The Identification and Evolutionary Trends of the Solute Carrier Superfamily in Arthropods.

Genome Biology and Evolution
Shane M DeneckeJohn Vontas

Abstract

The solute carrier (SLC) transporter superfamily comprises an ancient and ubiquitous group of proteins capable of translocating a range of nutrients, endogenous molecules, and xenobiotics. Although the group has been the subject of intense investigation in both bacteria and mammals, its systematic identification in arthropods has not yet been undertaken. Here, we present a genome-wide identification of all 66 human SLC families in 174 arthropod species. A pipeline (SLC_id) was constructed to identify and group SLCs using a combination of hidden Markov model and BLAST searches followed by filtering based on polypeptide length and the number of transmembrane domains. Comparative analysis of the number of transporters in each family across diverse arthropod lineages was accomplished using one-way analysis of variance (ANOVA) and the Computational Analysis of gene Family Evolution (CAFE). These results suggested that many SLC families have undergone expansions or contractions in particular evolutionary lineages. Notably, the sugar transporting SLC2 family was significantly larger in insects compared with arachnids. This difference may have been complemented by a rapid expansion of the SLC60 family in arachnids which also acts on di...Continue Reading

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Datasets Mentioned

BETA
PRJNA557118

Methods Mentioned

BETA
acetylation

Software Mentioned

Python
Computational Analysis of gene Family Evolution ( CAFE )
CAFE
R package
BLAST
Fasta
i5K
TransporterDB
BlastP
R

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