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Zeng Z, Wang R, Wang J, Chen Y, Wang Y, Song Z, Zhang W, Qiong L. Development and validation of sex-linked molecular markers for rapid and accurate identification of male and female Hippophae tibetana plants. Sci Rep 2024; 14:19243. [PMID: 39164317 PMCID: PMC11336215 DOI: 10.1038/s41598-024-69918-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2024] [Accepted: 08/09/2024] [Indexed: 08/22/2024] Open
Abstract
Hippophae tibetana, one of the highest-altitude woody plants endemic to the Qinghai-Tibet Plateau, primarily thrives on riverbanks formed by glacial meltwater. As a dioecious species, it demonstrates significant ecological and economic value in extreme alpine environments. However, the lack of sex identification techniques outside of the flowering period severely limits research on sex ratio, differentiation, and breeding. There is an urgent need to develop effective sex-linked molecular markers that are independent of developmental stages, but current research in this area remains limited. This study developed a set of accurate sex-linked molecular markers for the rapid identification of male and female individuals of H. tibetana. Through whole-genome resequencing of 32 sexually differentiated H. tibetana samples, this study offers strong evidence supporting chromosome 2 as the sex chromosome and successfully identified key loci related to sex determination on this chromosome. Utilizing these loci, we, for the first time, developed three reliable pairs of sex-specific molecular markers, which exhibited high accuracy during validation across various geographic populations, offering an effective tool for the sex identification of H. tibetana. Additionally, this study lays the groundwork for further research into the mechanisms of sex determination and the evolution of sex chromosomes in H. tibetana.
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Affiliation(s)
- Zhefei Zeng
- Key Laboratory of Biodiversity and Environment on the Qinghai-Tibetan Plateau, Ministry of Education, School of Ecology and Environment, Tibet University, Lhasa, 850000, China
- Yani Observation and Research Station for Wetland Ecosystem of the Tibet (Xizang) Autonomous Region, Tibet University, Lhasa, 850000, China
| | - Ruoqiu Wang
- Tech X Academy, Shenzhen Polytechnic University, Shenzhen, 518055, China
| | - Junwei Wang
- Key Laboratory of Biodiversity and Environment on the Qinghai-Tibetan Plateau, Ministry of Education, School of Ecology and Environment, Tibet University, Lhasa, 850000, China
- Yani Observation and Research Station for Wetland Ecosystem of the Tibet (Xizang) Autonomous Region, Tibet University, Lhasa, 850000, China
| | - Yonghao Chen
- Key Laboratory of Biodiversity and Environment on the Qinghai-Tibetan Plateau, Ministry of Education, School of Ecology and Environment, Tibet University, Lhasa, 850000, China
- Yani Observation and Research Station for Wetland Ecosystem of the Tibet (Xizang) Autonomous Region, Tibet University, Lhasa, 850000, China
| | - Yuguo Wang
- Tibet University-Fudan University Joint Laboratory for Biodiversity and Global Change, School of Life Sciences, Fudan University, Shanghai, 200438, China
| | - Zhiping Song
- Tibet University-Fudan University Joint Laboratory for Biodiversity and Global Change, School of Life Sciences, Fudan University, Shanghai, 200438, China
| | - Wenju Zhang
- Tibet University-Fudan University Joint Laboratory for Biodiversity and Global Change, School of Life Sciences, Fudan University, Shanghai, 200438, China.
| | - La Qiong
- Key Laboratory of Biodiversity and Environment on the Qinghai-Tibetan Plateau, Ministry of Education, School of Ecology and Environment, Tibet University, Lhasa, 850000, China.
- Yani Observation and Research Station for Wetland Ecosystem of the Tibet (Xizang) Autonomous Region, Tibet University, Lhasa, 850000, China.
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Bilonozhko YO, Rabokon AM, Postovoitova AS, Kalafat LO, Pryvalikhin SM, Demkovych AY, Blume YB, Pirko YV. Intraspecific Differentiation in White Mistletoe (Viscum album L.) Using the Analysis of Intron Length Polymorphism of β-Tubulin Genes and the SSR Analysis. CYTOL GENET+ 2021. [DOI: 10.3103/s0095452721010035] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Molecular Sex Identification in the Hardy Rubber Tree ( Eucommia ulmoides Oliver) via ddRAD Markers. Int J Genomics 2020; 2020:2420976. [PMID: 32509842 PMCID: PMC7246395 DOI: 10.1155/2020/2420976] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2020] [Accepted: 04/03/2020] [Indexed: 11/18/2022] Open
Abstract
Eucommia ulmoides, also known as the industrially and medicinally important hardy rubber tree, is the sole species of Eucommiaceae. Nevertheless, its dioecious property hinders sex recognition by traditional morphological observation at very early developmental stages, thus inhibiting breeding and economic cropping. In this study, double-digest restriction site-associated DNA sequencing (ddRAD-seq) was applied to screen sex-linked molecular markers for sex identification and investigation of the sex determination system in 20 male and female E. ulmoides individual plants, respectively. In consequence, five candidate male-specific loci but no female-specific loci were predicated among the 183,752 male and 147,122 female catalogue loci by bioinformatics analysis. Subsequent PCR (polymerase chain reaction) amplification and Sanger sequencing examinations were performed on another 24 individuals, 12 for each sex, from a separate population. One ideal sex-linked locus, MSL4, was identified among the five putative male-specific loci that were found using ddRAD data. MSL4 is 479 bp in length and highly conserved in all the male individuals, suggesting its feature of being stable and repeatable. Our results also indicated that the sex of E. ulmoides is likely determined genetically. In short, this study provides a consistent and reproducible ddRAD marker (MSL4) that is able to discriminate male from female seedlings in E. ulmoides, which will be valuable for rapid breeding practice and better commercial production of this economically important tree.
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