We don't have an easy way of serializing/deserializing a collection of sequences. This does not work:

http://mailman.open-bio.org/pipermail/biojava-l/2015-February/011357.html

Alternative workarounds could be:

• Tweak Kryo for some nonstandard InstantiatorStrategy
• Use BioJava's built in FASTA writer helper (but it might not serialize some header information)