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Monden Y, Hara T, Okada Y, et al. Construction of a linkage map based on retrotransposon insertion polymorphisms in sweetpotato via high-throughput sequencing. Breed Sci. 2015;65(2):145-53doi: 10.1270/jsbbs.65.145.
Monden, Y., Hara, T., Okada, Y., Jahana, O., Kobayashi, A., Tabuchi, H., Onaga, S., & Tahara, M. (2015). Construction of a linkage map based on retrotransposon insertion polymorphisms in sweetpotato via high-throughput sequencing. Breeding science, 65(2), 145-53. https://doi.org/10.1270/jsbbs.65.145
Monden, Yuki, et al. "Construction of a linkage map based on retrotransposon insertion polymorphisms in sweetpotato via high-throughput sequencing." Breeding science vol. 65,2 (2015): 145-53. doi: https://doi.org/10.1270/jsbbs.65.145
Monden Y, Hara T, Okada Y, Jahana O, Kobayashi A, Tabuchi H, Onaga S, Tahara M. Construction of a linkage map based on retrotransposon insertion polymorphisms in sweetpotato via high-throughput sequencing. Breed Sci. 2015 Mar;65(2):145-53. doi: 10.1270/jsbbs.65.145. Epub 2015 Mar 01. PMID: 26069444; PMCID: PMC4430505.
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Breed Sci. 2015 Mar;65(2):145-53. doi: 10.1270/jsbbs.65.145. Epub 2015 Mar 01.

Construction of a linkage map based on retrotransposon insertion polymorphisms in sweetpotato via high-throughput sequencing.

Breeding science

Yuki Monden, Takuya Hara, Yoshihiro Okada, Osamu Jahana, Akira Kobayashi, Hiroaki Tabuchi, Shoko Onaga, Makoto Tahara

Affiliations

  1. Graduate School of Environmental and Life Science, Okayama University , 1-1-1 Tsushimanaka, Kita-ku, Okayama, Okayama 700- 8530 , Japan.
  2. National Agriculture and Food Research Organization, Itoman Resident Office, Kyushu Okinawa Agricultural Research Center , 820 Makabe, Itoman, Okinawa 901-0336 , Japan.
  3. Okinawa Prefectural Agricultural Research Center , 820 Makabe, Itoman, Okinawa 901-0336 , Japan.
  4. National Agriculture and Food Research Organization, Kyushu Okinawa Agricultural Research Center , 6651-2 Yokoichi-machi, Miyakonojo, Miyazaki 885-0091 , Japan.

PMID: 26069444 PMCID: PMC4430505 DOI: 10.1270/jsbbs.65.145

Abstract

Sweetpotato (Ipomoea batatas L.) is an outcrossing hexaploid species with a large number of chromosomes (2n = 6x = 90). Although sweetpotato is one of the world's most important crops, genetic analysis of the species has been hindered by its genetic complexity combined with the lack of a whole genome sequence. In the present study, we constructed a genetic linkage map based on retrotransposon insertion polymorphisms using a mapping population derived from a cross between 'Purple Sweet Lord' (PSL) and '90IDN-47' cultivars. High-throughput sequencing and subsequent data analyses identified many Rtsp-1 retrotransposon insertion sites, and their allele dosages (simplex, duplex, triplex, or double-simplex) were determined based on segregation ratios in the mapping population. Using a pseudo-testcross strategy, 43 and 47 linkage groups were generated for PSL and 90IDN-47, respectively. Interestingly, most of these insertions (~90%) were present in a simplex manner, indicating their utility for linkage map construction in polyploid species. Additionally, our approach led to savings of time and labor for genotyping. Although the number of markers herein was insufficient for map-based cloning, our trial analysis exhibited the utility of retrotransposon-based markers for linkage map construction in sweetpotato.

Keywords: high-throughput sequencing; linkage map; polyploidy; pseudo-testcross; retrotransposon; sweetpotato

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