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Fig. 1 | EvoDevo

Fig. 1

From: Transcriptomic analysis of cave, surface, and hybrid samples of the isopod Asellus aquaticus and identification of chromosomal location of candidate genes for cave phenotype evolution

Fig. 1

Overview of approaches. A Illumina RNAseq with multiple assemblers (NCGAS transcriptome pipeline) was combined with Iso-seq sequence. Then, the sequences were run through Evidential gene’s tr2aacds pipeline to generate cave and surface transcriptomes. B Differential expression was performed of cave, C, versus surface embryos, S, at two different stages (mid-stage and late-stage). C Allele-specific expression was examined to highlight genes that could have cis-regulatory mutations. “A” is the cave allele of a transcript and “T” is the surface allele in the example. D Positional information was generated using RNAseq of F2 individuals and mapping of a backcross between cave and surface population. Pictured are all 15 F2 individuals sequenced. Row 1 from left to right: MP17, MP13, and MP12. Row 2: MP10, MP11, and MP9. Row 3: MP8, MP7, and MP6. Row 4: MP4, MP5, MP3. Row 5 MP1, MP2, and MP1223 (sample phenotypes are described in Additional file 1: Table S4). A subset of these individuals were previously phenotyped [16]

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EvoDevo

ISSN: 2041-9139