Lin, Y.; Zhang, S.; Duan, J.; Shi, J.; Liu, D.; Lan, S.; Liu, Z.; Li, M. Chloroplast Genome Comparison and Evolution Analysis of Dendrobium (Orchidaceae) among Multiple Photosynthetic Pathways. Preprints2023, 2023122150. https://doi.org/10.20944/preprints202312.2150.v1
APA Style
Lin, Y., Zhang, S., Duan, J., Shi, J., Liu, D., Lan, S., Liu, Z., & Li, M. (2023). Chloroplast Genome Comparison and Evolution Analysis of Dendrobium (Orchidaceae) among Multiple Photosynthetic Pathways. Preprints. https://doi.org/10.20944/preprints202312.2150.v1
Chicago/Turabian Style
Lin, Y., Zhong-Jian Liu and Ming-He Li. 2023 "Chloroplast Genome Comparison and Evolution Analysis of Dendrobium (Orchidaceae) among Multiple Photosynthetic Pathways" Preprints. https://doi.org/10.20944/preprints202312.2150.v1
Abstract
Dendrobium Sw have multiple photosynthetic pathways but due to the lack of identification, the influence of CAM pathway on the plastid genomic evolution of Dendrobium and the origin of CAM pathway are still poorly understood. In this study, based on the results of δ13C, net photosynthetic rates (Pn) and titratable acid value, we identified Dendrobium species into three photosynthetic pathways. Then the chloroplast whole genome characteristics of 10 Dendrobium species were analyzed with next-generation sequencing technology. The quadripartite-structure plastomes ranged from 151,673 bp to 160,375 bp and included 127 to 132 genes. Five noncoding mutational hotspots (rbcL-accD, atpB-rbcL, rbcL, trnLUAA, accD, Pi > 0.10) were identified. A total of 41–60 SSRs were recognized, the average trinucleotide content was only about 4%, which is probably due to a more conserved SSR. Among multiple photosynthetic pathways, the apparent differences in IR junctions of SSC/IRB junctions (JSBs) were measured within chloroplast genomes, and the chloroplast genome size of constitutive CAM plants is shorter because of their ndh gene loss or pseudogenization, and this phenomenon accounts for a decreasing proportion of constitutive CAM, facultative CAM, and obligate C3 plants, so that the loss of the ndh gene may be speculated to be closely related to the CAM pathway. Phylogenetic analyses showed that there are multiple independent CAM origins in selected Dendrobium species, and the ancestral Dendrobium plastome possessed full ORFs for all ndh genes. The study aims to clarify the chloroplast genomic features of different photosynthetic pathways, enrich the genomic data of CAM plants, and provide genetic information from different perspectives for further systematic study of Dendrobium.
Copyright:
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
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