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In this study, we describe for the first time the identification of a fish class I peptide-MHC ligand binding motif.
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All fish sequences are from the Actinopterygii class with the exception of the clearnose skate (Q8AXA0) [19], which is a cartilaginous fish (class Chondrichthyes).
In the present study, we identified a new teleost fish class II group called DE.
This initial search, with a cut-off of 1e−50, identified a number of candidate receptors; false candidates were identified by a second TBLASTN search with 247 fish class A non-TAAR GPCR sequences (Additional file 2) and were excluded.
This dataset contains 247 fish class A non-TAAR GPCRs retrieved from NCBI.
With the addition of a newly identified group, teleost fish class II genes can be organized into three major groups, namely, DA, DB (named after a zebrafish DB sequence) and DE group, based on several sequence features including specific insertions and/or deletions.
Previous studies on teleost fish DA and DB group genes reported a lack of synteny between teleost fish class II genomic regions, suggesting the occurrence of multiple translocations and locus turnovers e.g. [ 25, 27].
Analyses between reserve effects and fish class or species were then conducted within a given patch reef grouping to identify which organisms were responding to both seascape heterogeneity and reserve protection.
Exploring the teleost fish class II peptide-loading system would constitute an important part for the comprehensive understanding of the MHC class II antigen-presentation systems in the jawed vertebrates.
We discovered a novel ancient class II group (DE) in teleost fish and classified teleost fish class II genes into three major groups (DA, DB and DE).
We determined the U. moluccensis in the low-fat fish class according to the Cakli (2007).
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