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Wolfberry genomes and the evolution of Lycium (Solanaceae).


ABSTRACT: Wolfberry Lycium, an economically important genus of the Solanaceae family, contains approximately 80 species and shows a fragmented distribution pattern among the Northern and Southern Hemispheres. Although several herbaceous species of Solanaceae have been subjected to genome sequencing, thus far, no genome sequences of woody representatives have been available. Here, we sequenced the genomes of 13 perennial woody species of Lycium, with a focus on Lycium barbarum. Integration with other genomes provides clear evidence supporting a whole-genome triplication (WGT) event shared by all hitherto sequenced solanaceous plants, which occurred shortly after the divergence of Solanaceae and Convolvulaceae. We identified new gene families and gene family expansions and contractions that first appeared in Solanaceae. Based on the identification of self-incompatibility related-gene families, we inferred that hybridization hotspots are enriched for genes that might be functioning in gametophytic self-incompatibility pathways in wolfberry. Extremely low expression of LOCULE NUBER (LC) and COLORLESS NON-RIPENING (CNR) orthologous genes during Lycium fruit development and ripening processes suggests functional diversification of these two genes between Lycium and tomato. The existence of additional flowering locus C-like MADS-box genes might correlate with the perennial flowering cycle of Lycium. Differential gene expression involved in the lignin biosynthetic pathway between Lycium and tomato likely illustrates woody and herbaceous differentiation. We also provide evidence that Lycium migrated from Africa into Asia, and subsequently from Asia into North America. Our results provide functional insights into Solanaceae origins, evolution and diversification.

SUBMITTER: Cao YL 

PROVIDER: S-EPMC8175696 | biostudies-literature | 2021 Jun

REPOSITORIES: biostudies-literature

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Wolfberry genomes and the evolution of Lycium (Solanaceae).

Cao You-Long YL   Li Yan-Long YL   Fan Yun-Fang YF   Li Zhen Z   Yoshida Kouki K   Wang Jie-Yu JY   Ma Xiao-Kai XK   Wang Ning N   Mitsuda Nobutaka N   Kotake Toshihisa T   Ishimizu Takeshi T   Tsai Kun-Chan KC   Niu Shan-Ce SC   Zhang Diyang D   Sun Wei-Hong WH   Luo Qing Q   Zhao Jian-Hua JH   Yin Yue Y   Zhang Bo B   Wang Jun-Yi JY   Qin Ken K   An Wei W   He Jun J   Dai Guo-Li GL   Wang Ya-Jun YJ   Shi Zhi-Gang ZG   Jiao En-Ning EN   Wu Peng-Ju PJ   Liu Xuedie X   Liu Bin B   Liao Xing-Yu XY   Jiang Yu-Ting YT   Yu Xia X   Hao Yang Y   Xu Xin-Yu XY   Zou Shuang-Quan SQ   Li Ming-He MH   Hsiao Yu-Yun YY   Lin Yu-Fu YF   Liang Chieh-Kai CK   Chen You-Yi YY   Wu Wan-Lin WL   Lu Hsiang-Chai HC   Lan Si-Ren SR   Wang Zhi-Wen ZW   Zhao Xiang X   Zhong Wen-Ying WY   Yeh Chuan-Ming CM   Tsai Wen-Chieh WC   Van de Peer Yves Y   Liu Zhong-Jian ZJ  

Communications biology 20210603 1


Wolfberry Lycium, an economically important genus of the Solanaceae family, contains approximately 80 species and shows a fragmented distribution pattern among the Northern and Southern Hemispheres. Although several herbaceous species of Solanaceae have been subjected to genome sequencing, thus far, no genome sequences of woody representatives have been available. Here, we sequenced the genomes of 13 perennial woody species of Lycium, with a focus on Lycium barbarum. Integration with other genom  ...[more]

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