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The bracteatus pineapple genome and domestication of clonally propagated crops.
Chen, Li-Yu; VanBuren, Robert; Paris, Margot; Zhou, Hongye; Zhang, Xingtan; Wai, Ching Man; Yan, Hansong; Chen, Shuai; Alonge, Michael; Ramakrishnan, Srividya; Liao, Zhenyang; Liu, Juan; Lin, Jishan; Yue, Jingjing; Fatima, Mahpara; Lin, Zhicong; Zhang, Jisen; Huang, Lixian; Wang, Hao; Hwa, Teh-Yang; Kao, Shu-Min; Choi, Jae Young; Sharma, Anupma; Song, Jian; Wang, Lulu; Yim, Won C; Cushman, John C; Paull, Robert E; Matsumoto, Tracie; Qin, Yuan; Wu, Qingsong; Wang, Jianping; Yu, Qingyi; Wu, Jun; Zhang, Shaoling; Boches, Peter; Tung, Chih-Wei; Wang, Ming-Li; Coppens d'Eeckenbrugge, Geo; Sanewski, Garth M; Purugganan, Michael D; Schatz, Michael C; Bennetzen, Jeffrey L; Lexer, Christian; Ming, Ray.
Afiliación
  • Chen LY; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • VanBuren R; Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
  • Paris M; Department of Horticulture, Michigan State University, East Lansing, MI, USA.
  • Zhou H; Department of Biology, University of Fribourg, Fribourg, Switzerland.
  • Zhang X; Department of Genetics, University of Georgia, Athens, GA, USA.
  • Wai CM; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Yan H; Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
  • Chen S; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Alonge M; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Ramakrishnan S; Department of Computer Science, Johns Hopkins University, Baltimore, MD, USA.
  • Liao Z; Department of Computer Science, Johns Hopkins University, Baltimore, MD, USA.
  • Liu J; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Lin J; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Yue J; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Fatima M; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Lin Z; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Zhang J; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Huang L; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Wang H; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Hwa TY; Department of Genetics, University of Georgia, Athens, GA, USA.
  • Kao SM; Department of Agronomy, National Taiwan University, Taipei, ROC.
  • Choi JY; Department of Agronomy, National Taiwan University, Taipei, ROC.
  • Sharma A; Department of Biology, Center for Genomics and Systems Biology, New York University, NY, New York, USA.
  • Song J; Texas A&M AgriLife Research, Texas A&M University System, Dallas, TX, USA.
  • Wang L; Department of Agronomy, University of Florida, Gainesville, FL, USA.
  • Yim WC; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Cushman JC; Department of Biochemistry and Molecular Biology, MS330, University of Nevada, Reno, NV, USA.
  • Paull RE; Department of Biochemistry and Molecular Biology, MS330, University of Nevada, Reno, NV, USA.
  • Matsumoto T; Department of Tropical Plant and Soil Sciences, University of Hawaii at Manoa, Honolulu, HI, USA.
  • Qin Y; USDA-ARS, Pacific Basin Agricultural Research Center, Hilo, HI, USA.
  • Wu Q; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Wang J; South Subtropical Crops Research Institute, CATAS, Zhanjiang, China.
  • Yu Q; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Wu J; Department of Agronomy, University of Florida, Gainesville, FL, USA.
  • Zhang S; FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou, China.
  • Boches P; Texas A&M AgriLife Research, Texas A&M University System, Dallas, TX, USA.
  • Tung CW; Centre of Pear Engineering Technology Research, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China.
  • Wang ML; Centre of Pear Engineering Technology Research, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China.
  • Coppens d'Eeckenbrugge G; USDA-ARS, Pacific Basin Agricultural Research Center, Hilo, HI, USA.
  • Sanewski GM; Department of Agronomy, National Taiwan University, Taipei, ROC.
  • Purugganan MD; Hawaii Agriculture Research Center, Kunia, HI, USA.
  • Schatz MC; Centre de Coopération Internationale en Recherche Agronomique pour le Développement, UMR AGAP, Montpellier, France.
  • Bennetzen JL; AGAP, Université de Montpellier, CIRAD, INRA, Montpellier SupAgro, Montpellier, France.
  • Lexer C; Queensland Department of Agriculture and Fisheries, Nambour, Queensland, Australia.
  • Ming R; Department of Biology, Center for Genomics and Systems Biology, New York University, NY, New York, USA.
Nat Genet ; 51(10): 1549-1558, 2019 10.
Article en En | MEDLINE | ID: mdl-31570895
Domestication of clonally propagated crops such as pineapple from South America was hypothesized to be a 'one-step operation'. We sequenced the genome of Ananas comosus var. bracteatus CB5 and assembled 513 Mb into 25 chromosomes with 29,412 genes. Comparison of the genomes of CB5, F153 and MD2 elucidated the genomic basis of fiber production, color formation, sugar accumulation and fruit maturation. We also resequenced 89 Ananas genomes. Cultivars 'Smooth Cayenne' and 'Queen' exhibited ancient and recent admixture, while 'Singapore Spanish' supported a one-step operation of domestication. We identified 25 selective sweeps, including a strong sweep containing a pair of tandemly duplicated bromelain inhibitors. Four candidate genes for self-incompatibility were linked in F153, but were not functional in self-compatible CB5. Our findings support the coexistence of sexual recombination and a one-step operation in the domestication of clonally propagated crops. This work guides the exploration of sexual and asexual domestication trajectories in other clonally propagated crops.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Proteínas de Plantas / Plantas Modificadas Genéticamente / Genoma de Planta / Productos Agrícolas / Carácter Cuantitativo Heredable / Ananas / Domesticación Tipo de estudio: Prognostic_studies Idioma: En Revista: Nat Genet Asunto de la revista: GENETICA MEDICA Año: 2019 Tipo del documento: Article País de afiliación: China
Texto completo
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Proteínas de Plantas / Plantas Modificadas Genéticamente / Genoma de Planta / Productos Agrícolas / Carácter Cuantitativo Heredable / Ananas / Domesticación Tipo de estudio: Prognostic_studies Idioma: En Revista: Nat Genet Asunto de la revista: GENETICA MEDICA Año: 2019 Tipo del documento: Article País de afiliación: China