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Fern genomes elucidate land plant evolution and cyanobacterial symbioses

Fay-Wei Li, Paul Brouwer, Lorenzo Carretero-Paulet (UGent) , Shifeng Cheng, Jan de Vries, Pierre-Marc Delaux, Ariana Eily, Nils Koppers, Li-Yaung Kuo, Zheng Li, et al.
(2018) NATURE PLANTS. 4(7). p.460-472
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Abstract
Ferns are the closest sister group to all seed plants, yet little is known about their genomes other than that they are generally colossal. Here, we report on the genomes of Azolla filiculoides and Salvinia cucullata (Salviniales) and present evidence for episodic whole-genome duplication in ferns-one at the base of 'core leptosporangiates' and one specific to Azolla. One fernspecific gene that we identified, recently shown to confer high insect resistance, seems to have been derived from bacteria through horizontal gene transfer. Azolla coexists in a unique symbiosis with N-2-fixing cyanobacteria, and we demonstrate a clear pattern of cospeciation between the two partners. Furthermore, the Azolla genome lacks genes that are common to arbuscular mycorrhizal and root nodule symbioses, and we identify several putative transporter genes specific to Azolla-cyanobacterial symbiosis. These genomic resources will help in exploring the biotechnological potential of Azolla and address fundamental questions in the evolution of plant life.
Keywords
MULTIPLE SEQUENCE ALIGNMENT, PENTATRICOPEPTIDE REPEAT PROTEINS, MAXIMUM-LIKELIHOOD, DNA-SEQUENCES, TRANSCRIPTIONAL REGULATION, PHYLOGENETIC ANALYSES, GENETIC DIVERSITY, VASCULAR PLANTS, AZOLLA, CLASSIFICATION

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MLA
Li, Fay-Wei, et al. “Fern Genomes Elucidate Land Plant Evolution and Cyanobacterial Symbioses.” NATURE PLANTS, vol. 4, no. 7, 2018, pp. 460–72, doi:10.1038/s41477-018-0188-8.
APA
Li, F.-W., Brouwer, P., Carretero-Paulet, L., Cheng, S., de Vries, J., Delaux, P.-M., … Pryer, K. M. (2018). Fern genomes elucidate land plant evolution and cyanobacterial symbioses. NATURE PLANTS, 4(7), 460–472. https://doi.org/10.1038/s41477-018-0188-8
Chicago author-date
Li, Fay-Wei, Paul Brouwer, Lorenzo Carretero-Paulet, Shifeng Cheng, Jan de Vries, Pierre-Marc Delaux, Ariana Eily, et al. 2018. “Fern Genomes Elucidate Land Plant Evolution and Cyanobacterial Symbioses.” NATURE PLANTS 4 (7): 460–72. https://doi.org/10.1038/s41477-018-0188-8.
Chicago author-date (all authors)
Li, Fay-Wei, Paul Brouwer, Lorenzo Carretero-Paulet, Shifeng Cheng, Jan de Vries, Pierre-Marc Delaux, Ariana Eily, Nils Koppers, Li-Yaung Kuo, Zheng Li, Mathew Simenc, Ian Small, Eric Wafula, Stephany Angarita, Michael S Barker, Andrea Braeutigam, Claude dePamphilis, Sven Gould, Prashant S Hosmani, Yao-Moan Huang, Bruno Huettel, Yoichiro Kato, Xin Liu, Steven Maere, Rose McDowell, Lukas A Mueller, Klaas GJ Nierop, Stefan A Rensing, Tanner Robison, Carl J Rothfels, Erin M Sigel, Yue Song, Prakash R Timilsena, Yves Van de Peer, Hongli Wang, Per KI Wilhelmsson, Paul G Wolf, Xun Xu, Joshua P Der, Henriette Schluepmann, Gane K-S Wong, and Kathleen M Pryer. 2018. “Fern Genomes Elucidate Land Plant Evolution and Cyanobacterial Symbioses.” NATURE PLANTS 4 (7): 460–472. doi:10.1038/s41477-018-0188-8.
Vancouver
1.
Li F-W, Brouwer P, Carretero-Paulet L, Cheng S, de Vries J, Delaux P-M, et al. Fern genomes elucidate land plant evolution and cyanobacterial symbioses. NATURE PLANTS. 2018;4(7):460–72.
IEEE
[1]
F.-W. Li et al., “Fern genomes elucidate land plant evolution and cyanobacterial symbioses,” NATURE PLANTS, vol. 4, no. 7, pp. 460–472, 2018.
@article{8575736,
  abstract     = {{Ferns are the closest sister group to all seed plants, yet little is known about their genomes other than that they are generally colossal. Here, we report on the genomes of Azolla filiculoides and Salvinia cucullata (Salviniales) and present evidence for episodic whole-genome duplication in ferns-one at the base of 'core leptosporangiates' and one specific to Azolla. One fernspecific gene that we identified, recently shown to confer high insect resistance, seems to have been derived from bacteria through horizontal gene transfer. Azolla coexists in a unique symbiosis with N-2-fixing cyanobacteria, and we demonstrate a clear pattern of cospeciation between the two partners. Furthermore, the Azolla genome lacks genes that are common to arbuscular mycorrhizal and root nodule symbioses, and we identify several putative transporter genes specific to Azolla-cyanobacterial symbiosis. These genomic resources will help in exploring the biotechnological potential of Azolla and address fundamental questions in the evolution of plant life.}},
  author       = {{Li, Fay-Wei and Brouwer, Paul and Carretero-Paulet, Lorenzo and Cheng, Shifeng and de Vries, Jan and Delaux, Pierre-Marc and Eily, Ariana and Koppers, Nils and Kuo, Li-Yaung and Li, Zheng and Simenc, Mathew and Small, Ian and Wafula, Eric and Angarita, Stephany and Barker, Michael S and Braeutigam, Andrea and dePamphilis, Claude and Gould, Sven and Hosmani, Prashant S and Huang, Yao-Moan and Huettel, Bruno and Kato, Yoichiro and Liu, Xin and Maere, Steven and McDowell, Rose and Mueller, Lukas A and Nierop, Klaas GJ and Rensing, Stefan A and Robison, Tanner and Rothfels, Carl J and Sigel, Erin M and Song, Yue and Timilsena, Prakash R and Van de Peer, Yves and Wang, Hongli and Wilhelmsson, Per KI and Wolf, Paul G and Xu, Xun and Der, Joshua P and Schluepmann, Henriette and Wong, Gane K-S and Pryer, Kathleen M}},
  issn         = {{2055-0278}},
  journal      = {{NATURE PLANTS}},
  keywords     = {{MULTIPLE SEQUENCE ALIGNMENT,PENTATRICOPEPTIDE REPEAT PROTEINS,MAXIMUM-LIKELIHOOD,DNA-SEQUENCES,TRANSCRIPTIONAL REGULATION,PHYLOGENETIC ANALYSES,GENETIC DIVERSITY,VASCULAR PLANTS,AZOLLA,CLASSIFICATION}},
  language     = {{eng}},
  number       = {{7}},
  pages        = {{460--472}},
  title        = {{Fern genomes elucidate land plant evolution and cyanobacterial symbioses}},
  url          = {{http://dx.doi.org/10.1038/s41477-018-0188-8}},
  volume       = {{4}},
  year         = {{2018}},
}
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