Annotation of the Turnera subulata (Passifloraceae) Draft Genome Reveals the S-Locus Evolved after the Divergence of Turneroideae from Passifloroideae in a Stepwise Manner
Abstract
:1. Introduction
2. Results
2.1. Genome Assembly and Annotation
2.2. Comparison of Orthologous Groups between Members of Malpighiales
2.3. Identification of the BAHD Acyltransferase (BAHD) Gene Family
2.4. Identification of the S-Protein Homolog (SPH) Gene Family
2.5. Identification of the YUCCA (YUC) Gene Family
2.6. Possible Origin of the S-Genes
2.7. Expression Patterns of the BAHD and YUCCA Family
2.8. Identifying Hypothetical Neofunctionalization of the S-Genes
3. Discussion
3.1. Repetitive Elements in the Turnera subulata Genome
3.2. The S-Protein Homolog Gene Family Is Present in some Monocots
3.3. The S-Locus Likely Evolved in Turneroideae via a Step-By-Step Manner Similar to the S-Loci from Primula and Linum
3.4. TsBAHD and TsSPH1 Likely Retained Their Ancestral Function, While TsYUC6 Likely Has Undergone Alteration of Function
4. Materials and Methods
4.1. Genome Assembly
4.2. Genome Annotation
4.3. Putative BAHD, SPH, and YUCCA Identification in Turnera subulata
4.4. Data retrieval, Alignment, and Phylogenetic Analysis
4.5. Expression Comparison across Turnera, Populus, and Arabidopsis
4.6. RT-qPCR Analysis of Putative YUCCA Family Members
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Gene | Predicted Subcellular Location |
---|---|
TsBAHD | nucl: 8, cyto: 5 |
Tsubulata_042462-RA | nucl: 6, nucl_plas: 5, cyto: 2, mito: 2, plas: 2, chlo: 1 |
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Henning, P.M.; Roalson, E.H.; Mir, W.; McCubbin, A.G.; Shore, J.S. Annotation of the Turnera subulata (Passifloraceae) Draft Genome Reveals the S-Locus Evolved after the Divergence of Turneroideae from Passifloroideae in a Stepwise Manner. Plants 2023, 12, 286. https://doi.org/10.3390/plants12020286
Henning PM, Roalson EH, Mir W, McCubbin AG, Shore JS. Annotation of the Turnera subulata (Passifloraceae) Draft Genome Reveals the S-Locus Evolved after the Divergence of Turneroideae from Passifloroideae in a Stepwise Manner. Plants. 2023; 12(2):286. https://doi.org/10.3390/plants12020286
Chicago/Turabian StyleHenning, Paige M., Eric H. Roalson, Wali Mir, Andrew G. McCubbin, and Joel S. Shore. 2023. "Annotation of the Turnera subulata (Passifloraceae) Draft Genome Reveals the S-Locus Evolved after the Divergence of Turneroideae from Passifloroideae in a Stepwise Manner" Plants 12, no. 2: 286. https://doi.org/10.3390/plants12020286