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The pineapple genome and the evolution of CAM photosynthesis.


ABSTRACT: Pineapple (Ananas comosus (L.) Merr.) is the most economically valuable crop possessing crassulacean acid metabolism (CAM), a photosynthetic carbon assimilation pathway with high water-use efficiency, and the second most important tropical fruit. We sequenced the genomes of pineapple varieties F153 and MD2 and a wild pineapple relative, Ananas bracteatus accession CB5. The pineapple genome has one fewer ancient whole-genome duplication event than sequenced grass genomes and a conserved karyotype with seven chromosomes from before the ? duplication event. The pineapple lineage has transitioned from C3 photosynthesis to CAM, with CAM-related genes exhibiting a diel expression pattern in photosynthetic tissues. CAM pathway genes were enriched with cis-regulatory elements associated with the regulation of circadian clock genes, providing the first cis-regulatory link between CAM and circadian clock regulation. Pineapple CAM photosynthesis evolved by the reconfiguration of pathways in C3 plants, through the regulatory neofunctionalization of preexisting genes and not through the acquisition of neofunctionalized genes via whole-genome or tandem gene duplication.

SUBMITTER: Ming R 

PROVIDER: S-EPMC4867222 | biostudies-literature | 2015 Dec

REPOSITORIES: biostudies-literature

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The pineapple genome and the evolution of CAM photosynthesis.

Ming Ray R   VanBuren Robert R   Wai Ching Man CM   Tang Haibao H   Schatz Michael C MC   Bowers John E JE   Lyons Eric E   Wang Ming-Li ML   Chen Jung J   Biggers Eric E   Zhang Jisen J   Huang Lixian L   Zhang Lingmao L   Miao Wenjing W   Zhang Jian J   Ye Zhangyao Z   Miao Chenyong C   Lin Zhicong Z   Wang Hao H   Zhou Hongye H   Yim Won C WC   Priest Henry D HD   Zheng Chunfang C   Woodhouse Margaret M   Edger Patrick P PP   Guyot Romain R   Guo Hao-Bo HB   Guo Hong H   Zheng Guangyong G   Singh Ratnesh R   Sharma Anupma A   Min Xiangjia X   Zheng Yun Y   Lee Hayan H   Gurtowski James J   Sedlazeck Fritz J FJ   Harkess Alex A   McKain Michael R MR   Liao Zhenyang Z   Fang Jingping J   Liu Juan J   Zhang Xiaodan X   Zhang Qing Q   Hu Weichang W   Qin Yuan Y   Wang Kai K   Chen Li-Yu LY   Shirley Neil N   Lin Yann-Rong YR   Liu Li-Yu LY   Hernandez Alvaro G AG   Wright Chris L CL   Bulone Vincent V   Tuskan Gerald A GA   Heath Katy K   Zee Francis F   Moore Paul H PH   Sunkar Ramanjulu R   Leebens-Mack James H JH   Mockler Todd T   Bennetzen Jeffrey L JL   Freeling Michael M   Sankoff David D   Paterson Andrew H AH   Zhu Xinguang X   Yang Xiaohan X   Smith J Andrew C JA   Cushman John C JC   Paull Robert E RE   Yu Qingyi Q  

Nature genetics 20151102 12


Pineapple (Ananas comosus (L.) Merr.) is the most economically valuable crop possessing crassulacean acid metabolism (CAM), a photosynthetic carbon assimilation pathway with high water-use efficiency, and the second most important tropical fruit. We sequenced the genomes of pineapple varieties F153 and MD2 and a wild pineapple relative, Ananas bracteatus accession CB5. The pineapple genome has one fewer ancient whole-genome duplication event than sequenced grass genomes and a conserved karyotype  ...[more]

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