过MISA筛选获得了1,160,104个微卫星位点,这些位点分布在770,294个支架上。出现频率和相对丰度分别为28.57%和743/Mb。在六种完整的微卫星类型中,二核苷酸重复序列所占比例最大(592 234,51.05%),出现频率最高(14.58%),相对丰度最大(379.27/Mb)。鳗鲡基因组中共检测到1488个微卫星重复序列,其中六核苷酸重复序列最多(608个),其次是五核苷酸重复序列(574个)、四核苷酸重复序列(232个)、三核苷酸重复序列(59个)、二核苷酸重复序列(11个)和单核苷酸重复序列(4个)。同一重复类型的微卫星丰度随着拷贝数的增加而降低。在六种核苷酸重复类型中,占优势的重复图案分别是A(191 390,43.77%)、CA(150 240,25.37%)、AAT(13 168,14.05%)、CACG(2 649,8.14%)、TAATG(119,19.16%)和CCCTAA(190,19.16%,7.65%)。本研究获得了鳗鲡基因组中不同类型微卫星的数量、分布和丰度数据,为今后开发高质量的鳗鲡微卫星标记奠定了基础。
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来源期刊
CiteScore
5.20
自引率
31.40%
发文量
69
审稿时长
63 days
期刊介绍: The Journal aims to present research that will improve understanding of behavioral, in particular psychological, aspects of economic phenomena and processes. The Journal seeks to be a channel for the increased interest in using behavioral science methods for the study of economic behavior, and so to contribute to better solutions of societal problems, by stimulating new approaches and new theorizing about economic affairs. Economic psychology as a discipline studies the psychological mechanisms that underlie economic behavior. It deals with preferences, judgments, choices, economic interaction, and factors influencing these, as well as the consequences of judgements and decisions for economic processes and phenomena. This includes the impact of economic institutions upon human behavior and well-being. Studies in economic psychology may relate to different levels of aggregation, from the household and the individual consumer to the macro level of whole nations. Economic behavior in connection with inflation, unemployment, taxation, economic development, as well as consumer information and economic behavior in the market place are thus among the fields of interest. The journal also encourages submissions dealing with social interaction in economic contexts, like bargaining, negotiation, or group decision-making. The Journal of Economic Psychology contains: (a) novel reports of empirical (including: experimental) research on economic behavior; (b) replications studies; (c) assessments of the state of the art in economic psychology; (d) articles providing a theoretical perspective or a frame of reference for the study of economic behavior; (e) articles explaining the implications of theoretical developments for practical applications; (f) book reviews; (g) announcements of meetings, conferences and seminars.
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