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Profile of candidate microsatellite markers in Sebastiscus marmoratus using 454 pyrosequencing

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An Erratum to this article was published on 07 March 2017

Abstract

Sebastiscus marmoratus is an important sedentary ovoviparous fish distributed in near-shore coastal waters from the coast of China to Japan. Candidate S. marmoratus microsatellite markers were developed in the present study using 454 pyrosequencing, and the marker profile was analyzed. A total of 2 000 000 raw sequence reads were assembled to reduce redundancy. Among them, 1 043 dinucleotide, 925 trinucleotide, 692 tetranucleotide, and 315 pentanucleotide repeats were detected. AC repeats were the most frequent motifs among the dinucleotide repeats, and AAT was the most abundant among the trinucleotide repeats. AAAT, ATAG, and ATCC were the three most common tetranucleotide motifs, and AAGAT and AATAT were the most dominant pentanucleotide motifs. The greatest numbers of loci and potentially amplifiable loci were found in dinucleotide repeats, whereas trinucleotide repeats had the fewest. In summary, a wide range of candidate microsatellite markers were identified in the present study using a rapid and efficient 454 pyrosequencing approach.

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Authors and Affiliations

  1. Fisheries College, Ocean University of China, Qingdao, 266000, China

    Na Song  (宋娜) & Muyan Chen  (陈慕雁)

  2. Fisheries College, Zhejiang Ocean University, Zhoushan, 316000, China

    Tianxiang Gao  (高天翔)

  3. National Research Institute of Fisheries Science, Fisheries Research Agency, Yokohama, Japan

    Takashi Yanagimoto

Authors
  1. Na Song  (宋娜)
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  2. Muyan Chen  (陈慕雁)
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  3. Tianxiang Gao  (高天翔)
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  4. Takashi Yanagimoto
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Corresponding authors

Correspondence to Tianxiang Gao  (高天翔) or Takashi Yanagimoto.

Additional information

Supported by the Special Fund for Agro-scientific Research in the Public Interest (201303048), the National Natural Science Foundation of China (Nos. 41176117, 31172447), and the National Infrastructure of Fishery Germplasm Resources

SONG Na and CHEN Muyan contributed equally to this work.

An erratum to this article is available at http://dx.doi.org/10.1007/s00343-017-7466-6.

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Song, N., Chen, M., Gao, T. et al. Profile of candidate microsatellite markers in Sebastiscus marmoratus using 454 pyrosequencing. Chin. J. Ocean. Limnol. 35, 198–202 (2017). https://doi.org/10.1007/s00343-016-5103-4

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  • DOI: https://doi.org/10.1007/s00343-016-5103-4

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