iScience (Sep 2018)
Two Likely Auto-Tetraploidization Events Shaped Kiwifruit Genome and Contributed to Establishment of the Actinidiaceae Family
- Jin-Peng Wang,
- Ji-Gao Yu,
- Jing Li,
- Peng-Chuan Sun,
- Li Wang,
- Jia-Qing Yuan,
- Fan-Bo Meng,
- Sang-Rong Sun,
- Yu-Xian Li,
- Tian-Yu Lei,
- Yu-Xin Pan,
- Wei-Na Ge,
- Zhen-Yi Wang,
- Lan Zhang,
- Xiao-Ming Song,
- Chao Liu,
- Xue-Qian Duan,
- Shao-Qi Shen,
- Yang-qin Xie,
- Yue Hou,
- Jin Zhang,
- Jian-Yu Wang,
- Xiyin Wang
Affiliations
- Jin-Peng Wang
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Ji-Gao Yu
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Jing Li
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Peng-Chuan Sun
- Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Li Wang
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Jia-Qing Yuan
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Fan-Bo Meng
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Sang-Rong Sun
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Yu-Xian Li
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Tian-Yu Lei
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Yu-Xin Pan
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Wei-Na Ge
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Zhen-Yi Wang
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Lan Zhang
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Xiao-Ming Song
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Chao Liu
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Xue-Qian Duan
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Shao-Qi Shen
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Yang-qin Xie
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Yue Hou
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Jin Zhang
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Jian-Yu Wang
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China
- Xiyin Wang
- School of Life Sciences, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Center for Genomics and Computational Biology, North China University of Science and Technology, No.21 Bohai Road, Caofeidian, Tangshan, Hebei 063210, China; Corresponding author
- Journal volume & issue
-
Vol. 7
pp. 230 – 240
Abstract
Summary: The genome of kiwifruit (Actinidia chinensis) was sequenced previously, the first in the Actinidiaceae family. It was shown to have been affected by polyploidization events, the nature of which has been elusive. Here, we performed a reanalysis of the genome and found clear evidence of 2 tetraploidization events, with one occurring ∼50–57 million years ago (Mya) and the other ∼18–20 Mya. Two subgenomes produced by each event have been under balanced fractionation. Moreover, genes were revealed to express in a balanced way between duplicated copies of chromosomes. Besides, lowered evolutionary rates of kiwifruit genes were observed. These findings could be explained by the likely auto-tetraploidization nature of the polyploidization events. Besides, we found that polyploidy contributed to the expansion of key functional genes, e.g., vitamin C biosynthesis genes. The present work also provided an important comparative genomics resource in the Actinidiaceae and related families. : Genetics; Evolutionary Biology; Plant Biology; Omics Subject Areas: Genetics, Evolutionary Biology, Plant Biology, Omics
