Genome and transcriptome of the regeneration-competent flatworm,; Macrostomum lignano

Wasik, Kaja A. and Gurtowski, James and Zhou, Xin and Mendivil Ramos, Olivia and Delás, M. Joaquina and Battistoni, Giorgia and El Demerdash, Osama and Falciatori, Ilaria and Vizoso, Dita B. and Smith, Andrew D. and Ladurner, Peter and Schärer, Lukas and McCombie, W. Richard and Hannon, Gregory J. and Schatz, Michael C.. (2015) Genome and transcriptome of the regeneration-competent flatworm,; Macrostomum lignano. Proceedings of the National Academy of Sciences of the United States of America, 112 (40). pp. 12462-12467.

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Official URL: http://edoc.unibas.ch/41887/

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The free-living flatworm, Macrostomum lignano has an impressive regenerative capacity. Following injury, it can regenerate almost an entirely new organism because of the presence of an abundant somatic stem cell population, the neoblasts. This set of unique properties makes many flatworms attractive organisms for studying the evolution of pathways involved in tissue self-renewal, cell-fate specification, and regeneration. The use of these organisms as models, however, is hampered by the lack of a well-assembled and annotated genome sequences, fundamental to modern genetic and molecular studies. Here we report the genomic sequence of M. lignano and an accompanying characterization of its transcriptome. The genome structure of M. lignano is remarkably complex, with ∼75% of its sequence being comprised of simple repeats and transposon sequences. This has made high-quality assembly from Illumina reads alone impossible (N50 = 222 bp). We therefore generated 130× coverage by long sequencing reads from the Pacific Biosciences platform to create a substantially improved assembly with an N50 of 64 Kbp. We complemented the reference genome with an assembled and annotated transcriptome, and used both of these datasets in combination to probe gene-expression patterns during regeneration, examining pathways important to stem cell function.
Faculties and Departments:05 Faculty of Science > Departement Umweltwissenschaften > Integrative Biologie > Evolutionary Biology (Schärer)
UniBasel Contributors:Schärer, Lukas
Item Type:Article, refereed
Article Subtype:Research Article
Publisher:National Academy of Sciences
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:15 Sep 2016 06:43
Deposited On:15 Sep 2016 06:43

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