Comparison of statistical methods of inference of cooccurrence networks within micro- bial ecosystems from metagenomics data
Résumé
Post translational modifications (PTM) enhance the functional diversity of proteins. Among these PTM,
glycosylation represents one of the most abundant and complex modification of proteins and N-glycosylation
is determinant for cell survival. For 96% of N-glycosylproteins, glycosylation occurs at the canonical motif
[N]-!P-[S/T] known as sequon [1]. In the laboratory, we study the evolutionary relationships and molecular
evolution of glycosyltransferases that are Golgi enzymes implicated in the last steps of glycosylation [2] like
B4GALNT2 implicated in the synthesis of blood group antigen Sda [3]. This enzyme is a glycoprotein and our
working hypothesis is that the gain or loss of an ancestrally conserved N-glycosylation site in this enzyme
might have resulted in the evolution of protein structure, subcellular localization and functional modifications
with impact on the phenotype [4-7]. As a first towards answering this question, we identified over 150
B4GALNT-related sequences (37 B4GALNT1 paralogues and 85 B4GALNT2 orthologues) from public
databases (NCBI, Ensembl, CAZy) using a BLAST approach. We carried out sequence-based analysis using
various multiple sequence alignment algorithms (MUSCLE, ClustalΩ, MAFFT, T-Coffee, ClustalW) to
delineate informative regions and define conserved sequence motifs. Furthermore, we used NetNGlyc 1.0
server [8] and GlycoMine [9] to predict potential N-glycosylation sites. We found differentially conserved
N-glycosylation sites in the homologous B4GALNT sequences: a canonical sequon, [N]-!P-[S/T], present in
11 mammalian B4GALNT2 sequences, which has disappeared in the human B4GALNT2 sequence [10]. This
N-glycosylation site is also present in some ancestral B4GALNT sequences and has disappeared in the
paralogous B4GALNT1 sequences suggesting no major role for this N-glycan. Interestingly, two atypical
N-glycosylation sites [N]-X-[C] and [N]-[G] were predicted in mammalian B4GALNT2 sequences. Despite
the fact that the [N]-[G] site is present in almost all the mammalian B4GALNT2 sequences, we found using
PNGase F, an enzyme that remove N-Glycans, that the human B4GALNT2 enzyme is not glycosylated at this
position, but at a second unusual [N]-X-[C] glycosylation site. This latter was found to be highly conserved in
nearly all B4GALNT sequences except the teleostean B4GALNT2 sequences further suggesting an important
functional role, which is currently investigated.
Domaines
Sciences du Vivant [q-bio]Origine | Fichiers éditeurs autorisés sur une archive ouverte |
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