Venkatesh et al. reply

Byrappa Venkatesh (), Alison P. Lee, Jeremy B. Swann, Yuko Ohta, Martin F. Flajnik, Masanori Kasahara, Thomas Boehm and Wesley C. Warren ()
Additional contact information
Byrappa Venkatesh: Comparative Genomics Laboratory, Institute of Molecular and Cell Biology, A*STAR, Biopolis, Singapore 138673.
Alison P. Lee: Comparative Genomics Laboratory, Institute of Molecular and Cell Biology, A*STAR, Biopolis, Singapore 138673.
Jeremy B. Swann: Max-Planck-Institute of Immunobiology and Epigenetics, Stuebeweg 51, 79108 Freiburg, Germany
Yuko Ohta: University of Maryland
Martin F. Flajnik: University of Maryland
Masanori Kasahara: Hokkaido University Graduate School of Medicine, Sapporo 060-8638, Japan
Thomas Boehm: Max-Planck-Institute of Immunobiology and Epigenetics, Stuebeweg 51, 79108 Freiburg, Germany
Wesley C. Warren: The Genome Institute at Washington University

Nature, 2014, vol. 511, issue 7508, E9-E10

Abstract: Abstract Replying to J. M. Dijkstra Nature511,http://dx.doi.org/10.1038/nature13446(2014) In the accompanying Comment1, Dijkstra has identified gene models potentially encoding cytokines in regions of the Callorhinchus milii genome, whose syntenic counterparts in teleost and tetrapod genomes harbour interleukin genes. These genes were not predicted by our assembly and annotation pipeline2. TBLASTN searches of the genome assembly and RNA-sequencing (RNA-seq) transcriptomes from 10 tissues (including thymus and spleen) of the elephant shark, and RNA-seq transcriptomes from the thymus and spleen of nurse shark using human and teleost fish interleukins as query sequences, were also unable to pick up these genes; although we readily detected other cytokine genes in the same family (for example, interleukin-7 (IL-7) and IL-15). Below are our comments on the candidate genes identified by Dijkstra.

Date: 2014
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DOI: 10.1038/nature13447

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