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Transposable elements in plants: Recent advancements, tools and prospects

  • Published:2022-05-12 Issue:4 Volume:40 Page:628-645
  • ISSN:0735-9640
  • Container-title:Plant Molecular Biology Reporter
  • language:en
  • Short-container-title:Plant Mol Biol Rep

Author:

Ramakrishnan Muthusamy,Satish Lakkakula,Sharma Anket,Kurungara Vinod Kunnummal,Emamverdian Abolghassem,Zhou Mingbing,Wei Qiang

Funder

National Natural Science Foundation of China

Natural Science Foundation of Zhejiang Province

Nanjing Forestry University

National Key Point Research and Invention Program of the 13th Five-Year

Publisher

Springer Science and Business Media LLC

Subject

Plant Science,Molecular Biology

Reference140 articles.

1. Abrusán G, Grundmann N, DeMester L, Makalowski W (2009) TEclass–a tool for automated classification of unknown eukaryotic transposable elements. Bioinformatics 25(10):1329–1330. https://doi.org/10.1093/bioinformatics/btp084

2. Almeida MV, Vernaz G, Putman ALK, Miska EA (2022) Taming transposable elements in vertebrates: from epigenetic silencing to domestication. Trends Genet. https://doi.org/10.1016/j.tig.2022.02.009

3. Andersson R, Gebhard C, Miguel-Escalada I, Hoof I, Bornholdt J, Boyd M, Chen Y, Zhao X, Schmidl C, Suzuki T, Ntini E, Arner E, Valen E, Li K, Schwarzfischer L, Glatz D, Raithel J, Lilje B, Rapin N, Bagger FO, Jørgensen M, Andersen PR, Bertin N, Rackham O, Burroughs AM, Baillie JK, Ishizu Y, Shimizu Y, Furuhata E, Maeda S, Negishi Y, Mungall CJ, Meehan TF, Lassmann T, Itoh M, Kawaji H, Kondo N, Kawai J, Lennartsson A, Daub CO, Heutink P, Hume DA, Jensen TH, Suzuki H, Hayashizaki Y, Müller F, Forrest ARR, Carninci P, Rehli M, Sandelin A (2014) An atlas of active enhancers across human cell types and tissues. Nature 507(7493):455–461. https://doi.org/10.1038/nature12787

4. Arango-López J, Orozco-Arias S, Salazar JA, Guyot R (2017) Application of data mining algorithms to classify biological data: The Coffea canephora Genome Case. In: Solano A, Ordoñez H (eds) Advances in Computing, Cham. Springer International Publishing, pp 156–170. https://doi.org/10.1007/978-3-319-66562-7_12

5. Auvinet J, Graça P, Belkadi L, Petit L, Bonnivard E, Dettaï A, Detrich WH 3rd, Ozouf-Costaz C, Higuet D (2018) Mobilization of retrotransposons as a cause of chromosomal diversification and rapid speciation: the case for the Antarctic teleost genus Trematomus. BMC Genomics 19(1):339–339. https://doi.org/10.1186/s12864-018-4714-x

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