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Comparative analysis of tissue-specific transcriptomes in the funnel-web spider Macrothele calpeiana (Araneae, Hexathelidae).

Frías-López C, Almeida FC, Guirao-Rico S, Vizueta J, Sánchez-Gracia A, Arnedo MA, Rozas J - PeerJ (2015)

Bottom Line: We have characterized the set of transcripts specifically expressed in putative chemosensory tissues of this species, much of them showing features shared by chemosensory system genes.Moreover, we have demonstrated the utility of these newly generated data as molecular markers by inferring the phylogenetic position M. calpeina in the phylogenetic tree of Mygalomorphs.Our results provide novel resources for researchers interested in spider molecular biology and systematics, which can help to expand our knowledge on the evolutionary processes underlying fundamental biological questions, as species invasion or biodiversity origin and maintenance.

View Article: PubMed Central - HTML - PubMed

Affiliation: Departament de Genètica and Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona , Barcelona , Spain ; Departament de Biologia Animal and Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona , Barcelona , Spain.

ABSTRACT
The funnel-web spider Macrothele calpeiana is a charismatic Mygalomorph with a great interest in basic, applied and translational research. Nevertheless, current scarcity of genomic and transcriptomic data of this species clearly limits the research in this non-model organism. To overcome this limitation, we launched the first tissue-specific enriched RNA-seq analysis in this species using a subtractive hybridization approach, with two main objectives, to characterize the specific transcriptome of the putative chemosensory appendages (palps and first pair of legs), and to provide a new set of DNA markers for further phylogenetic studies. We have characterized the set of transcripts specifically expressed in putative chemosensory tissues of this species, much of them showing features shared by chemosensory system genes. Among specific candidates, we have identified some members of the iGluR and NPC2 families. Moreover, we have demonstrated the utility of these newly generated data as molecular markers by inferring the phylogenetic position M. calpeina in the phylogenetic tree of Mygalomorphs. Our results provide novel resources for researchers interested in spider molecular biology and systematics, which can help to expand our knowledge on the evolutionary processes underlying fundamental biological questions, as species invasion or biodiversity origin and maintenance.

No MeSH data available.


Related in: MedlinePlus

Differential distribution of GO terms across tissues.Differential distribution of the GO terms of the transcripts from leg and palp (Venn sections I, II and IV; in blue) and ovary (sections III, V, VI and VII; in red). Analysis conducted excluding HK and CEG encoding genes (1,523 transcripts over 5,390).
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fig-4: Differential distribution of GO terms across tissues.Differential distribution of the GO terms of the transcripts from leg and palp (Venn sections I, II and IV; in blue) and ovary (sections III, V, VI and VII; in red). Analysis conducted excluding HK and CEG encoding genes (1,523 transcripts over 5,390).

Mentions: The overrepresentation analysis of the GO terms across the different Venn diagram sections (Table S3; see also Fig. 3E) detected 26 significant overrepresented GO terms in legs-palps (sections I, II and IV) or ovary transcripts (sections III, V, VI and VII) after the FDR (Fig. 4; Table S6A and Fig. S4). For instance, the GO terms “cation binding,” “metal ion binding,” and “oxidation–reduction process” are clearly overrepresented in legs-palps specific transcripts (P-value < 6.9 × 10−8). These significant differences are also found in comparisons involving only section III (i.e., considering only ovary-specific transcripts instead of all ovary-transcripts), or only section IV (considering only specific transcripts shared between leg and palp) (results not shown). Indeed, the major over- or underrepresentation effect appears in individual sections III and IV (Table S6).


Comparative analysis of tissue-specific transcriptomes in the funnel-web spider Macrothele calpeiana (Araneae, Hexathelidae).

Frías-López C, Almeida FC, Guirao-Rico S, Vizueta J, Sánchez-Gracia A, Arnedo MA, Rozas J - PeerJ (2015)

Differential distribution of GO terms across tissues.Differential distribution of the GO terms of the transcripts from leg and palp (Venn sections I, II and IV; in blue) and ovary (sections III, V, VI and VII; in red). Analysis conducted excluding HK and CEG encoding genes (1,523 transcripts over 5,390).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4493671&req=5

fig-4: Differential distribution of GO terms across tissues.Differential distribution of the GO terms of the transcripts from leg and palp (Venn sections I, II and IV; in blue) and ovary (sections III, V, VI and VII; in red). Analysis conducted excluding HK and CEG encoding genes (1,523 transcripts over 5,390).
Mentions: The overrepresentation analysis of the GO terms across the different Venn diagram sections (Table S3; see also Fig. 3E) detected 26 significant overrepresented GO terms in legs-palps (sections I, II and IV) or ovary transcripts (sections III, V, VI and VII) after the FDR (Fig. 4; Table S6A and Fig. S4). For instance, the GO terms “cation binding,” “metal ion binding,” and “oxidation–reduction process” are clearly overrepresented in legs-palps specific transcripts (P-value < 6.9 × 10−8). These significant differences are also found in comparisons involving only section III (i.e., considering only ovary-specific transcripts instead of all ovary-transcripts), or only section IV (considering only specific transcripts shared between leg and palp) (results not shown). Indeed, the major over- or underrepresentation effect appears in individual sections III and IV (Table S6).

Bottom Line: We have characterized the set of transcripts specifically expressed in putative chemosensory tissues of this species, much of them showing features shared by chemosensory system genes.Moreover, we have demonstrated the utility of these newly generated data as molecular markers by inferring the phylogenetic position M. calpeina in the phylogenetic tree of Mygalomorphs.Our results provide novel resources for researchers interested in spider molecular biology and systematics, which can help to expand our knowledge on the evolutionary processes underlying fundamental biological questions, as species invasion or biodiversity origin and maintenance.

View Article: PubMed Central - HTML - PubMed

Affiliation: Departament de Genètica and Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona , Barcelona , Spain ; Departament de Biologia Animal and Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona , Barcelona , Spain.

ABSTRACT
The funnel-web spider Macrothele calpeiana is a charismatic Mygalomorph with a great interest in basic, applied and translational research. Nevertheless, current scarcity of genomic and transcriptomic data of this species clearly limits the research in this non-model organism. To overcome this limitation, we launched the first tissue-specific enriched RNA-seq analysis in this species using a subtractive hybridization approach, with two main objectives, to characterize the specific transcriptome of the putative chemosensory appendages (palps and first pair of legs), and to provide a new set of DNA markers for further phylogenetic studies. We have characterized the set of transcripts specifically expressed in putative chemosensory tissues of this species, much of them showing features shared by chemosensory system genes. Among specific candidates, we have identified some members of the iGluR and NPC2 families. Moreover, we have demonstrated the utility of these newly generated data as molecular markers by inferring the phylogenetic position M. calpeina in the phylogenetic tree of Mygalomorphs. Our results provide novel resources for researchers interested in spider molecular biology and systematics, which can help to expand our knowledge on the evolutionary processes underlying fundamental biological questions, as species invasion or biodiversity origin and maintenance.

No MeSH data available.


Related in: MedlinePlus