The Selaginella Genome Identifies Genetic Changes Associated with the Evolution of Vascular Plants

Author:

Banks Jo Ann1,Nishiyama Tomoaki23,Hasebe Mitsuyasu345,Bowman John L.67,Gribskov Michael8,dePamphilis Claude91011,Albert Victor A.12,Aono Naoki4,Aoyama Tsuyoshi45,Ambrose Barbara A.13,Ashton Neil W.14,Axtell Michael J.9,Barker Elizabeth14,Barker Michael S.15,Bennetzen Jeffrey L.16,Bonawitz Nicholas D.17,Chapple Clint17,Cheng Chaoyang3,Correa Luiz Gustavo Guedes18,Dacre Michael19,DeBarry Jeremy16,Dreyer Ingo20,Elias Marek2122,Engstrom Eric M.23,Estelle Mark24,Feng Liang25,Finet Cédric26,Floyd Sandra K.6,Frommer Wolf B.27,Fujita Tomomichi28,Gramzow Lydia29,Gutensohn Michael3031,Harholt Jesper32,Hattori Mitsuru3334,Heyl Alexander35,Hirai Tadayoshi336,Hiwatashi Yuji45,Ishikawa Masaki3,Iwata Mineko3,Karol Kenneth G.13,Koehler Barbara18,Kolukisaoglu Uener3738,Kubo Minoru3,Kurata Tetsuya339,Lalonde Sylvie27,Li Kejie8,Li Ying840,Litt Amy13,Lyons Eric41,Manning Gerard19,Maruyama Takeshi42,Michael Todd P.4344,Mikami Koji45,Miyazaki Saori446,Morinaga Shin‐ichi447,Murata Takashi45,Mueller‐Roeber Bernd48,Nelson David R.49,Obara Mari350,Oguri Yasuko3,Olmstead Richard G.51,Onodera Naoko352,Petersen Bent Larsen32,Pils Birgit5354,Prigge Michael24,Rensing Stefan A.555657,Riaño-Pachón Diego Mauricio5859,Roberts Alison W.60,Sato Yoshikatsu3,Scheller Henrik Vibe4161,Schulz Burkhard30,Schulz Christian62,Shakirov Eugene V.63,Shibagaki Nakako64,Shinohara Naoki365,Shippen Dorothy E.63,Sørensen Iben3266,Sotooka Ryo65,Sugimoto Nagisa3,Sugita Mamoru33,Sumikawa Naomi4,Tanurdzic Milos67,Theißen Günter29,Ulvskov Peter32,Wakazuki Sachiko3,Weng Jing‐Ke1768,Willats William W.G.T.32,Wipf Daniel69,Wolf Paul G.70,Yang Lixing16,Zimmer Andreas D.5571,Zhu Qihui16,Mitros Therese72,Hellsten Uffe73,Loqué Dominique61,Otillar Robert73,Salamov Asaf73,Schmutz Jeremy73,Shapiro Harris73,Lindquist Erika73,Lucas Susan73,Rokhsar Daniel7273,Grigoriev Igor V.73

Affiliation:

1. Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN 47907, USA.

2. Advanced Science Research Center, Kanazawa University, Kanazawa 920‐0934, Japan.

3. ERATO, Japan Science and Technology Agency, Okazaki 444‐8585, Japan.

4. National Institute for Basic Biology, Okazaki 444‐8585, Japan.

5. Department of Basic Biology, School of Life Science, The Graduate University for Advanced Studies, Okazaki 444‐8585, Japan.

6. School of Biological Sciences, Monash University, Clayton Campus, Melbourne, Victoria 3800, Australia.

7. Section Plant Biology, University of California, Davis, CA 95616, USA.

8. Department of Biological Sciences, Purdue University, West Lafayette, IN 47907, USA.

9. Department of Biology and Huck Institutes of Life Sciences, Pennsylvania State University, University Park, PA 16802, USA.

10. Graduate Program in Plant Biology, Pennsylvania State University, University Park, PA 16802, USA.

11. Institute of Molecular Evolutionary Genetics, Pennsylvania State University, University Park, PA 16802, USA.

12. Department of Biological Sciences, University at Buffalo, Buffalo, NY 14260, USA.

13. The New York Botanical Garden, Bronx, NY 10458, USA.

14. Department of Biology, University of Regina, 3737 Wascana Parkway, Regina, SK S4S 0A2, Canada.

15. Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA.

16. Department of Genetics, University of Georgia, Athens, GA 30602, USA.

17. Department of Biochemistry, Purdue University, West Lafayette, IN 47907, USA.

18. Department of Molecular Biology, University of Potsdam, Potsdam‐Golm 14476, Germany.

19. Razavi Newman Center for Bioinformatics, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA.

20. Heisenberg‐Group Biophysics and Molecular Plant Biology, University of Potsdam, Potsdam-Golm 14476, Germany.

21. Charles University in Prague, Faculty of Science, Department of Botany, 128 01 Prague 2, Benatska 2, Czech Republic.

22. University in Prague, Faculty of Science, Chittussiho 10, 710 00 Ostrava, Czech Republic.

23. Department of Biology, The College of William and Mary, Williamsburg, VA 23187, USA.

24. Section of Cell and Developmental Biology, University of California, San Diego, La Jolla, CA 92093, USA.

25. Institute of Bioinformatics, University of Georgia, Athens, GA 30602, USA.

26. Laboratoire de Reproduction et Développement des Plantes, Ecole Normale Supérieure de Lyon, Lyon F‐69364, France.

27. Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA.

28. Faculty of Science, Hokkaido University, Sapporo 060‐0810, Japan.

29. Department of Genetics, Friedrich Schiller University Jena, D‐07743 Jena, Germany.

30. Department of Horticulture and Landscape Architecture, Purdue University, W. Lafayette, IN 47907, USA.

31. Institute of Biology, Martin Luther University Halle-Wittenberg, Halle/Saale 06120, Germany.

32. Department of Plant Biology and Biotechnology, University of Copenhagen, Frederiksberg C 1871, Denmark.

33. Center for Gene Research, Nagoya University, Nagoya 464‐8602, Japan.

34. Department of Chemistry, School of Science, The University of Tokyo 7‐3‐1 Hongo, Bunkyo‐ku, Tokyo 113‐0033, Japan.

35. Institute for Biology–Applied Genetics, Dahlem Centre of Plant Sciences, Freie Universität Berlin, 14195 Berlin, Germany.

36. Graduate School of Life and Environmental Sciences, Gene Research Center, University of Tsukuba, Tsukuba 305‐8572, Japan.

37. Center for Life Science Automation, University of Rostock, D-18119 Rostock, Germany.

38. Studiengangskoordination Nano-Science, Universität Tübingen, Tübingen 72076, Germany.

39. Plant Global Education Project, Graduate School of Biological Sciences, Nara Institute of Science and Technology, Nara 630‐0192, Japan.

40. Division of Biomedical Statistics and Informatics, Mayo Clinic, 200 First Street SW, Rochester, MN 55905, USA.

41. Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA.

42. Graduate School of Life Science, Hokkaido University, Sapporo 060‐0810, Japan.

43. Department of Plant Biology and Pathology, Rutgers, The State University of New Jersey and Waksman Institute of Microbiology, 190 Frelinghuysen Road, Piscataway, NJ 08854–8020, USA.

44. The Genome Analysis Center, Monsanto, St. Louis, MO 63167, USA.

45. Faculty of Fisheries Sciences, Hokkaido University, Hakodate 041‐8611, Japan.

46. National Institute of Genetics, Mishima 411‐8540, Japan.

47. Graduate School of Arts and Sciences, The University of Tokyo, Tokyo 153‐8902, Japan.

48. Bernd Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm 14476, Germany.

49. Department of Microbiology, Immunology and Biochemistry, University of Tennessee, Memphis, TN 38163, USA.

50. Japan Science and Technology Agency, Sapporo 060‐0819, Japan.

51. Department of Biology, University of Washington, Seattle, WA 98195–5325, USA.

52. Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia B3H 4R2, Canada.

53. Wellcome Trust Centre for Human Genetics, Oxford, OX3 7BN, UK.

54. Sias AG, CH-8634 Hombrechtikon, Switzerland.

55. Faculty of Biology, University of Freiburg, Freiburg 79104, Germany.

56. BIOSS Centre for Biological Signaling Studies, University of Freiburg, Freiburg 79104, Germany.

57. Freiburg Initiative for Systems Biology (FRISYS), University of Freiburg, Freiburg 79104, Germany.

58. GabiPD team, Bioinformatics Group, Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm 14476, Germany.

59. Departamento de Ciencias Biológicas, Universidad de los Andes, Bogotá D.C., Colombia.

60. Department of Biological Sciences, University of Rhode Island, Kingston, RI 02881, USA.

61. Joint BioEnergy Institute, Feedstocks Division, Emeryville, CA 94608, USA.

62. Department of Evolution and Biodiversity of Plants, Ruhr‐University Bochum, Bochum 44780, Germany.

63. Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, USA.

64. Graduate School of Engineering, Osaka University, Osaka 565‐0871, Japan.

65. School of Science, Hokkaido University, Sapporo 060‐0810, Japan.

66. Department of Plant Biology, Cornell University, Ithaca, NY 14850, USA.

67. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA.

68. The Jack H. Skirball Center for Chemical Biology and Proteomics, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

69. UMR INRA 1088/CNRS 5184, Université Bourgogne Plant‐Microbe‐Environment, Dijon 21065, France.

70. Department of Biology, Utah State University, Logan, UT 84322‐5305, USA.

71. Plant Biotechnology, University of Freiburg, Freiburg 79104, Germany.

72. Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA.

73. U.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USA.

Abstract

The genome sequence of a lycophyte hints at ancient evolutionary transitions.

Funder

U.S. Department of Agriculture

National Institutes of Health

National Human Genome Research Institute

National Science Foundation

U.S. Department of Energy

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

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