The red bayberry genome and genetic basis of sex determination

Hui Min Jia, Hui Juan Jia, Qing Le Cai, Yan Wang, Hai Bo Zhao, Wei Fei Yang, Guo Yun Wang, Ying Hui Li, Dong Liang Zhan, Yu Tong Shen, Qing Feng Niu, Le Chang, Jie Qiu, Lan Zhao, Han Bing Xie, Wan Yi Fu, Jing Jin, Xiong Wei Li, Yun Jiao, Chao Chao Zhou & 7 others Ting Tu, Chun Yan Chai, Jin Long Gao, Long Jiang Fan, Eric van de Weg, Jun Yi Wang, Zhong Shan Gao

Research output: Contribution to journalArticleAcademicpeer-review

6 Citations (Scopus)

Abstract

Morella rubra, red bayberry, is an economically important fruit tree in south China. Here, we assembled the first high-quality genome for both a female and a male individual of red bayberry. The genome size was 313-Mb, and 90% sequences were assembled into eight pseudo chromosome molecules, with 32 493 predicted genes. By whole-genome comparison between the female and male and association analysis with sequences of bulked and individual DNA samples from female and male, a 59-Kb region determining female was identified and located on distal end of pseudochromosome 8, which contains abundant transposable element and seven putative genes, four of them are related to sex floral development. This 59-Kb female-specific region was likely to be derived from duplication and rearrangement of paralogous genes and retained non-recombinant in the female-specific region. Sex-specific molecular markers developed from candidate genes co-segregated with sex in a genetically diverse female and male germplasm. We propose sex determination follow the ZW model of female heterogamety. The genome sequence of red bayberry provides a valuable resource for plant sex chromosome evolution and also provides important insights for molecular biology, genetics and modern breeding in Myricaceae family.

LanguageEnglish
Pages397-409
JournalPlant Biotechnology Journal
Volume17
Issue number2
DOIs
Publication statusPublished - 10 Jul 2018

Fingerprint

Myrica
Sex Determination Processes
Genome
genome
gender
Myricaceae
Molecular Biology
genes
Plant Chromosomes
Morella rubra
Genes
Genome Size
Sexual Development
Sex Chromosomes
DNA Transposable Elements
Gene Rearrangement
sex chromosomes
fruit trees
transposons
molecular biology

Keywords

  • genome
  • Morella rubra
  • sex-determining region
  • sex-linked marker

Cite this

Jia, H. M., Jia, H. J., Cai, Q. L., Wang, Y., Zhao, H. B., Yang, W. F., ... Gao, Z. S. (2018). The red bayberry genome and genetic basis of sex determination. Plant Biotechnology Journal, 17(2), 397-409. https://doi.org/10.1111/pbi.12985
Jia, Hui Min ; Jia, Hui Juan ; Cai, Qing Le ; Wang, Yan ; Zhao, Hai Bo ; Yang, Wei Fei ; Wang, Guo Yun ; Li, Ying Hui ; Zhan, Dong Liang ; Shen, Yu Tong ; Niu, Qing Feng ; Chang, Le ; Qiu, Jie ; Zhao, Lan ; Xie, Han Bing ; Fu, Wan Yi ; Jin, Jing ; Li, Xiong Wei ; Jiao, Yun ; Zhou, Chao Chao ; Tu, Ting ; Chai, Chun Yan ; Gao, Jin Long ; Fan, Long Jiang ; van de Weg, Eric ; Wang, Jun Yi ; Gao, Zhong Shan. / The red bayberry genome and genetic basis of sex determination. In: Plant Biotechnology Journal. 2018 ; Vol. 17, No. 2. pp. 397-409.
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title = "The red bayberry genome and genetic basis of sex determination",
abstract = "Morella rubra, red bayberry, is an economically important fruit tree in south China. Here, we assembled the first high-quality genome for both a female and a male individual of red bayberry. The genome size was 313-Mb, and 90{\%} sequences were assembled into eight pseudo chromosome molecules, with 32 493 predicted genes. By whole-genome comparison between the female and male and association analysis with sequences of bulked and individual DNA samples from female and male, a 59-Kb region determining female was identified and located on distal end of pseudochromosome 8, which contains abundant transposable element and seven putative genes, four of them are related to sex floral development. This 59-Kb female-specific region was likely to be derived from duplication and rearrangement of paralogous genes and retained non-recombinant in the female-specific region. Sex-specific molecular markers developed from candidate genes co-segregated with sex in a genetically diverse female and male germplasm. We propose sex determination follow the ZW model of female heterogamety. The genome sequence of red bayberry provides a valuable resource for plant sex chromosome evolution and also provides important insights for molecular biology, genetics and modern breeding in Myricaceae family.",
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Jia, HM, Jia, HJ, Cai, QL, Wang, Y, Zhao, HB, Yang, WF, Wang, GY, Li, YH, Zhan, DL, Shen, YT, Niu, QF, Chang, L, Qiu, J, Zhao, L, Xie, HB, Fu, WY, Jin, J, Li, XW, Jiao, Y, Zhou, CC, Tu, T, Chai, CY, Gao, JL, Fan, LJ, van de Weg, E, Wang, JY & Gao, ZS 2018, 'The red bayberry genome and genetic basis of sex determination', Plant Biotechnology Journal, vol. 17, no. 2, pp. 397-409. https://doi.org/10.1111/pbi.12985

The red bayberry genome and genetic basis of sex determination. / Jia, Hui Min; Jia, Hui Juan; Cai, Qing Le; Wang, Yan; Zhao, Hai Bo; Yang, Wei Fei; Wang, Guo Yun; Li, Ying Hui; Zhan, Dong Liang; Shen, Yu Tong; Niu, Qing Feng; Chang, Le; Qiu, Jie; Zhao, Lan; Xie, Han Bing; Fu, Wan Yi; Jin, Jing; Li, Xiong Wei; Jiao, Yun; Zhou, Chao Chao; Tu, Ting; Chai, Chun Yan; Gao, Jin Long; Fan, Long Jiang; van de Weg, Eric; Wang, Jun Yi; Gao, Zhong Shan.

In: Plant Biotechnology Journal, Vol. 17, No. 2, 10.07.2018, p. 397-409.

Research output: Contribution to journalArticleAcademicpeer-review

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AU - Zhao, Hai Bo

AU - Yang, Wei Fei

AU - Wang, Guo Yun

AU - Li, Ying Hui

AU - Zhan, Dong Liang

AU - Shen, Yu Tong

AU - Niu, Qing Feng

AU - Chang, Le

AU - Qiu, Jie

AU - Zhao, Lan

AU - Xie, Han Bing

AU - Fu, Wan Yi

AU - Jin, Jing

AU - Li, Xiong Wei

AU - Jiao, Yun

AU - Zhou, Chao Chao

AU - Tu, Ting

AU - Chai, Chun Yan

AU - Gao, Jin Long

AU - Fan, Long Jiang

AU - van de Weg, Eric

AU - Wang, Jun Yi

AU - Gao, Zhong Shan

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AB - Morella rubra, red bayberry, is an economically important fruit tree in south China. Here, we assembled the first high-quality genome for both a female and a male individual of red bayberry. The genome size was 313-Mb, and 90% sequences were assembled into eight pseudo chromosome molecules, with 32 493 predicted genes. By whole-genome comparison between the female and male and association analysis with sequences of bulked and individual DNA samples from female and male, a 59-Kb region determining female was identified and located on distal end of pseudochromosome 8, which contains abundant transposable element and seven putative genes, four of them are related to sex floral development. This 59-Kb female-specific region was likely to be derived from duplication and rearrangement of paralogous genes and retained non-recombinant in the female-specific region. Sex-specific molecular markers developed from candidate genes co-segregated with sex in a genetically diverse female and male germplasm. We propose sex determination follow the ZW model of female heterogamety. The genome sequence of red bayberry provides a valuable resource for plant sex chromosome evolution and also provides important insights for molecular biology, genetics and modern breeding in Myricaceae family.

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Jia HM, Jia HJ, Cai QL, Wang Y, Zhao HB, Yang WF et al. The red bayberry genome and genetic basis of sex determination. Plant Biotechnology Journal. 2018 Jul 10;17(2):397-409. https://doi.org/10.1111/pbi.12985