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Comparative Genomics

HG Han Ming Gan
MT Mun Hua Tan
CA Christopher M. Austin
CS Craig D. H. Sherman
YW Yen Ting Wong
JS Jan Strugnell
MG Mark Gervis
LM Luke McPherson
AM Adam D. Miller
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The genome sequences and predicted proteins of red abalone (Haliotis rufescens), Pacific abalone (H. discus hannai), and owl limpet (Lottia gigantea) were obtained from their respective data repository for comparison with the newly sequenced blacklip abalone. Each genome assembly was assessed for completeness with BUSCOv3 based on the metazoa odb9 lineage dataset (Waterhouse et al., 2017). Then, orthologous groups of proteins were identified between H. rufescens, H. discus hannai, H. rubra, and L. gigantea using an all-vs-all DIAMOND blastp search and Markov Cluster (MCL) clustering approach as implemented in OrthoFinder v2.2.7 (default setting). The computation and visualization of ortholog intersections across the four marine gastropods used UpSetR (Conway et al., 2017).

Copyright and License information:  ©2019 Gan, Tan, Austin, Sherman, Wong, Strugnell, Gervis, McPherson and Miller
This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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