Illumina HiSeq 1000 paired end sequencing; Evidence of Late Pleistocene origin of Astyanax mexicanus cavefish
Evidence of Late Pleistocene origin of Astyanax mexicanus cavefish
Hyphessobrycon anisitsi and Astyanax mexicanus Pachon cave and Texas surface morphs were used. Sample collection included embryos and larvae encompassing stages from 10hpf (hours post-fertilisation) to 17dpf (days post-fertilisation), as well as dissected brains and olfactory epithelia from adults. Samples were immersed in Trizol (Invitrogen) and freezed at -80°C. Total RNA was extracted from the samples according to the manufacturer's instructions for Trizol Reagent (Invitrogen)  mRNA were purified from total RNA (FastTrack mRNA isolation kit (Thermo Fischer)), fragmented (NEBNext Magnesium RNA fragmentation module, NEB) and treated with the TruSeq small RNA  library preparation Kit (Illumina) according to the manufacturer recommendations. Final libraries were purified with AMPureXP kit (Beckman Coulter) instead of gel purification to recover all fragments.  Library quality has been assessed on a bioanalyzer instrument (Agilent).
Experimental Factor: olfactory epithelium
organism part
Experimental Factor: Surface
sampling site