Evidence map›Paper›PMID 42192309›Full record

ArticleBMC plant biology2026

Chloroplast genomics and nuclear ribosomal ITS phylogeny reveal pronounced cytonuclear discordance in Lycoris chunxiaoensis.

Shi-Yu Huang, Jia Yao, Yu-Tong Han, Yong-Chun Zhang, Xuan-Min Guang, Feng Yang, Hong-Fei Li, Yuan Tian, Fu-Yuan Zhu, Ke-Wang Xu and 2 more

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Article in BMC plant biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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5 · Who and what money

Authors and funding

12 authors.

Shi-Yu HuangState Key Laboratory for Development and Utilization of Forest Food Resources, State Key Laboratory of Tree Genetics and Breeding, The Southern Modern Forestry Collaborative Innovation Center, College of Life Sciences, Nanjing Forestry University, Nanjing, Jiangsu Province, 210037, China.
Jia YaoState Key Laboratory for Development and Utilization of Forest Food Resources, State Key Laboratory of Tree Genetics and Breeding, The Southern Modern Forestry Collaborative Innovation Center, College of Life Sciences, Nanjing Forestry University, Nanjing, Jiangsu Province, 210037, China.
Yu-Tong HanState Key Laboratory for Development and Utilization of Forest Food Resources, State Key Laboratory of Tree Genetics and Breeding, The Southern Modern Forestry Collaborative Innovation Center, College of Life Sciences, Nanjing Forestry University, Nanjing, Jiangsu Province, 210037, China.
Yong-Chun ZhangForestry and Pomology Research Institute, Shanghai Key Laboratory of Protected Horticultural Technology, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China.
Xuan-Min GuangBGI Research, Shenzhen, 518083, China.
Feng YangState Key Laboratory for Tropical Crop Breeding, Tropical Crops Genetic Resources Institute, Key Laboratory of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Chinese Academy of Tropical Agricultural Science, Haikou, 571101, China.
Hong-Fei LiState Key Laboratory for Development and Utilization of Forest Food Resources, State Key Laboratory of Tree Genetics and Breeding, The Southern Modern Forestry Collaborative Innovation Center, College of Life Sciences, Nanjing Forestry University, Nanjing, Jiangsu Province, 210037, China.
Yuan TianState Key Laboratory for Development and Utilization of Forest Food Resources, State Key Laboratory of Tree Genetics and Breeding, The Southern Modern Forestry Collaborative Innovation Center, College of Life Sciences, Nanjing Forestry University, Nanjing, Jiangsu Province, 210037, China.
Fu-Yuan ZhuState Key Laboratory for Development and Utilization of Forest Food Resources, State Key Laboratory of Tree Genetics and Breeding, The Southern Modern Forestry Collaborative Innovation Center, College of Life Sciences, Nanjing Forestry University, Nanjing, Jiangsu Province, 210037, China. fyzhu@njfu.edu.cn.
Ke-Wang XuState Key Laboratory for Development and Utilization of Forest Food Resources, State Key Laboratory of Tree Genetics and Breeding, The Southern Modern Forestry Collaborative Innovation Center, College of Life Sciences, Nanjing Forestry University, Nanjing, Jiangsu Province, 210037, China. xukw10@njfu.edu.cn.
Liu-Yan YangForestry and Pomology Research Institute, Shanghai Key Laboratory of Protected Horticultural Technology, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China. lillian2016@yeah.net.
Qing-Zhu LiForestry and Pomology Research Institute, Shanghai Key Laboratory of Protected Horticultural Technology, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China. 1984yu1986@163.com.

Funding

National Natural Science Foundation of China 31801889National Natural Science Foundation of China-Guangdong Joint Fund 2025A1515011598Natural Science Foundation of Shanghai Municipality 25ZR1401315Shanghai Rising-Star Program 20QB1404100Shenzhen Science and Technology Innovation Program JCYJ20240813145916021the STI 2030-Major Projects 2023ZD0405602
6 · The paper itself

Abstract

backgroundLycoris chunxiaoensis is a recently described species that shares high morphological similarity with L. radiata. Resolving the exact phylogenetic position and evolutionary origin of species within the genus Lycoris is often challenged by complex evolutionary processes.

resultsWe sequenced and assembled the complete chloroplast genome of L. chunxiaoensis and conducted comparative genomic and phylogenetic analyses. The phylogenetic reconstructions revealed cytonuclear discordance: the plastid phylogeny placed L. chunxiaoensis as sister to Lycoris rosea, whereas the nuclear ribosomal ITS phylogeny clustered it with Lycoris radiata. Furthermore, karyotype and fluorescence in situ hybridization (FISH) analyses showed that L. chunxiaoensis (2n = 3x = 33) shares cytogenetic similarity with L. radiata.

conclusionsPhylogenetic analyses based on the chloroplast genome and ITS datasets revealed differences in the phylogenetic placement of L. chunxiaoensis. In the plastome-based phylogeny, L. chunxiaoensis was recovered as sister to L. rosea, whereas in the ITS-based phylogeny it was placed within the same clade as L. radiata. This incongruence between chloroplast genome and ITS sequence suggests potential cytonuclear discordance and indicates a complex evolutionary history within Lycoris.

Indexed as

DNA, Ribosomal SpacerGenome, ChloroplastLycorisPhylogenyCell NucleusEvolution, MolecularIn Situ Hybridization, FluorescenceSequence Analysis, DNADNA, Ribosomal SpacerAmaryllidaceaeChloroplast genomeLycorisLycoris chunxiaoensisPhylogenyTaxonomy

Identifiers

PMID42192309
PMCPMC13386707

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.