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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">The pineapple genome and the evolution of CAM photosynthesis</title><author><name sortKey="Ming, Ray" sort="Ming, Ray" uniqKey="Ming R" first="Ray" last="Ming">Ray Ming</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation><affiliation><nlm:aff id="A2">Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Vanburen, Robert" sort="Vanburen, Robert" uniqKey="Vanburen R" first="Robert" last="Vanburen">Robert Vanburen</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation><affiliation><nlm:aff id="A2">Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation><affiliation><nlm:aff id="A3">Donald Danforth Plant Science Center, St. Louis, MO, USA</nlm:aff></affiliation></author><author><name sortKey="Wai, Ching Man" sort="Wai, Ching Man" uniqKey="Wai C" first="Ching Man" last="Wai">Ching Man Wai</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation><affiliation><nlm:aff id="A2">Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Tang, Haibao" sort="Tang, Haibao" uniqKey="Tang H" first="Haibao" last="Tang">Haibao Tang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation><affiliation><nlm:aff id="A4">iPlant Collaborative/University of Arizona, Tuscon, AZ 85719, USA</nlm:aff></affiliation></author><author><name sortKey="Schatz, Michael C" sort="Schatz, Michael C" uniqKey="Schatz M" first="Michael C." last="Schatz">Michael C. Schatz</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Bowers, John E" sort="Bowers, John E" uniqKey="Bowers J" first="John E." last="Bowers">John E. Bowers</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Lyons, Eric" sort="Lyons, Eric" uniqKey="Lyons E" first="Eric" last="Lyons">Eric Lyons</name><affiliation><nlm:aff id="A4">iPlant Collaborative/University of Arizona, Tuscon, AZ 85719, USA</nlm:aff></affiliation></author><author><name sortKey="Wang, Ming Li" sort="Wang, Ming Li" uniqKey="Wang M" first="Ming-Li" last="Wang">Ming-Li Wang</name><affiliation><nlm:aff id="A7">Hawaii Agriculture Research Center, Kunia, HI 96759, USA</nlm:aff></affiliation></author><author><name sortKey="Chen, Jung" sort="Chen, Jung" uniqKey="Chen J" first="Jung" last="Chen">Jung Chen</name><affiliation><nlm:aff id="A8">Department of Tropical Plant and Soil Sciences, University of Hawaii, Honolulu, HI 96822, USA</nlm:aff></affiliation></author><author><name sortKey="Biggers, Eric" sort="Biggers, Eric" uniqKey="Biggers E" first="Eric" last="Biggers">Eric Biggers</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Zhang, Jisen" sort="Zhang, Jisen" uniqKey="Zhang J" first="Jisen" last="Zhang">Jisen Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Huang, Lixian" sort="Huang, Lixian" uniqKey="Huang L" first="Lixian" last="Huang">Lixian Huang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Zhang, Lingmao" sort="Zhang, Lingmao" uniqKey="Zhang L" first="Lingmao" last="Zhang">Lingmao Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Miao, Wenjing" sort="Miao, Wenjing" uniqKey="Miao W" first="Wenjing" last="Miao">Wenjing Miao</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Zhang, Jian" sort="Zhang, Jian" uniqKey="Zhang J" first="Jian" last="Zhang">Jian Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Ye, Zhangyao" sort="Ye, Zhangyao" uniqKey="Ye Z" first="Zhangyao" last="Ye">Zhangyao Ye</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Miao, Chenyong" sort="Miao, Chenyong" uniqKey="Miao C" first="Chenyong" last="Miao">Chenyong Miao</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Lin, Zhicong" sort="Lin, Zhicong" uniqKey="Lin Z" first="Zhicong" last="Lin">Zhicong Lin</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Wang, Hao" sort="Wang, Hao" uniqKey="Wang H" first="Hao" last="Wang">Hao Wang</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Zhou, Hongye" sort="Zhou, Hongye" uniqKey="Zhou H" first="Hongye" last="Zhou">Hongye Zhou</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Yim, Won C" sort="Yim, Won C" uniqKey="Yim W" first="Won C." last="Yim">Won C. Yim</name><affiliation><nlm:aff id="A9">Department of Biochemistry and Molecular Biology, MS330, University of Nevada, Reno, NV 89557-0330, USA</nlm:aff></affiliation></author><author><name sortKey="Priest, Henry D" sort="Priest, Henry D" uniqKey="Priest H" first="Henry D." last="Priest">Henry D. Priest</name><affiliation><nlm:aff id="A3">Donald Danforth Plant Science Center, St. Louis, MO, USA</nlm:aff></affiliation></author><author><name sortKey="Zheng, Chunfang" sort="Zheng, Chunfang" uniqKey="Zheng C" first="Chunfang" last="Zheng">Chunfang Zheng</name><affiliation><nlm:aff id="A10">Department of Mathematics and Statistics, University of Ottawa, Ottawa, Canada K1N 6N5</nlm:aff></affiliation></author><author><name sortKey="Woodhouse, Margaret" sort="Woodhouse, Margaret" uniqKey="Woodhouse M" first="Margaret" last="Woodhouse">Margaret Woodhouse</name><affiliation><nlm:aff id="A11">Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA</nlm:aff></affiliation></author><author><name sortKey="Edger, Patrick P" sort="Edger, Patrick P" uniqKey="Edger P" first="Patrick P." last="Edger">Patrick P. Edger</name><affiliation><nlm:aff id="A11">Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA</nlm:aff></affiliation></author><author><name sortKey="Guyot, Romain" sort="Guyot, Romain" uniqKey="Guyot R" first="Romain" last="Guyot">Romain Guyot</name><affiliation><nlm:aff id="A12">IRD, UMR DIADE, EVODYN, BP 64501, 34394 Montpellier Cedex 5, France</nlm:aff></affiliation></author><author><name sortKey="Guo, Hao Bo" sort="Guo, Hao Bo" uniqKey="Guo H" first="Hao-Bo" last="Guo">Hao-Bo Guo</name><affiliation><nlm:aff id="A13">Department of Biochemistry & Cellular and Molecular Biology, University of Tennessee, Knoxville, TN 37996, USA</nlm:aff></affiliation></author><author><name sortKey="Guo, Hong" sort="Guo, Hong" uniqKey="Guo H" first="Hong" last="Guo">Hong Guo</name><affiliation><nlm:aff id="A13">Department of Biochemistry & Cellular and Molecular Biology, University of Tennessee, Knoxville, TN 37996, USA</nlm:aff></affiliation></author><author><name sortKey="Zheng, Guangyong" sort="Zheng, Guangyong" uniqKey="Zheng G" first="Guangyong" last="Zheng">Guangyong Zheng</name><affiliation><nlm:aff id="A14">Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China</nlm:aff></affiliation></author><author><name sortKey="Singh, Ratnesh" sort="Singh, Ratnesh" uniqKey="Singh R" first="Ratnesh" last="Singh">Ratnesh Singh</name><affiliation><nlm:aff id="A15">Texas A&M AgriLife Research, Department of Plant Pathology & Microbiology, Texas A&M University System, Dallas, TX 75252, USA</nlm:aff></affiliation></author><author><name sortKey="Sharma, Anupma" sort="Sharma, Anupma" uniqKey="Sharma A" first="Anupma" last="Sharma">Anupma Sharma</name><affiliation><nlm:aff id="A15">Texas A&M AgriLife Research, Department of Plant Pathology & Microbiology, Texas A&M University System, Dallas, TX 75252, USA</nlm:aff></affiliation></author><author><name sortKey="Min, Xiangjia" sort="Min, Xiangjia" uniqKey="Min X" first="Xiangjia" last="Min">Xiangjia Min</name><affiliation><nlm:aff id="A16">Department of Biological Sciences, Youngstown State University, Youngstown, OH 44555, USA</nlm:aff></affiliation></author><author><name sortKey="Zheng, Yun" sort="Zheng, Yun" uniqKey="Zheng Y" first="Yun" last="Zheng">Yun Zheng</name><affiliation><nlm:aff id="A17">Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, Yunnan 650500, China</nlm:aff></affiliation></author><author><name sortKey="Lee, Hayan" sort="Lee, Hayan" uniqKey="Lee H" first="Hayan" last="Lee">Hayan Lee</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Gurtowski, James" sort="Gurtowski, James" uniqKey="Gurtowski J" first="James" last="Gurtowski">James Gurtowski</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Sedlazeck, Fritz J" sort="Sedlazeck, Fritz J" uniqKey="Sedlazeck F" first="Fritz J." last="Sedlazeck">Fritz J. Sedlazeck</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Harkess, Alex" sort="Harkess, Alex" uniqKey="Harkess A" first="Alex" last="Harkess">Alex Harkess</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Mckain, Michael R" sort="Mckain, Michael R" uniqKey="Mckain M" first="Michael R." last="Mckain">Michael R. Mckain</name><affiliation><nlm:aff id="A3">Donald Danforth Plant Science Center, St. Louis, MO, USA</nlm:aff></affiliation></author><author><name sortKey="Liao, Zhenyang" sort="Liao, Zhenyang" uniqKey="Liao Z" first="Zhenyang" last="Liao">Zhenyang Liao</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Fang, Jingping" sort="Fang, Jingping" uniqKey="Fang J" first="Jingping" last="Fang">Jingping Fang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Liu, Juan" sort="Liu, Juan" uniqKey="Liu J" first="Juan" last="Liu">Juan Liu</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Zhang, Xiaodan" sort="Zhang, Xiaodan" uniqKey="Zhang X" first="Xiaodan" last="Zhang">Xiaodan Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Zhang, Qing" sort="Zhang, Qing" uniqKey="Zhang Q" first="Qing" last="Zhang">Qing Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Hu, Weichang" sort="Hu, Weichang" uniqKey="Hu W" first="Weichang" last="Hu">Weichang Hu</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Qin, Yuan" sort="Qin, Yuan" uniqKey="Qin Y" first="Yuan" last="Qin">Yuan Qin</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Wang, Kai" sort="Wang, Kai" uniqKey="Wang K" first="Kai" last="Wang">Kai Wang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Chen, Li Yu" sort="Chen, Li Yu" uniqKey="Chen L" first="Li-Yu" last="Chen">Li-Yu Chen</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Shirley, Neil" sort="Shirley, Neil" uniqKey="Shirley N" first="Neil" last="Shirley">Neil Shirley</name><affiliation><nlm:aff id="A18">ARC Centre of Excellence in Plant Cell Walls, School of Agriculture, Food and Wine, University of Adelaide, Waite Campus Urrbrae, South Australia 5064, Australia</nlm:aff></affiliation></author><author><name sortKey="Lin, Yann Rong" sort="Lin, Yann Rong" uniqKey="Lin Y" first="Yann-Rong" last="Lin">Yann-Rong Lin</name><affiliation><nlm:aff id="A19">Department of Agronomy, National Taiwan University, Taipei 10617, Taiwan</nlm:aff></affiliation></author><author><name sortKey="Liu, Li Yu" sort="Liu, Li Yu" uniqKey="Liu L" first="Li-Yu" last="Liu">Li-Yu Liu</name><affiliation><nlm:aff id="A19">Department of Agronomy, National Taiwan University, Taipei 10617, Taiwan</nlm:aff></affiliation></author><author><name sortKey="Hernandez, Alvaro G" sort="Hernandez, Alvaro G" uniqKey="Hernandez A" first="Alvaro G." last="Hernandez">Alvaro G. Hernandez</name><affiliation><nlm:aff id="A20">W.M. Keck Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Wright, Chris L" sort="Wright, Chris L" uniqKey="Wright C" first="Chris L." last="Wright">Chris L. Wright</name><affiliation><nlm:aff id="A20">W.M. Keck Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Bulone, Vincent" sort="Bulone, Vincent" uniqKey="Bulone V" first="Vincent" last="Bulone">Vincent Bulone</name><affiliation><nlm:aff id="A18">ARC Centre of Excellence in Plant Cell Walls, School of Agriculture, Food and Wine, University of Adelaide, Waite Campus Urrbrae, South Australia 5064, Australia</nlm:aff></affiliation></author><author><name sortKey="Tuskan, Gerald A" sort="Tuskan, Gerald A" uniqKey="Tuskan G" first="Gerald A." last="Tuskan">Gerald A. Tuskan</name><affiliation><nlm:aff id="A21">Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA</nlm:aff></affiliation></author><author><name sortKey="Heath, Katy" sort="Heath, Katy" uniqKey="Heath K" first="Katy" last="Heath">Katy Heath</name><affiliation><nlm:aff id="A2">Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Zee, Francis" sort="Zee, Francis" uniqKey="Zee F" first="Francis" last="Zee">Francis Zee</name><affiliation><nlm:aff id="A22">USDA-ARS, Pacific Basin Agricultural Research Center, Hilo, HI 96720, USA</nlm:aff></affiliation></author><author><name sortKey="Moore, Paul H" sort="Moore, Paul H" uniqKey="Moore P" first="Paul H." last="Moore">Paul H. Moore</name><affiliation><nlm:aff id="A7">Hawaii Agriculture Research Center, Kunia, HI 96759, USA</nlm:aff></affiliation></author><author><name sortKey="Sunkar, Ramanjulu" sort="Sunkar, Ramanjulu" uniqKey="Sunkar R" first="Ramanjulu" last="Sunkar">Ramanjulu Sunkar</name><affiliation><nlm:aff id="A23">Department of Biochemistry and Molecular Biology, 246 Noble Research Center, Oklahoma State University, Stillwater, OK 74078, USA</nlm:aff></affiliation></author><author><name sortKey="Leebens Mack, James H" sort="Leebens Mack, James H" uniqKey="Leebens Mack J" first="James H." last="Leebens-Mack">James H. Leebens-Mack</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Mockler, Todd" sort="Mockler, Todd" uniqKey="Mockler T" first="Todd" last="Mockler">Todd Mockler</name><affiliation><nlm:aff id="A3">Donald Danforth Plant Science Center, St. Louis, MO, USA</nlm:aff></affiliation></author><author><name sortKey="Bennetzen, Jeffrey L" sort="Bennetzen, Jeffrey L" uniqKey="Bennetzen J" first="Jeffrey L." last="Bennetzen">Jeffrey L. Bennetzen</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Freeling, Michael" sort="Freeling, Michael" uniqKey="Freeling M" first="Michael" last="Freeling">Michael Freeling</name><affiliation><nlm:aff id="A11">Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA</nlm:aff></affiliation></author><author><name sortKey="Sankoff, David" sort="Sankoff, David" uniqKey="Sankoff D" first="David" last="Sankoff">David Sankoff</name><affiliation><nlm:aff id="A10">Department of Mathematics and Statistics, University of Ottawa, Ottawa, Canada K1N 6N5</nlm:aff></affiliation></author><author><name sortKey="Paterson, Andrew H" sort="Paterson, Andrew H" uniqKey="Paterson A" first="Andrew H." last="Paterson">Andrew H. Paterson</name><affiliation><nlm:aff id="A24">Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Zhu, Xinguang" sort="Zhu, Xinguang" uniqKey="Zhu X" first="Xinguang" last="Zhu">Xinguang Zhu</name><affiliation><nlm:aff id="A14">Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China</nlm:aff></affiliation></author><author><name sortKey="Yang, Xiaohan" sort="Yang, Xiaohan" uniqKey="Yang X" first="Xiaohan" last="Yang">Xiaohan Yang</name><affiliation><nlm:aff id="A21">Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA</nlm:aff></affiliation></author><author><name sortKey="Smith, J Andrew C" sort="Smith, J Andrew C" uniqKey="Smith J" first="J. Andrew C." last="Smith">J. Andrew C. Smith</name><affiliation><nlm:aff id="A25">Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK</nlm:aff></affiliation></author><author><name sortKey="Cushman, John C" sort="Cushman, John C" uniqKey="Cushman J" first="John C." last="Cushman">John C. Cushman</name><affiliation><nlm:aff id="A9">Department of Biochemistry and Molecular Biology, MS330, University of Nevada, Reno, NV 89557-0330, USA</nlm:aff></affiliation></author><author><name sortKey="Paull, Robert E" sort="Paull, Robert E" uniqKey="Paull R" first="Robert E." last="Paull">Robert E. Paull</name><affiliation><nlm:aff id="A8">Department of Tropical Plant and Soil Sciences, University of Hawaii, Honolulu, HI 96822, USA</nlm:aff></affiliation></author><author><name sortKey="Yu, Qingyi" sort="Yu, Qingyi" uniqKey="Yu Q" first="Qingyi" last="Yu">Qingyi Yu</name><affiliation><nlm:aff id="A15">Texas A&M AgriLife Research, Department of Plant Pathology & Microbiology, Texas A&M University System, Dallas, TX 75252, USA</nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">26523774</idno><idno type="pmc">4867222</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4867222</idno><idno type="RBID">PMC:4867222</idno><idno type="doi">10.1038/ng.3435</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">002151</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">002151</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">The pineapple genome and the evolution of CAM photosynthesis</title><author><name sortKey="Ming, Ray" sort="Ming, Ray" uniqKey="Ming R" first="Ray" last="Ming">Ray Ming</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation><affiliation><nlm:aff id="A2">Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Vanburen, Robert" sort="Vanburen, Robert" uniqKey="Vanburen R" first="Robert" last="Vanburen">Robert Vanburen</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation><affiliation><nlm:aff id="A2">Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation><affiliation><nlm:aff id="A3">Donald Danforth Plant Science Center, St. Louis, MO, USA</nlm:aff></affiliation></author><author><name sortKey="Wai, Ching Man" sort="Wai, Ching Man" uniqKey="Wai C" first="Ching Man" last="Wai">Ching Man Wai</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation><affiliation><nlm:aff id="A2">Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Tang, Haibao" sort="Tang, Haibao" uniqKey="Tang H" first="Haibao" last="Tang">Haibao Tang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation><affiliation><nlm:aff id="A4">iPlant Collaborative/University of Arizona, Tuscon, AZ 85719, USA</nlm:aff></affiliation></author><author><name sortKey="Schatz, Michael C" sort="Schatz, Michael C" uniqKey="Schatz M" first="Michael C." last="Schatz">Michael C. Schatz</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Bowers, John E" sort="Bowers, John E" uniqKey="Bowers J" first="John E." last="Bowers">John E. Bowers</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Lyons, Eric" sort="Lyons, Eric" uniqKey="Lyons E" first="Eric" last="Lyons">Eric Lyons</name><affiliation><nlm:aff id="A4">iPlant Collaborative/University of Arizona, Tuscon, AZ 85719, USA</nlm:aff></affiliation></author><author><name sortKey="Wang, Ming Li" sort="Wang, Ming Li" uniqKey="Wang M" first="Ming-Li" last="Wang">Ming-Li Wang</name><affiliation><nlm:aff id="A7">Hawaii Agriculture Research Center, Kunia, HI 96759, USA</nlm:aff></affiliation></author><author><name sortKey="Chen, Jung" sort="Chen, Jung" uniqKey="Chen J" first="Jung" last="Chen">Jung Chen</name><affiliation><nlm:aff id="A8">Department of Tropical Plant and Soil Sciences, University of Hawaii, Honolulu, HI 96822, USA</nlm:aff></affiliation></author><author><name sortKey="Biggers, Eric" sort="Biggers, Eric" uniqKey="Biggers E" first="Eric" last="Biggers">Eric Biggers</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Zhang, Jisen" sort="Zhang, Jisen" uniqKey="Zhang J" first="Jisen" last="Zhang">Jisen Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Huang, Lixian" sort="Huang, Lixian" uniqKey="Huang L" first="Lixian" last="Huang">Lixian Huang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Zhang, Lingmao" sort="Zhang, Lingmao" uniqKey="Zhang L" first="Lingmao" last="Zhang">Lingmao Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Miao, Wenjing" sort="Miao, Wenjing" uniqKey="Miao W" first="Wenjing" last="Miao">Wenjing Miao</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Zhang, Jian" sort="Zhang, Jian" uniqKey="Zhang J" first="Jian" last="Zhang">Jian Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Ye, Zhangyao" sort="Ye, Zhangyao" uniqKey="Ye Z" first="Zhangyao" last="Ye">Zhangyao Ye</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Miao, Chenyong" sort="Miao, Chenyong" uniqKey="Miao C" first="Chenyong" last="Miao">Chenyong Miao</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Lin, Zhicong" sort="Lin, Zhicong" uniqKey="Lin Z" first="Zhicong" last="Lin">Zhicong Lin</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Wang, Hao" sort="Wang, Hao" uniqKey="Wang H" first="Hao" last="Wang">Hao Wang</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Zhou, Hongye" sort="Zhou, Hongye" uniqKey="Zhou H" first="Hongye" last="Zhou">Hongye Zhou</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Yim, Won C" sort="Yim, Won C" uniqKey="Yim W" first="Won C." last="Yim">Won C. Yim</name><affiliation><nlm:aff id="A9">Department of Biochemistry and Molecular Biology, MS330, University of Nevada, Reno, NV 89557-0330, USA</nlm:aff></affiliation></author><author><name sortKey="Priest, Henry D" sort="Priest, Henry D" uniqKey="Priest H" first="Henry D." last="Priest">Henry D. Priest</name><affiliation><nlm:aff id="A3">Donald Danforth Plant Science Center, St. Louis, MO, USA</nlm:aff></affiliation></author><author><name sortKey="Zheng, Chunfang" sort="Zheng, Chunfang" uniqKey="Zheng C" first="Chunfang" last="Zheng">Chunfang Zheng</name><affiliation><nlm:aff id="A10">Department of Mathematics and Statistics, University of Ottawa, Ottawa, Canada K1N 6N5</nlm:aff></affiliation></author><author><name sortKey="Woodhouse, Margaret" sort="Woodhouse, Margaret" uniqKey="Woodhouse M" first="Margaret" last="Woodhouse">Margaret Woodhouse</name><affiliation><nlm:aff id="A11">Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA</nlm:aff></affiliation></author><author><name sortKey="Edger, Patrick P" sort="Edger, Patrick P" uniqKey="Edger P" first="Patrick P." last="Edger">Patrick P. Edger</name><affiliation><nlm:aff id="A11">Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA</nlm:aff></affiliation></author><author><name sortKey="Guyot, Romain" sort="Guyot, Romain" uniqKey="Guyot R" first="Romain" last="Guyot">Romain Guyot</name><affiliation><nlm:aff id="A12">IRD, UMR DIADE, EVODYN, BP 64501, 34394 Montpellier Cedex 5, France</nlm:aff></affiliation></author><author><name sortKey="Guo, Hao Bo" sort="Guo, Hao Bo" uniqKey="Guo H" first="Hao-Bo" last="Guo">Hao-Bo Guo</name><affiliation><nlm:aff id="A13">Department of Biochemistry & Cellular and Molecular Biology, University of Tennessee, Knoxville, TN 37996, USA</nlm:aff></affiliation></author><author><name sortKey="Guo, Hong" sort="Guo, Hong" uniqKey="Guo H" first="Hong" last="Guo">Hong Guo</name><affiliation><nlm:aff id="A13">Department of Biochemistry & Cellular and Molecular Biology, University of Tennessee, Knoxville, TN 37996, USA</nlm:aff></affiliation></author><author><name sortKey="Zheng, Guangyong" sort="Zheng, Guangyong" uniqKey="Zheng G" first="Guangyong" last="Zheng">Guangyong Zheng</name><affiliation><nlm:aff id="A14">Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China</nlm:aff></affiliation></author><author><name sortKey="Singh, Ratnesh" sort="Singh, Ratnesh" uniqKey="Singh R" first="Ratnesh" last="Singh">Ratnesh Singh</name><affiliation><nlm:aff id="A15">Texas A&M AgriLife Research, Department of Plant Pathology & Microbiology, Texas A&M University System, Dallas, TX 75252, USA</nlm:aff></affiliation></author><author><name sortKey="Sharma, Anupma" sort="Sharma, Anupma" uniqKey="Sharma A" first="Anupma" last="Sharma">Anupma Sharma</name><affiliation><nlm:aff id="A15">Texas A&M AgriLife Research, Department of Plant Pathology & Microbiology, Texas A&M University System, Dallas, TX 75252, USA</nlm:aff></affiliation></author><author><name sortKey="Min, Xiangjia" sort="Min, Xiangjia" uniqKey="Min X" first="Xiangjia" last="Min">Xiangjia Min</name><affiliation><nlm:aff id="A16">Department of Biological Sciences, Youngstown State University, Youngstown, OH 44555, USA</nlm:aff></affiliation></author><author><name sortKey="Zheng, Yun" sort="Zheng, Yun" uniqKey="Zheng Y" first="Yun" last="Zheng">Yun Zheng</name><affiliation><nlm:aff id="A17">Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, Yunnan 650500, China</nlm:aff></affiliation></author><author><name sortKey="Lee, Hayan" sort="Lee, Hayan" uniqKey="Lee H" first="Hayan" last="Lee">Hayan Lee</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Gurtowski, James" sort="Gurtowski, James" uniqKey="Gurtowski J" first="James" last="Gurtowski">James Gurtowski</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Sedlazeck, Fritz J" sort="Sedlazeck, Fritz J" uniqKey="Sedlazeck F" first="Fritz J." last="Sedlazeck">Fritz J. Sedlazeck</name><affiliation><nlm:aff id="A5">Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</nlm:aff></affiliation></author><author><name sortKey="Harkess, Alex" sort="Harkess, Alex" uniqKey="Harkess A" first="Alex" last="Harkess">Alex Harkess</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Mckain, Michael R" sort="Mckain, Michael R" uniqKey="Mckain M" first="Michael R." last="Mckain">Michael R. Mckain</name><affiliation><nlm:aff id="A3">Donald Danforth Plant Science Center, St. Louis, MO, USA</nlm:aff></affiliation></author><author><name sortKey="Liao, Zhenyang" sort="Liao, Zhenyang" uniqKey="Liao Z" first="Zhenyang" last="Liao">Zhenyang Liao</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Fang, Jingping" sort="Fang, Jingping" uniqKey="Fang J" first="Jingping" last="Fang">Jingping Fang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Liu, Juan" sort="Liu, Juan" uniqKey="Liu J" first="Juan" last="Liu">Juan Liu</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Zhang, Xiaodan" sort="Zhang, Xiaodan" uniqKey="Zhang X" first="Xiaodan" last="Zhang">Xiaodan Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Zhang, Qing" sort="Zhang, Qing" uniqKey="Zhang Q" first="Qing" last="Zhang">Qing Zhang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Hu, Weichang" sort="Hu, Weichang" uniqKey="Hu W" first="Weichang" last="Hu">Weichang Hu</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Qin, Yuan" sort="Qin, Yuan" uniqKey="Qin Y" first="Yuan" last="Qin">Yuan Qin</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Wang, Kai" sort="Wang, Kai" uniqKey="Wang K" first="Kai" last="Wang">Kai Wang</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Chen, Li Yu" sort="Chen, Li Yu" uniqKey="Chen L" first="Li-Yu" last="Chen">Li-Yu Chen</name><affiliation><nlm:aff id="A1">FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</nlm:aff></affiliation></author><author><name sortKey="Shirley, Neil" sort="Shirley, Neil" uniqKey="Shirley N" first="Neil" last="Shirley">Neil Shirley</name><affiliation><nlm:aff id="A18">ARC Centre of Excellence in Plant Cell Walls, School of Agriculture, Food and Wine, University of Adelaide, Waite Campus Urrbrae, South Australia 5064, Australia</nlm:aff></affiliation></author><author><name sortKey="Lin, Yann Rong" sort="Lin, Yann Rong" uniqKey="Lin Y" first="Yann-Rong" last="Lin">Yann-Rong Lin</name><affiliation><nlm:aff id="A19">Department of Agronomy, National Taiwan University, Taipei 10617, Taiwan</nlm:aff></affiliation></author><author><name sortKey="Liu, Li Yu" sort="Liu, Li Yu" uniqKey="Liu L" first="Li-Yu" last="Liu">Li-Yu Liu</name><affiliation><nlm:aff id="A19">Department of Agronomy, National Taiwan University, Taipei 10617, Taiwan</nlm:aff></affiliation></author><author><name sortKey="Hernandez, Alvaro G" sort="Hernandez, Alvaro G" uniqKey="Hernandez A" first="Alvaro G." last="Hernandez">Alvaro G. Hernandez</name><affiliation><nlm:aff id="A20">W.M. Keck Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Wright, Chris L" sort="Wright, Chris L" uniqKey="Wright C" first="Chris L." last="Wright">Chris L. Wright</name><affiliation><nlm:aff id="A20">W.M. Keck Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Bulone, Vincent" sort="Bulone, Vincent" uniqKey="Bulone V" first="Vincent" last="Bulone">Vincent Bulone</name><affiliation><nlm:aff id="A18">ARC Centre of Excellence in Plant Cell Walls, School of Agriculture, Food and Wine, University of Adelaide, Waite Campus Urrbrae, South Australia 5064, Australia</nlm:aff></affiliation></author><author><name sortKey="Tuskan, Gerald A" sort="Tuskan, Gerald A" uniqKey="Tuskan G" first="Gerald A." last="Tuskan">Gerald A. Tuskan</name><affiliation><nlm:aff id="A21">Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA</nlm:aff></affiliation></author><author><name sortKey="Heath, Katy" sort="Heath, Katy" uniqKey="Heath K" first="Katy" last="Heath">Katy Heath</name><affiliation><nlm:aff id="A2">Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</nlm:aff></affiliation></author><author><name sortKey="Zee, Francis" sort="Zee, Francis" uniqKey="Zee F" first="Francis" last="Zee">Francis Zee</name><affiliation><nlm:aff id="A22">USDA-ARS, Pacific Basin Agricultural Research Center, Hilo, HI 96720, USA</nlm:aff></affiliation></author><author><name sortKey="Moore, Paul H" sort="Moore, Paul H" uniqKey="Moore P" first="Paul H." last="Moore">Paul H. Moore</name><affiliation><nlm:aff id="A7">Hawaii Agriculture Research Center, Kunia, HI 96759, USA</nlm:aff></affiliation></author><author><name sortKey="Sunkar, Ramanjulu" sort="Sunkar, Ramanjulu" uniqKey="Sunkar R" first="Ramanjulu" last="Sunkar">Ramanjulu Sunkar</name><affiliation><nlm:aff id="A23">Department of Biochemistry and Molecular Biology, 246 Noble Research Center, Oklahoma State University, Stillwater, OK 74078, USA</nlm:aff></affiliation></author><author><name sortKey="Leebens Mack, James H" sort="Leebens Mack, James H" uniqKey="Leebens Mack J" first="James H." last="Leebens-Mack">James H. Leebens-Mack</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Mockler, Todd" sort="Mockler, Todd" uniqKey="Mockler T" first="Todd" last="Mockler">Todd Mockler</name><affiliation><nlm:aff id="A3">Donald Danforth Plant Science Center, St. Louis, MO, USA</nlm:aff></affiliation></author><author><name sortKey="Bennetzen, Jeffrey L" sort="Bennetzen, Jeffrey L" uniqKey="Bennetzen J" first="Jeffrey L." last="Bennetzen">Jeffrey L. Bennetzen</name><affiliation><nlm:aff id="A6">Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Freeling, Michael" sort="Freeling, Michael" uniqKey="Freeling M" first="Michael" last="Freeling">Michael Freeling</name><affiliation><nlm:aff id="A11">Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA</nlm:aff></affiliation></author><author><name sortKey="Sankoff, David" sort="Sankoff, David" uniqKey="Sankoff D" first="David" last="Sankoff">David Sankoff</name><affiliation><nlm:aff id="A10">Department of Mathematics and Statistics, University of Ottawa, Ottawa, Canada K1N 6N5</nlm:aff></affiliation></author><author><name sortKey="Paterson, Andrew H" sort="Paterson, Andrew H" uniqKey="Paterson A" first="Andrew H." last="Paterson">Andrew H. Paterson</name><affiliation><nlm:aff id="A24">Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602, USA</nlm:aff></affiliation></author><author><name sortKey="Zhu, Xinguang" sort="Zhu, Xinguang" uniqKey="Zhu X" first="Xinguang" last="Zhu">Xinguang Zhu</name><affiliation><nlm:aff id="A14">Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China</nlm:aff></affiliation></author><author><name sortKey="Yang, Xiaohan" sort="Yang, Xiaohan" uniqKey="Yang X" first="Xiaohan" last="Yang">Xiaohan Yang</name><affiliation><nlm:aff id="A21">Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA</nlm:aff></affiliation></author><author><name sortKey="Smith, J Andrew C" sort="Smith, J Andrew C" uniqKey="Smith J" first="J. Andrew C." last="Smith">J. Andrew C. Smith</name><affiliation><nlm:aff id="A25">Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK</nlm:aff></affiliation></author><author><name sortKey="Cushman, John C" sort="Cushman, John C" uniqKey="Cushman J" first="John C." last="Cushman">John C. Cushman</name><affiliation><nlm:aff id="A9">Department of Biochemistry and Molecular Biology, MS330, University of Nevada, Reno, NV 89557-0330, USA</nlm:aff></affiliation></author><author><name sortKey="Paull, Robert E" sort="Paull, Robert E" uniqKey="Paull R" first="Robert E." last="Paull">Robert E. Paull</name><affiliation><nlm:aff id="A8">Department of Tropical Plant and Soil Sciences, University of Hawaii, Honolulu, HI 96822, USA</nlm:aff></affiliation></author><author><name sortKey="Yu, Qingyi" sort="Yu, Qingyi" uniqKey="Yu Q" first="Qingyi" last="Yu">Qingyi Yu</name><affiliation><nlm:aff id="A15">Texas A&M AgriLife Research, Department of Plant Pathology & Microbiology, Texas A&M University System, Dallas, TX 75252, USA</nlm:aff></affiliation></author></analytic><series><title level="j">Nature genetics</title><idno type="ISSN">1061-4036</idno><idno type="eISSN">1546-1718</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p id="P1">Pineapple (<italic>Ananas comosus</italic> (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 after banana in terms of international trade. We sequenced the genomes of pineapple varieties ‘F153’ and ‘MD2’, and a wild pineapple relative <italic>A. bracteatus</italic> accession CB5. The pineapple genome has one fewer ancient whole genome duplications than sequenced grass genomes and, therefore, provides an important reference for elucidating gene content and structure in the last common ancestor of extant members of the grass family (Poaceae). Pineapple has a conserved karyotype with seven pre rho duplication chromosomes that are ancestral to extant grass karyotypes. The pineapple lineage has transitioned from C<sub>3</sub> photosynthesis to CAM with CAM-related genes exhibiting a diel expression pattern in photosynthetic tissues using beta-carbonic anhydrase (βCA) for initial capture of CO<sub>2</sub>. Promoter regions of all three β<italic>CA</italic> genes contain a CCA1 binding site that can bind circadian core oscillators. CAM pathway genes were enriched with <italic>cis</italic>-regulatory elements including the morning (CCACAC) and evening (AAAATATC) elements associated with regulation of circadian-clock genes, providing the first link between CAM and the circadian clock regulation. Gene-interaction network analysis revealed both activation and repression of regulatory elements that control key enzymes in CAM photosynthesis, indicating that CAM evolved by reconfiguration of pathways preexisting in C<sub>3</sub> plants. Pineapple CAM photosynthesis is the result of regulatory neofunctionalization of preexisting gene copies and not acquisition of neofunctionalized genes via whole genome or tandem gene duplication.</p></div></front></TEI><pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<pmc-dir>properties manuscript</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-journal-id">9216904</journal-id><journal-id journal-id-type="pubmed-jr-id">2419</journal-id><journal-id journal-id-type="nlm-ta">Nat Genet</journal-id><journal-id journal-id-type="iso-abbrev">Nat. Genet.</journal-id><journal-title-group><journal-title>Nature genetics</journal-title></journal-title-group><issn pub-type="ppub">1061-4036</issn><issn pub-type="epub">1546-1718</issn></journal-meta><article-meta><article-id pub-id-type="pmid">26523774</article-id><article-id pub-id-type="pmc">4867222</article-id><article-id pub-id-type="doi">10.1038/ng.3435</article-id><article-id pub-id-type="manuscript">NIHMS784544</article-id><article-categories><subj-group subj-group-type="heading"><subject>Article</subject></subj-group></article-categories><title-group><article-title>The pineapple genome and the evolution of CAM photosynthesis</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Ming</surname><given-names>Ray</given-names></name><xref ref-type="aff" rid="A1">1</xref><xref ref-type="aff" rid="A2">2</xref><xref rid="FN1" ref-type="author-notes">†</xref><xref rid="FN2" ref-type="author-notes">*</xref></contrib><contrib 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contrib-type="author"><name><surname>Sunkar</surname><given-names>Ramanjulu</given-names></name><xref ref-type="aff" rid="A23">23</xref></contrib><contrib contrib-type="author"><name><surname>Leebens-Mack</surname><given-names>James H.</given-names></name><xref ref-type="aff" rid="A6">6</xref></contrib><contrib contrib-type="author"><name><surname>Mockler</surname><given-names>Todd</given-names></name><xref ref-type="aff" rid="A3">3</xref></contrib><contrib contrib-type="author"><name><surname>Bennetzen</surname><given-names>Jeffrey L.</given-names></name><xref ref-type="aff" rid="A6">6</xref></contrib><contrib contrib-type="author"><name><surname>Freeling</surname><given-names>Michael</given-names></name><xref ref-type="aff" rid="A11">11</xref></contrib><contrib contrib-type="author"><name><surname>Sankoff</surname><given-names>David</given-names></name><xref ref-type="aff" rid="A10">10</xref></contrib><contrib contrib-type="author"><name><surname>Paterson</surname><given-names>Andrew H.</given-names></name><xref ref-type="aff" rid="A24">24</xref></contrib><contrib contrib-type="author"><name><surname>Zhu</surname><given-names>Xinguang</given-names></name><xref ref-type="aff" rid="A14">14</xref></contrib><contrib contrib-type="author"><name><surname>Yang</surname><given-names>Xiaohan</given-names></name><xref ref-type="aff" rid="A21">21</xref></contrib><contrib contrib-type="author"><name><surname>Smith</surname><given-names>J. Andrew C.</given-names></name><xref ref-type="aff" rid="A25">25</xref></contrib><contrib contrib-type="author"><name><surname>Cushman</surname><given-names>John C.</given-names></name><xref ref-type="aff" rid="A9">9</xref></contrib><contrib contrib-type="author"><name><surname>Paull</surname><given-names>Robert E.</given-names></name><xref ref-type="aff" rid="A8">8</xref><xref rid="FN1" ref-type="author-notes">†</xref></contrib><contrib contrib-type="author"><name><surname>Yu</surname><given-names>Qingyi</given-names></name><xref ref-type="aff" rid="A15">15</xref><xref rid="FN1" ref-type="author-notes">†</xref></contrib></contrib-group><aff id="A1"><label>1</label>FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China</aff><aff id="A2"><label>2</label>Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</aff><aff id="A3"><label>3</label>Donald Danforth Plant Science Center, St. Louis, MO, USA</aff><aff id="A4"><label>4</label>iPlant Collaborative/University of Arizona, Tuscon, AZ 85719, USA</aff><aff id="A5"><label>5</label>Cold Spring Harbor Laboratory, Cold Spring Harbor, NY11724, USA</aff><aff id="A6"><label>6</label>Department of Plant Biology, University of Georgia, Athens, GA 30602, USA</aff><aff id="A7"><label>7</label>Hawaii Agriculture Research Center, Kunia, HI 96759, USA</aff><aff id="A8"><label>8</label>Department of Tropical Plant and Soil Sciences, University of Hawaii, Honolulu, HI 96822, USA</aff><aff id="A9"><label>9</label>Department of Biochemistry and Molecular Biology, MS330, University of Nevada, Reno, NV 89557-0330, USA</aff><aff id="A10"><label>10</label>Department of Mathematics and Statistics, University of Ottawa, Ottawa, Canada K1N 6N5</aff><aff id="A11"><label>11</label>Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA</aff><aff id="A12"><label>12</label>IRD, UMR DIADE, EVODYN, BP 64501, 34394 Montpellier Cedex 5, France</aff><aff id="A13"><label>13</label>Department of Biochemistry & Cellular and Molecular Biology, University of Tennessee, Knoxville, TN 37996, USA</aff><aff id="A14"><label>14</label>Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China</aff><aff id="A15"><label>15</label>Texas A&M AgriLife Research, Department of Plant Pathology & Microbiology, Texas A&M University System, Dallas, TX 75252, USA</aff><aff id="A16"><label>16</label>Department of Biological Sciences, Youngstown State University, Youngstown, OH 44555, USA</aff><aff id="A17"><label>17</label>Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, Yunnan 650500, China</aff><aff id="A18"><label>18</label>ARC Centre of Excellence in Plant Cell Walls, School of Agriculture, Food and Wine, University of Adelaide, Waite Campus Urrbrae, South Australia 5064, Australia</aff><aff id="A19"><label>19</label>Department of Agronomy, National Taiwan University, Taipei 10617, Taiwan</aff><aff id="A20"><label>20</label>W.M. Keck Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA</aff><aff id="A21"><label>21</label>Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA</aff><aff id="A22"><label>22</label>USDA-ARS, Pacific Basin Agricultural Research Center, Hilo, HI 96720, USA</aff><aff id="A23"><label>23</label>Department of Biochemistry and Molecular Biology, 246 Noble Research Center, Oklahoma State University, Stillwater, OK 74078, USA</aff><aff id="A24"><label>24</label>Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602, USA</aff><aff id="A25"><label>25</label>Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK</aff><author-notes><corresp id="FN1"><label>†</label>To whom correspondence should be addressed (<email>rming@life.uiuc.edu</email>; <email>paull@hawaii.edu</email>; <email>qyu@ag.tamu.edu</email>)</corresp><fn id="FN2" fn-type="equal"><label>*</label><p>These authors contributed equally to this work.</p></fn></author-notes><pub-date pub-type="nihms-submitted"><day>8</day><month>5</month><year>2016</year></pub-date><pub-date pub-type="epub"><day>02</day><month>11</month><year>2015</year></pub-date><pub-date pub-type="ppub"><month>12</month><year>2015</year></pub-date><pub-date pub-type="pmc-release"><day>15</day><month>5</month><year>2016</year></pub-date><volume>47</volume><issue>12</issue><fpage>1435</fpage><lpage>1442</lpage><pmc-comment>elocation-id from pubmed: 10.1038/ng.3435</pmc-comment>
<abstract><p id="P1">Pineapple (<italic>Ananas comosus</italic> (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 after banana in terms of international trade. We sequenced the genomes of pineapple varieties ‘F153’ and ‘MD2’, and a wild pineapple relative <italic>A. bracteatus</italic> accession CB5. The pineapple genome has one fewer ancient whole genome duplications than sequenced grass genomes and, therefore, provides an important reference for elucidating gene content and structure in the last common ancestor of extant members of the grass family (Poaceae). Pineapple has a conserved karyotype with seven pre rho duplication chromosomes that are ancestral to extant grass karyotypes. The pineapple lineage has transitioned from C<sub>3</sub> photosynthesis to CAM with CAM-related genes exhibiting a diel expression pattern in photosynthetic tissues using beta-carbonic anhydrase (βCA) for initial capture of CO<sub>2</sub>. Promoter regions of all three β<italic>CA</italic> genes contain a CCA1 binding site that can bind circadian core oscillators. CAM pathway genes were enriched with <italic>cis</italic>-regulatory elements including the morning (CCACAC) and evening (AAAATATC) elements associated with regulation of circadian-clock genes, providing the first link between CAM and the circadian clock regulation. Gene-interaction network analysis revealed both activation and repression of regulatory elements that control key enzymes in CAM photosynthesis, indicating that CAM evolved by reconfiguration of pathways preexisting in C<sub>3</sub> plants. Pineapple CAM photosynthesis is the result of regulatory neofunctionalization of preexisting gene copies and not acquisition of neofunctionalized genes via whole genome or tandem gene duplication.</p></abstract></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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