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3. Delayed differentiation of epidermal cells walls can underlie pedomorphosis in plants: the case of pedomorphic petals in the hummingbird-pollinated Caiophora hibiscifolia (Loasaceae, subfam. Loasoideae) species

Author

Strelin, Marina M., Zattara, Eduardo E., Ullrich, Kristian, Schallenberg-Rüdinger, Mareike, and Rensing, Stefan

Subjects
Pedomorphosis, Heterochrony, Evolution, Petal, Research, Epidermis differentiation, fungi, food and beverages, Loasoideae, QH359-425, Flower evolution, Genetics, Cell shape, Transcriptome, Pollination, Ecology, Evolution, Behavior and Systematics, Developmental Biology
Abstract

Background Understanding the relationship between macroevolutionary diversity and variation in organism development is an important goal of evolutionary biology. Variation in the morphology of several plant and animal lineages is attributed to pedomorphosis, a case of heterochrony, where an ancestral juvenile shape is retained in an adult descendant. Pedomorphosis facilitated morphological adaptation in different plant lineages, but its cellular and molecular basis needs further exploration. Plant development differs from animal development in that cells are enclosed by cell walls and do not migrate. Moreover, in many plant lineages, the differentiated epidermis of leaves, and leaf-derived structures, such as petals, limits organ growth. We, therefore, proposed that pedomorphosis in leaves, and in leaf-derived structures, results from delayed differentiation of epidermal cells with respect to reproductive maturity. This idea was explored for petal evolution, given the importance of corolla morphology for angiosperm reproductive success. Results By comparing cell morphology and transcriptional profiles between 5 mm flower buds and mature flowers of an entomophile and an ornitophile Loasoideae species (a lineage that experienced transitions from bee- to hummingbird-pollination), we show that evolution of pedomorphic petals of the ornithophile species likely involved delayed differentiation of epidermal cells with respect to flower maturity. We also found that developmental mechanisms other than pedomorphosis might have contributed to evolution of corolla morphology. Conclusions Our results highlight a need for considering alternatives to the flower-centric perspective when studying the origin of variation in flower morphology, as this can be generated by developmental processes that are also shared with leaves. Graphical Abstract

Published
2022

5. Molecular biology of mosses

Author

Fujita, Tomomichi, primary, Nogué, Fabien, additional, Rensing, Stefan A., additional, Takezawa, Daisuke, additional, and Vidali, Luis, additional

Published
2021
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7. HAG1 and SWI3A/B control of male germ line development in P. patens suggests conservation of epigenetic reproductive control across land plants

Author

Genau, Anne C., primary, Li, Zhanghai, additional, Renzaglia, Karen S., additional, Fernandez Pozo, Noe, additional, Nogué, Fabien, additional, Haas, Fabian B., additional, Wilhelmsson, Per K. I., additional, Ullrich, Kristian K., additional, Schreiber, Mona, additional, Meyberg, Rabea, additional, Grosche, Christopher, additional, and Rensing, Stefan A., additional

Published
2021
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8. Multi-omics reveals mechanisms of total resistance to extreme illumination of a desert alga

Author

Treves, Haim, primary, Siemiatkowska, Beata, additional, Luzarowska, Urszula, additional, Murik, Omer, additional, Fernandez-Pozo, Noe, additional, Moraes, Thiago Alexandre, additional, Erban, Alexander, additional, Armbruster, Ute, additional, Brotman, Yariv, additional, Kopka, Joachim, additional, Rensing, Stefan Andreas, additional, Szymanski, Jedrzej, additional, and Stitt, Mark, additional

Published
2020
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9. Anthoceros genomes illuminate the origin of land plants and the unique biology of hornworts

Author

Li, Fay-Wei, primary, Nishiyama, Tomoaki, additional, Waller, Manuel, additional, Frangedakis, Eftychios, additional, Keller, Jean, additional, Li, Zheng, additional, Fernandez-Pozo, Noe, additional, Barker, Michael S., additional, Bennett, Tom, additional, Blázquez, Miguel A., additional, Cheng, Shifeng, additional, Cuming, Andrew C., additional, de Vries, Jan, additional, de Vries, Sophie, additional, Delaux, Pierre-Marc, additional, Diop, Issa S., additional, Harrison, C. Jill, additional, Hauser, Duncan, additional, Hernández-García, Jorge, additional, Kirbis, Alexander, additional, Meeks, John C., additional, Monte, Isabel, additional, Mutte, Sumanth K., additional, Neubauer, Anna, additional, Quandt, Dietmar, additional, Robison, Tanner, additional, Shimamura, Masaki, additional, Rensing, Stefan A., additional, Villarreal, Juan Carlos, additional, Weijers, Dolf, additional, Wicke, Susann, additional, Wong, Gane K.-S., additional, Sakakibara, Keiko, additional, and Szövényi, Péter, additional

Published
2020
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11. Fern genomes elucidate land plant evolution and cyanobacterial symbioses

Author

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., Sub Molecular Plant Physiology, GeoLab Algemeen, Organic geochemistry, Organic geochemistry & molecular biogeology, Molecular Plant Physiology, Sub Molecular Plant Physiology, GeoLab Algemeen, Organic geochemistry, Organic geochemistry & molecular biogeology, Molecular Plant Physiology, and Springer Nature

Subjects
0106 biological sciences, 0301 basic medicine, Ecology and Evolutionary Biology, Plant Biology, comparative genomics, Plant Science, 01 natural sciences, Genome, AZOLLA, MULTIPLE SEQUENCE ALIGNMENT, Gene Duplication, MAXIMUM-LIKELIHOOD, Phylogeny, Plant evolution, biology, TRANSCRIPTIONAL REGULATION, Life Sciences, Azolla, Biological Evolution, natural variation in plants, phylogenetics, GENETIC DIVERSITY, Fern, Genome, Plant, Crop and Pasture Production, Genome evolution, genome evolution, Genes, Plant, Cyanobacteria, plant symbiosis, CLASSIFICATION, 03 medical and health sciences, Symbiosis, Genetics, PENTATRICOPEPTIDE REPEAT PROTEINS, Biology, Comparative genomics, PHYLOGENETIC ANALYSES, Human Genome, Biology and Life Sciences, Plant, biology.organism_classification, DNA-SEQUENCES, Azolla filiculoides, 030104 developmental biology, Genes, Evolutionary biology, Ferns, VASCULAR PLANTS, 010606 plant biology & botany
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 fern-specific 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 N2-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.

Published
2018

12. Usability of reference-free transcriptome assemblies for detection of differential expression: a case study on Aethionema arabicum dimorphic seeds

Author

Wilhelmsson, Per K. I., primary, Chandler, Jake O., additional, Fernandez-Pozo, Noe, additional, Graeber, Kai, additional, Ullrich, Kristian K., additional, Arshad, Waheed, additional, Khan, Safina, additional, Hofberger, Johannes A., additional, Buchta, Karl, additional, Edger, Patrick P., additional, Pires, J. Chris, additional, Schranz, M. Eric, additional, Leubner-Metzger, Gerhard, additional, and Rensing, Stefan A., additional

Published
2019
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13. A kiwellin disarms the metabolic activity of a secreted fungal virulence factor

Author

Han, Xiaowei, primary, Altegoer, Florian, additional, Steinchen, Wieland, additional, Binnebesel, Lynn, additional, Schuhmacher, Jan, additional, Glatter, Timo, additional, Giammarinaro, Pietro I., additional, Djamei, Armin, additional, Rensing, Stefan A., additional, Reissmann, Stefanie, additional, Kahmann, Regine, additional, and Bange, Gert, additional

Published
2019
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19. Reannotation and extended community resources for the genome of the non-seed plant Physcomitrella patens provide insights into the evolution of plant gene structures and functions

Author

Zimmer, Andreas D, primary, Lang, Daniel, additional, Buchta, Karol, additional, Rombauts, Stephane, additional, Nishiyama, Tomoaki, additional, Hasebe, Mitsuyasu, additional, Van de Peer, Yves, additional, Rensing, Stefan A, additional, and Reski, Ralf, additional

Published
2013
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21. Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs

Author

Curtis, Bruce A., primary, Tanifuji, Goro, additional, Burki, Fabien, additional, Gruber, Ansgar, additional, Irimia, Manuel, additional, Maruyama, Shinichiro, additional, Arias, Maria C., additional, Ball, Steven G., additional, Gile, Gillian H., additional, Hirakawa, Yoshihisa, additional, Hopkins, Julia F., additional, Kuo, Alan, additional, Rensing, Stefan A., additional, Schmutz, Jeremy, additional, Symeonidi, Aikaterini, additional, Elias, Marek, additional, Eveleigh, Robert J. M., additional, Herman, Emily K., additional, Klute, Mary J., additional, Nakayama, Takuro, additional, Oborník, Miroslav, additional, Reyes-Prieto, Adrian, additional, Armbrust, E. Virginia, additional, Aves, Stephen J., additional, Beiko, Robert G., additional, Coutinho, Pedro, additional, Dacks, Joel B., additional, Durnford, Dion G., additional, Fast, Naomi M., additional, Green, Beverley R., additional, Grisdale, Cameron J., additional, Hempel, Franziska, additional, Henrissat, Bernard, additional, Höppner, Marc P., additional, Ishida, Ken-Ichiro, additional, Kim, Eunsoo, additional, Kořený, Luděk, additional, Kroth, Peter G., additional, Liu, Yuan, additional, Malik, Shehre-Banoo, additional, Maier, Uwe G., additional, McRose, Darcy, additional, Mock, Thomas, additional, Neilson, Jonathan A. D., additional, Onodera, Naoko T., additional, Poole, Anthony M., additional, Pritham, Ellen J., additional, Richards, Thomas A., additional, Rocap, Gabrielle, additional, Roy, Scott W., additional, Sarai, Chihiro, additional, Schaack, Sarah, additional, Shirato, Shu, additional, Slamovits, Claudio H., additional, Spencer, David F., additional, Suzuki, Shigekatsu, additional, Worden, Alexandra Z., additional, Zauner, Stefan, additional, Barry, Kerrie, additional, Bell, Callum, additional, Bharti, Arvind K., additional, Crow, John A., additional, Grimwood, Jane, additional, Kramer, Robin, additional, Lindquist, Erika, additional, Lucas, Susan, additional, Salamov, Asaf, additional, McFadden, Geoffrey I., additional, Lane, Christopher E., additional, Keeling, Patrick J., additional, Gray, Michael W., additional, Grigoriev, Igor V., additional, and Archibald, John M., additional

Published
2012
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22. The Ectocarpus genome and the independent evolution of multicellularity in brown algae

Author

Cock, J. Mark, primary, Sterck, Lieven, additional, Rouzé, Pierre, additional, Scornet, Delphine, additional, Allen, Andrew E., additional, Amoutzias, Grigoris, additional, Anthouard, Veronique, additional, Artiguenave, François, additional, Aury, Jean-Marc, additional, Badger, Jonathan H., additional, Beszteri, Bank, additional, Billiau, Kenny, additional, Bonnet, Eric, additional, Bothwell, John H., additional, Bowler, Chris, additional, Boyen, Catherine, additional, Brownlee, Colin, additional, Carrano, Carl J., additional, Charrier, Bénédicte, additional, Cho, Ga Youn, additional, Coelho, Susana M., additional, Collén, Jonas, additional, Corre, Erwan, additional, Da Silva, Corinne, additional, Delage, Ludovic, additional, Delaroque, Nicolas, additional, Dittami, Simon M., additional, Doulbeau, Sylvie, additional, Elias, Marek, additional, Farnham, Garry, additional, Gachon, Claire M. M., additional, Gschloessl, Bernhard, additional, Heesch, Svenja, additional, Jabbari, Kamel, additional, Jubin, Claire, additional, Kawai, Hiroshi, additional, Kimura, Kei, additional, Kloareg, Bernard, additional, Küpper, Frithjof C., additional, Lang, Daniel, additional, Le Bail, Aude, additional, Leblanc, Catherine, additional, Lerouge, Patrice, additional, Lohr, Martin, additional, Lopez, Pascal J., additional, Martens, Cindy, additional, Maumus, Florian, additional, Michel, Gurvan, additional, Miranda-Saavedra, Diego, additional, Morales, Julia, additional, Moreau, Hervé, additional, Motomura, Taizo, additional, Nagasato, Chikako, additional, Napoli, Carolyn A., additional, Nelson, David R., additional, Nyvall-Collén, Pi, additional, Peters, Akira F., additional, Pommier, Cyril, additional, Potin, Philippe, additional, Poulain, Julie, additional, Quesneville, Hadi, additional, Read, Betsy, additional, Rensing, Stefan A., additional, Ritter, Andrés, additional, Rousvoal, Sylvie, additional, Samanta, Manoj, additional, Samson, Gaelle, additional, Schroeder, Declan C., additional, Ségurens, Béatrice, additional, Strittmatter, Martina, additional, Tonon, Thierry, additional, Tregear, James W., additional, Valentin, Klaus, additional, von Dassow, Peter, additional, Yamagishi, Takahiro, additional, Van de Peer, Yves, additional, and Wincker, Patrick, additional

Published
2010
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27. The evolution of nuclear auxin signalling

Author

Paponov, Ivan A, primary, Teale, William, additional, Lang, Daniel, additional, Paponov, Martina, additional, Reski, Ralf, additional, Rensing, Stefan A, additional, and Palme, Klaus, additional

Published
2009
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39. Anthoceros genomes illuminate the origin of land plants and the unique biology of hornworts

Author

Li, Fay-Wei, Nishiyama, Tomoaki, Waller, Manuel, Frangedakis, Eftychios, Keller, Jean, Li, Zheng, Fernandez-Pozo, Noe, Barker, Michael S, Bennett, Tom, Blázquez, Miguel A, Cheng, Shifeng, Cuming, Andrew C, De Vries, Jan, De Vries, Sophie, Delaux, Pierre-Marc, Diop, Issa S, Harrison, C Jill, Hauser, Duncan, Hernández-García, Jorge, Kirbis, Alexander, Meeks, John C, Monte, Isabel, Mutte, Sumanth K, Neubauer, Anna, Quandt, Dietmar, Robison, Tanner, Shimamura, Masaki, Rensing, Stefan A, Villarreal, Juan Carlos, Weijers, Dolf, Wicke, Susann, Wong, Gane K-S, Sakakibara, Keiko, and Szövényi, Péter

Subjects
2. Zero hunger, Embryophyta, Anthocerotophyta, 15. Life on land, Biological Evolution, Life History Traits, Genome, Plant
Abstract

Funder: National Institute for Basic Biology (NIBB) Collaborative Research Program (13-710), Funder: The Forschungskredit of the University of Zurich The University Research Priority Program “Evolution in Action” of the University of Zurich The Georges and Antoine Claraz Foundation (Switzerland), Funder: Spanish Ministry of Science, Innovation and Universities (BFU2016-80621-P), Funder: The Georges and Antoine Claraz Foundation (Switzerland) The Research Priority Program “Evolution in Action” of the University of Zurich, Funder: Foundation of German Business (sdw), Georges and Antoine Claraz Foundation, URPP Evolution in Action of the University of Zurich, Funder: Special Grant for Innovation in Research Program of the Technical University of Dresden (Germany)., Hornworts comprise a bryophyte lineage that diverged from other extant land plants >400 million years ago and bears unique biological features, including a distinct sporophyte architecture, cyanobacterial symbiosis and a pyrenoid-based carbon-concentrating mechanism (CCM). Here, we provide three high-quality genomes of Anthoceros hornworts. Phylogenomic analyses place hornworts as a sister clade to liverworts plus mosses with high support. The Anthoceros genomes lack repeat-dense centromeres as well as whole-genome duplication, and contain a limited transcription factor repertoire. Several genes involved in angiosperm meristem and stomatal function are conserved in Anthoceros and upregulated during sporophyte development, suggesting possible homologies at the genetic level. We identified candidate genes involved in cyanobacterial symbiosis and found that LCIB, a Chlamydomonas CCM gene, is present in hornworts but absent in other plant lineages, implying a possible conserved role in CCM function. We anticipate that these hornwort genomes will serve as essential references for future hornwort research and comparative studies across land plants.

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