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. 2021 Nov 22;12:766389. doi: 10.3389/fpls.2021.766389

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Copyright © 2021 Liu, Yan, Wang, Zhang, Zhou, Shi, Jia, Tian, Zhou, Zhang, Yun, Wang, Xiang, Mannapperuma, Van Zalen, Street, Porth, El-Kassaby, Zhao, Wang, Guan and Mao.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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The high enrichment of LINE1 and Gypsy elements and their independent accumulation in the centromere of Chromosome 1. (A) A heat map view of protein-coding genes, TE (Copia, Gypsy, LINE1, PIF-Harbinger, and hAT), simple repeat, pseudogene, and GC content density in 100-Kb non-overlap sliding windows along chromosome 1 “Chr01.” The black triangle represents the predicted location of centromere. (B) The zoom in on the centromeric region. (C,D) The phylogenetic network of LINE1 and Gypsy elements, respectively. Each node in the network represents a single element. The links were defined as blast + alignment “bitscore” values (red, element in centromeric regions; blue, element in non-centromeric regions).