Li, Fay-Wei; Brouwer, Paul; Carretero-Paulet, Lorenzo; Cheng, Shifeng; de Vries, Jan; Delaux, Pierre-Marc; Eily, Ariana; Koppers, Nils; Kuo, Li-Yaung; Li, Zheng; Simenc, Mathew; Small, Ian; Wafula, Eric; Angarita, Stephany; Barker, Michael S.; Bräutigam, Andrea ; dePamphilis, Claude; Gould, Sven; Hosmani, Prashant S.; Huang, Yao-Moan; Huettel, Bruno; Kato, Yoichiro; Liu, Xin; Maere, Steven; McDowell, Rose; Mueller, Lukas A.; Nierop, Klaas G. J.; Rensing, Stefan A.; Robison, Tanner; Rothfels, Carl J.; Sigel, Erin M.; Song, Yue; Timilsena, Prakash R.; Van de Peer, Yves; Wang, Hongli; Wilhelmsson, Per K. I.; Wolf, Paul G.; Xu, Xun; Der, Joshua P.; Schluepmann, Henriette; Wong, Gane K. -S.; Pryer, Kathleen M.: Fern genomes elucidate land plant evolution and cyanobacterial symbioses. In: NATURE PLANTS. Jg.4 H. 7. 2018, S. 460-472
Inhalt
- Genome assembly and annotation.
- Fig. 1 Genome size evolution in Salviniales.
- Insights into gene family evolution in land plants.
- The history of whole-genome duplication in ferns.
- The pentatricopeptide repeat family and RNA editing.
- Origin and evolution of a fern insecticidal protein.
- Fig. 2 Evolution of ethylene biosynthesis.
- Fig. 3 The history of WGD in Azolla and Salvinia.
- Fig. 4 Origin of a fern insecticidal protein.
- Methods
- Fig. 5 Azolla–cyanobacterial symbiosis.
- Genome and transcriptome sequencing
- Genome assembly
- Repeat annotation
- Gene prediction
- Phylogenomic inference and placement of WGDs from nuclear gene trees
- Classification of syntenic duplicates and microsynteny analysis
- Gaussian mixture model analysis of Ks distributions
- Gene family classification and ancestral reconstruction
- Transcription-associated protein characterization
- PPR annotation
- Phylogeny of the insecticidal protein Tma12
- Azolla phylogeny
- Cyanobiont phylogeny
- Identification of the CSP genes
- Quantitative real-time PCR of nifH
- Azolla symbiosis transcriptome analysis
- Azolla–cyanobacteria HGT
- Phylogeny of SHC
- Detection of SHC-synthesized triterpenes
- Reporting Summary
- Data availability
- Acknowledgements