Deciphering the Plastomic Code of Chinese Hog-Peanut (Amphicarpaea edgeworthii Benth., Leguminosae): Comparative Genomics and Evolutionary Insights within the Phaseoleae Tribe
Author:
Xiang Yi-Nan12, Wang Xiao-Qun1, Ding Lu-Lu1, Bai Xin-Yu1, Feng Yu-Qing1, Qi Zhe-Chen1ORCID, Sun Yong-Tao3, Yan Xiao-Ling2
Affiliation:
1. Zhejiang Province Key Laboratory of Plant Secondary Metabolism and Regulation, College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China 2. Eastern China Conservation Centre for Wild Endangered Plant Resources, Shanghai Chenshan Botanical Garden, Shanghai 201602, China 3. East China Survey and Planning Institute, The National Forestry and Grassland Administration, Hangzhou 310019, China
Abstract
The classification and phylogenetic relationships within the Phaseoleae tribe (Leguminosae) have consistently posed challenges to botanists. This study addresses these taxonomic intricacies, with a specific focus on the Glycininae subtribe, by conducting a comprehensive analysis of the highly conserved plastome in Amphicarpaea edgeworthii Benth., a critical species within this subtribe. Through meticulous genomic sequencing, we identified a plastome size of 148,650 bp, composed of 128 genes, including 84 protein-coding genes, 36 tRNA genes, and 8 rRNA genes. Comparative genomic analysis across seven Glycininae species illuminated a universally conserved circular and quadripartite structure, with nine genes exhibiting notable nucleotide diversity, signifying a remarkable genomic variability. Phylogenetic reconstruction of 35 Phaseoleae species underscores the affinity of Amphicarpaea with Glycine, placing Apios as a sister lineage to all other Phaseoleae species, excluding Clitorinae and Diocleinae subtribes. Intriguingly, Apios, Butea, Erythrina, and Spatholobus, traditionally clumped together in the Erythrininae subtribe, display paraphyletic divergence, thereby contesting their taxonomic coherence. The pronounced structural differences in the quadripartite boundary genes among taxa with unresolved subtribal affiliations demand a reevaluation of Erythrininae’s taxonomic classification, potentially refining the phylogenetic contours of the tribe.
Funder
Special Fund for Scientific Research of Shanghai Landscaping and City Appearance Administrative Bureau National Wild Plant Germplasm Resource Center Natural Science Foundation of Zhejiang Province
Subject
Genetics (clinical),Genetics
Reference60 articles.
1. Vasconcelos, M.W., Grusak, M.A., Pinto, E., Gomes, A., Ferreira, H., Balázs, B., Centofanti, T., Ntatsi, G., Savvas, D., and Karkanis, A. (2020). The Plant Family Fabaceae: Biology and Physiological Responses to Environmental Stresses, Springer. 2. Legumes as a Cornerstone of the Transition toward More Sustainable Agri-Food Systems and Diets in Europe;Ferreira;Front. Sustain. Food Syst.,2021 3. The Role of Pulses in Improving Human Health: A Review;Didinger;Legume Sci.,2022 4. Aasfar, A., Bargaz, A., Yaakoubi, K., Hilali, A., Bennis, I., Zeroual, Y., and Meftah Kadmiri, I. (2021). Nitrogen Fixing Azotobacter Species as Potential Soil Biological Enhancers for Crop Nutrition and Yield Stability. Front. Microbiol., 12. 5. Ahmad, E., Zaidi, A., Khan, M.S., and Oves, M. (2012). Heavy Metal Toxicity to Symbiotic Nitrogen-Fixing Microorganism and Host Legumes, Springer.
|
|