title: De Novo assembly and annotation of the freshwater crayfish Astacus astacus transcriptome.
abstract: We generated RNA-seq data to assemble the transcriptome of the noble crayfish (Astacus astacus) from four combined tissues (abdominal muscle, hepatopancreas, ovaries, green glands). A total of 194 million read pairs with a length of 100 bp were generated. The transcriptome was assembled de novo using Trinity software, producing 158,649 non-redundant transcripts. Lowly expressed transcripts were filtered out leaving 45,415 transcripts of which 14,559 were found to contain open reading frames with predicted gene function. The Transrate software revealed that 91% of the total reads were realigned to the assembly. Furthermore, BUSCO analysis indicated that our assembly is 64% complete. A total of 13,770 transcripts were assigned at least one GO term. This first de novo transcriptome assembly is an important foundation for future genomic research on the noble crayfish and adds to the general knowledge and further characterization of transcriptomes of non-model organisms.
authors.affiliation: University of Koblenz-Landau, Institute for Environmental Sciences, Fortstrasse 7, 76829 Landau, Germany. Electronic address: theissinger@uni-landau.de.
authors.forename: Kathrin
authors.initials: K
authors.lastname: Theissinger
authors.affiliation: Division of Epigenetics, DKFZ-ZMBH Alliance, German Cancer Research Center, Im Neuenheimer Feld 580, 69120 Heidelberg, Germany.
authors.forename: Cassandra
authors.initials: C
authors.lastname: Falckenhayn
authors.affiliation: The University of Eastern Finland, Department of Environmental and Biological Sciences, P.O. Box 1627, 70211 Kuopio, Finland.
authors.forename: Daniel
authors.initials: D
authors.lastname: Blande
authors.affiliation: The University of Eastern Finland, Department of Environmental and Biological Sciences, P.O. Box 1627, 70211 Kuopio, Finland.
authors.forename: Anna
authors.initials: A
authors.lastname: Toljamo
authors.affiliation: Division of Epigenetics, DKFZ-ZMBH Alliance, German Cancer Research Center, Im Neuenheimer Feld 580, 69120 Heidelberg, Germany.
authors.forename: Julian
authors.initials: J
authors.lastname: Gutekunst
authors.affiliation: The University of Eastern Finland, Department of Environmental and Biological Sciences, P.O. Box 1627, 70211 Kuopio, Finland.
authors.forename: Jenny
authors.initials: J
authors.lastname: Makkonen
authors.affiliation: The University of Eastern Finland, Department of Environmental and Biological Sciences, P.O. Box 1627, 70211 Kuopio, Finland.
authors.forename: Japo
authors.initials: J
authors.lastname: Jussila
authors.affiliation: Division of Epigenetics, DKFZ-ZMBH Alliance, German Cancer Research Center, Im Neuenheimer Feld 580, 69120 Heidelberg, Germany.
authors.forename: Frank
authors.initials: F
authors.lastname: Lyko
authors.affiliation: University of Koblenz-Landau, Institute for Environmental Sciences, Fortstrasse 7, 76829 Landau, Germany.
authors.forename: Anne
authors.initials: A
authors.lastname: Schrimpf
authors.affiliation: University of Koblenz-Landau, Institute for Environmental Sciences, Fortstrasse 7, 76829 Landau, Germany.
authors.forename: Ralf
authors.initials: R
authors.lastname: Schulz
authors.affiliation: The University of Eastern Finland, Department of Environmental and Biological Sciences, P.O. Box 1627, 70211 Kuopio, Finland.
authors.forename: Harri
authors.initials: H
authors.lastname: Kokko
mesh_terms: D000818:Animals; D003400:Astacoidea / Q000235:genetics*; D005260:Female; D005618:Fresh Water; D017423:Sequence Analysis, RNA; D059467:Transcriptome
keywords: Aphanomyces astaci; BUSCO; Genomics; RNA-seq data; Transrate; Trinity