Transposable Elements: Distribution, Polymorphism, and Climate Adaptation in Populus

Yiyang Zhao; Yiyang Zhao; Xian Li; Xian Li; Jianbo Xie; Jianbo Xie; Weijie Xu; Weijie Xu; Sisi Chen; Sisi Chen; Xiang Zhang; Xiang Zhang; Sijia Liu; Sijia Liu; Jiadong Wu; Jiadong Wu; Yousry A. El-Kassaby; Deqiang Zhang; Deqiang Zhang

doi:10.3389/fpls.2022.814718

Frontiers in Plant Science (Feb 2022)

Transposable Elements: Distribution, Polymorphism, and Climate Adaptation in Populus

Yiyang Zhao,
Yiyang Zhao,
Xian Li,
Xian Li,
Jianbo Xie,
Jianbo Xie,
Weijie Xu,
Weijie Xu,
Sisi Chen,
Sisi Chen,
Xiang Zhang,
Xiang Zhang,
Sijia Liu,
Sijia Liu,
Jiadong Wu,
Jiadong Wu,
Yousry A. El-Kassaby,
Deqiang Zhang,
Deqiang Zhang

Affiliations

Yiyang Zhao: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Yiyang Zhao: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Xian Li: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Xian Li: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Jianbo Xie: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Jianbo Xie: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Weijie Xu: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Weijie Xu: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Sisi Chen: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Sisi Chen: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Xiang Zhang: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Xiang Zhang: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Sijia Liu: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Sijia Liu: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Jiadong Wu: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Jiadong Wu: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Yousry A. El-Kassaby: Department of Forest and Conservation Sciences, Forest Sciences Centre, Faculty of Forestry, The University of British Columbia, Vancouver, BC, Canada
Deqiang Zhang: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
Deqiang Zhang: Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China

DOI: https://doi.org/10.3389/fpls.2022.814718
Journal volume & issue: Vol. 13

Abstract

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Transposable elements (TEs) are a class of mobile genetic elements that make effects on shaping rapid phenotypic traits of adaptive significance. TE insertions are usually related to transcription changes of nearby genes, and thus may be subjected to purifying selection. Based on the available genome resources of Populus, we found that the composition of Helitron DNA family were highly variable and could directly influence the transcription of nearby gene expression, which are involving in stress-responsive, programmed cell death, and apoptosis pathway. Next, we indicated TEs are highly enriched in Populus trichocarpa compared with three other congeneric poplar species, especially located at untranslated regions (3′UTRs and 5′UTRs) and Helitron transposons, particularly 24-nt siRNA-targeted, are significantly associated with reduced gene expression. Additionally, we scanned a representative resequenced Populus tomentosa population, and identified 9,680 polymorphic TEs loci. More importantly, we identified a Helitron transposon located at the 3′UTR, which could reduce WRKY18 expression level. Our results highlight the importance of TE insertion events, which could regulate gene expression and drive adaptive phenotypic variation in Populus.

Published in Frontiers in Plant Science

ISSN: 1664-462X (Online)
Publisher: Frontiers Media S.A.
Country of publisher: Switzerland
LCC subjects: Agriculture: Plant culture
Website: https://www.frontiersin.org/journals/plant-science

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