Data from: The transcriptome response of Heliconius melpomene larvae to a novel host plant

Yu Q, Fang S, Zhang Z, Jiggins CD

Date Published: August 29, 2016

DOI: http://dx.doi.org/10.5061/dryad.65k4n

 

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Title Fig. S1 Gene ontology classification of the postman butterfly genes expressed in the gut.
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Description GEG: gene expressed in the gut. GHG: gene highly expressed in the gut.
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Title Fig. S2 Scatterplot of enriched pathways for DEGs in larval gut after host plant shift.
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Description The size and color of the dots represent the gene number and the range of the FDR value, respectively. Rich factor is the ratio of the differentially expressed gene number to the total gene number in a certain pathway. Four pathway databases were used in our analysis, including Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway, Reactome, BioCyc and Protein Analysis Through Evolutionary Relationships (PANTHER).
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Title Fig. S3 NJ tree and intron positions of HmelGST genes.
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Description Phase 0, 1, and 2 introns are shown by black, blue, and red solid lines, respectively.
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Title Fig. S4 Distributions of H. melpomene GST and UGT genes on chromosmes.
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Description Scaffold arrangement is based on the published linkage map (Heliconius Genome Consortium 2012).
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Title Fig. S5 Duplication mechanisms and conserved motif of UGT33 family in H. melpomene.
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Description MCScanX (max gaps = 50) was used to identify the segmental and tandem duplications of detoxification genes in H. melpomene. This annotated tree was predicted by the collinear and tandem relationships of the output from ‘family tree plotter of MCScanX’. The characters T and S on the nodes mean tandem and segmental duplications, respectively. All the UGT33 family members in Fig. 4 were used to create sequence logo of signature region (http://weblogo.berkeley.edu/logo.cgi).
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Title Fig. S6 Gene gain and loss of GSTs superfamily in Heliconius butterflies.
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Description The species tree was derived from a phylogeny based on independent nuclear and mitochondrial DNA sequences (Beltran et al. 2007). Each class of GSTs from 10 Heliconius species were reconstructed the NJ phylogenectic tree. Gene gain and loss was estimated with the method of Nam & Nei (2005).
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Title Table S1 Primer sequences used for quantitative PCR validation.
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Title Table S2 Annotation and sequences of GST and UGT multigene families in H. melpomene and Danaus plexippus genome.
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Title Table S3 Sequences of detoxifying genes were used for PAML analysis.
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Title Table S4 Summary of reads and assembly of the gut transcriptomes in H. melpomene.
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Description “host” and “non” represent the samples from individuals reared with host and non host plant, respectively. The number after the sample name means replicates.
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Title Table S5 Annotations and expression signals of 326 DEGs in larval gut after host plant shift.
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Description The protein sequences of all the genes were used as queries to Blastp search against nr database in NCBI (http://www.ncbi.nlm.nih.gov/). Transporter Classification DataBase (TCDB) was searched for the best hits of transporter genes (Saier et al. 2009). Peritrophin and genes related to nutrient digestion were classified by search against PFAM database (http://pfam.xfam.org/).
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Title Table S6 GO enrichment ananlysis of the differentially expressed genes.
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Title Table S7 Orthologous divergence of detoxification genes among Heliconius butterflies.
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Title Table S8 Differentially expressed genes detected by DESeq2 package
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When using this data, please cite the original publication:

Yu Q, Fang S, Zhang Z, Jiggins CD (2016) The transcriptome response of Heliconius melpomene larvae to a novel host plant. Molecular Ecology 25(19): 4850–4865. http://dx.doi.org/10.1111/mec.13826

Additionally, please cite the Dryad data package:

Yu Q, Fang S, Zhang Z, Jiggins CD (2016) Data from: The transcriptome response of Heliconius melpomene larvae to a novel host plant. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.65k4n
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