A genomic panel for studying C3-C4 intermediate photosynthesis in the Brassiceae tribe.

Autor: Guerreiro R; Institute of Quantitative Genetics and Genomics of Plants, Faculty of Mathematics and Natural Sciences, Heinrich Heine University, Düsseldorf, Germany., Bonthala VS; Institute of Quantitative Genetics and Genomics of Plants, Faculty of Mathematics and Natural Sciences, Heinrich Heine University, Düsseldorf, Germany., Schlüter U; Institute of Plant Biochemistry, Faculty of Mathematics and Natural Sciences, Heinrich Heine University, Düsseldorf, Germany.; Cluster of Excellence on Plant Sciences (CEPLAS), Düsseldorf, Germany., Hoang NV; Biosystematics Group, Department of Plant Sciences, Wageningen University, Wageningen, The Netherlands., Triesch S; Institute of Plant Biochemistry, Faculty of Mathematics and Natural Sciences, Heinrich Heine University, Düsseldorf, Germany.; Cluster of Excellence on Plant Sciences (CEPLAS), Düsseldorf, Germany., Schranz ME; Biosystematics Group, Department of Plant Sciences, Wageningen University, Wageningen, The Netherlands., Weber APM; Institute of Plant Biochemistry, Faculty of Mathematics and Natural Sciences, Heinrich Heine University, Düsseldorf, Germany.; Cluster of Excellence on Plant Sciences (CEPLAS), Düsseldorf, Germany., Stich B; Institute of Quantitative Genetics and Genomics of Plants, Faculty of Mathematics and Natural Sciences, Heinrich Heine University, Düsseldorf, Germany.; Cluster of Excellence on Plant Sciences (CEPLAS), Düsseldorf, Germany.; Max Planck Institute for Plant Breeding Research, Köln, Germany.
Jazyk: angličtina
Zdroj: Plant, cell & environment [Plant Cell Environ] 2023 Nov; Vol. 46 (11), pp. 3611-3627. Date of Electronic Publication: 2023 Jul 11.
DOI: 10.1111/pce.14662
Abstrakt: Research on C4 and C3-C4 photosynthesis has attracted significant attention because the understanding of the genetic underpinnings of these traits will support the introduction of its characteristics into commercially relevant crop species. We used a panel of 19 taxa of 18 Brassiceae species with different photosynthesis characteristics (C3 and C3-C4) with the following objectives: (i) create draft genome assemblies and annotations, (ii) quantify orthology levels using synteny maps between all pairs of taxa, (iii) ⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠⁠describe the phylogenetic relatedness across all the species, and (iv) track the evolution of C3-C4 intermediate photosynthesis in the Brassiceae tribe. Our results indicate that the draft de novo genome assemblies are of high quality and cover at least 90% of the gene space. Therewith we more than doubled the sampling depth of genomes of the Brassiceae tribe that comprises commercially important as well as biologically interesting species. The gene annotation generated high-quality gene models, and for most genes extensive upstream sequences are available for all taxa, yielding potential to explore variants in regulatory sequences. The genome-based phylogenetic tree of the Brassiceae contained two main clades and indicated that the C3-C4 intermediate photosynthesis has evolved five times independently. Furthermore, our study provides the first genomic support of the hypothesis that Diplotaxis muralis is a natural hybrid of D. tenuifolia and D. viminea. Altogether, the de novo genome assemblies and the annotations reported in this study are a valuable resource for research on the evolution of C3-C4 intermediate photosynthesis.
(© 2023 The Authors. Plant, Cell & Environment published by John Wiley & Sons Ltd.)
Databáze: MEDLINE
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