ZhouYanZhangEtAl2021

Reference

Zhou, S.-S., Yan, X.-M., Zhang, K.-F., Liu, H., Xu, J., Nie, S., Jia, K.-H., Jiao, S.-Q., Zhao, W., Zhao, Y.-J., Porth, I., El Kassaby, Y.A., Wang, T., Mao, J.-F. (2021) A comprehensive annotation dataset of intact LTR retrotransposons of 300 plant genomes. Scientific Data, 8(1). (Scopus )

Abstract

LTR retrotransposons (LTR-RTs) are ubiquitous and represent the dominant repeat element in plant genomes, playing important roles in functional variation, genome plasticity and evolution. With the advent of new sequencing technologies, a growing number of whole-genome sequences have been made publicly available, making it possible to carry out systematic analyses of LTR-RTs. However, a comprehensive and unified annotation of LTR-RTs in plant groups is still lacking. Here, we constructed a plant intact LTR-RTs dataset, which is designed to classify and annotate intact LTR-RTs with a standardized procedure. The dataset currently comprises a total of 2,593,685 intact LTR-RTs from genomes of 300 plant species representing 93 families of 46 orders. The dataset is accompanied by sequence, diverse structural and functional annotation, age determination and classification information associated with the LTR-RTs. This dataset will contribute valuable resources for investigating the evolutionary dynamics and functional implications of LTR-RTs in plant genomes. © 2021, The Author(s).

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@ARTICLE { ZhouYanZhangEtAl2021,
    AUTHOR = { Zhou, S.-S. and Yan, X.-M. and Zhang, K.-F. and Liu, H. and Xu, J. and Nie, S. and Jia, K.-H. and Jiao, S.-Q. and Zhao, W. and Zhao, Y.-J. and Porth, I. and El Kassaby, Y.A. and Wang, T. and Mao, J.-F. },
    JOURNAL = { Scientific Data },
    TITLE = { A comprehensive annotation dataset of intact LTR retrotransposons of 300 plant genomes },
    YEAR = { 2021 },
    NOTE = { cited By 0 },
    NUMBER = { 1 },
    VOLUME = { 8 },
    ABSTRACT = { LTR retrotransposons (LTR-RTs) are ubiquitous and represent the dominant repeat element in plant genomes, playing important roles in functional variation, genome plasticity and evolution. With the advent of new sequencing technologies, a growing number of whole-genome sequences have been made publicly available, making it possible to carry out systematic analyses of LTR-RTs. However, a comprehensive and unified annotation of LTR-RTs in plant groups is still lacking. Here, we constructed a plant intact LTR-RTs dataset, which is designed to classify and annotate intact LTR-RTs with a standardized procedure. The dataset currently comprises a total of 2,593,685 intact LTR-RTs from genomes of 300 plant species representing 93 families of 46 orders. The dataset is accompanied by sequence, diverse structural and functional annotation, age determination and classification information associated with the LTR-RTs. This dataset will contribute valuable resources for investigating the evolutionary dynamics and functional implications of LTR-RTs in plant genomes. © 2021, The Author(s). },
    AFFILIATION = { Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, National Engineering Laboratory for Tree Breeding, 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, 100083, China; College of Big data and Intelligent Engineering, Southwest Forestry University, Yunnan, 650224, China; Départment des Sciences du Bois et de la Forêt, Faculté de Foresterie, de Géographie et Géomatique, Université Laval Québec, Québec, QC G1V 0A6, Canada; Department of Forest and Conservation Sciences, Faculty of Forestry, The University of British Columbia, 2424 Main Mall, Vancouver, BC V6T 1Z4, Canada },
    ART_NUMBER = { 174 },
    DOCUMENT_TYPE = { Data Paper },
    DOI = { 10.1038/s41597-021-00968-x },
    SOURCE = { Scopus },
    URL = { https://www.scopus.com/inward/record.uri?eid=2-s2.0-85110721369&doi=10.1038%2fs41597-021-00968-x&partnerID=40&md5=6955aac8cbe02710a400e1b4cb3ca301 },
}

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