Sea bass (Dicentrarchus labrax) invariant chain and class II major histocompatibility complex: Sequencing and structural analysis using 3D homology modelling

Silva, Daniela S.; Reis, Mário; Nascimento, Diana S.; Vale, Ana do; Pereira, Pedro José Barbosa; Santos, Nuno M.S. dos

doi:10.1016/j.molimm.2007.03.025

Cited by 14 publications

(10 citation statements)

References 91 publications

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“…Therefore, the allelic lineages of both MHC IIA and MHC IIB might have persisted through this event. Both MHC IIA and IIB genes show evidence for at least two loci which is similar to many euteleosts that also possess duplicated loci (Kruiswijk et al 2004;Reusch et al 2004;Silva et al 2007). Gene duplication is a common phenomenon of MHC genes which allows for increased individual MHC variation (Nei et al 1997;Klein et al 1998).…”

Section: Discussionmentioning

confidence: 79%

Characterization of MHC class II genes in the critically endangered European eel (Anguilla anguilla)

Bracamonte

Baltazar‐Soares

Eizaguirre

2015

Conservation Genet Resour

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Many exploited fish species are threatened with collapse and the European eel is no exception. Its abundance has declined dramatically and various reasons account for this, among them the introduction of the invasive swim bladder nematode Anguillicola crassus. For developing an adequate immune response against this parasite, variation at the genes of the major histocompatibility complex (MHC), a key component of the adaptive immune system, might be essential and assessing their diversity might provide critical information for improving conservation strategies. Here, we characterized the MHC class II of the European eel. We provide evidence for relatively high diversity at both MHC IIA and MHC IIB, which contrasts with findings for other endangered species. Furthermore, both genes show signs of site-specific positive selection. The absence of overall positive selection at MHC IIB might, however, suggests that demographic shifts have negatively impacted that gene, thereby possibly reducing the adaptive potential of the European eel.

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Section: Discussionmentioning

confidence: 79%

Characterization of MHC class II genes in the critically endangered European eel (Anguilla anguilla)

Bracamonte

Baltazar‐Soares

Eizaguirre

2015

Conservation Genet Resour

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“…CLIP has been shown in mammals to be crucial for class II folding, transport, and peptide groove occupancy (Romagnoli and Germain, 1994), yet has proven difficult to compare amongst vertebrates as evidenced by very different published alignments that include sequences from bony fish (Dijkstra et al, 2003; Fujiki et al, 2003; Silva et al, 2007). Indeed, assigning different gap penalties and inclusion or exclusion of different sequences can drastically change alignments of this region performed by programs such as Clustal and Muscle.…”

Section: Resultsmentioning

confidence: 99%

“…Indeed, assigning different gap penalties and inclusion or exclusion of different sequences can drastically change alignments of this region performed by programs such as Clustal and Muscle. Silva et al noted striking conservation of large and small CLIP side chains in a teleost Ii that bind in conserved pockets of human MHC (Ghosh et al, 1995), although this required inserting a three amino acid gap in the mammalian CLIP core region that occupies the MHC class II groove (Silva et al, 2007). When cartilaginous fish, amphibian and reptile sequences are included in the alignment such conservation patterns are not as evident.…”

Section: Resultsmentioning

confidence: 99%

“…Work in rainbow trout also found two Ii products (Dijkstra et al, 2003) that are encoded by two paralogous genes (Fujiki et al, 2003) as opposed to alternative splicing. Structure of sea bass Ii was modeled more recently with analysis of potential interactions with class II and cathepsins (Silva et al, 2007). Here, we report the first description of Ii from the cartilaginous fish, the oldest vertebrate group with MHC-based adaptive immunity.…”

Section: Introductionmentioning

confidence: 99%

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Shark class II invariant chain reveals ancient conserved relationships with cathepsins and MHC class II

Criscitiello

Ohta

Graham

et al. 2012

Developmental & Comparative Immunology

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The invariant chain (Ii) is the critical third chain required for the MHC class II heterodimer to be properly guided through the cell, loaded with peptide, and expressed on the surface of antigen presenting cells. Here, we report the isolation of the nurse shark Ii gene, and the comparative analysis of Ii splice variants, expression, genomic organization, predicted structure, and function throughout vertebrate evolution. Alternative splicing to yield Ii with and without the putative protease-protective, thyroglobulin-like domain is as ancient as the MHC-based adaptive immune system, as our analyses in shark and lizard further show conservation of this mechanism in all vertebrate classes except bony fish. Remarkable coordinate expression of Ii and class II was found in shark tissues. Conserved Ii residues and cathepsin L orthologs suggest their long co-evolution in the antigen presentation pathway, and genomic analyses suggest 450 million years of conserved Ii exon/intron structure. Other than an extended linker preceding the thyroglobulin-like domain in cartilaginous fish, the Ii gene and protein are predicted to have largely similar physiology from shark to man. Duplicated Ii genes found only in teleosts appear to have become sub-functionalized, as one form is predicted to play the same role as that mediated by Ii mRNA alternative splicing in all other vertebrate classes. No Ii homologs or potential ancestors of any of the functional Ii domains were found in the jawless fish or lower chordates.

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“…Ii is mainly expressed on the surface of specialized antigen-presenting cells (Bryant and Ploegh, 2004), as well as on tumor cells (Voutsas et al, 2007;Holmes et al, 2008). The Ii contains the following functional domains: i) a short amino-terminal cytoplasmic domain; ii) a single transmembrane (TM) domain; iii) a large carboxy-terminal luminal region, which has a class II-associated Ii-derived peptide (CLIP) domain, and a trimerization (TRIM) domain; iv) Ii may also have a thyroglobulin type I domain (Lipp and Dobberstein, 1986;Bremnes et al, 1994Bremnes et al, , 2000Silva et al, 2007;Xu et al, 2008).…”

Section: Introductionmentioning

confidence: 99%

Molecular characterization and tissue-specific expression of invariant chain in the muscovy duck (Cairina moschata)

Liu¹,

Chen²,

Dai³

et al. 2011

Genet. Mol. Res.

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ABSTRACT. The invariant chain (Ii) plays an important role as a chaperone for MHC II maturation and facilitates antigen presentation in vertebrates. We cloned, characterized and made a homology analysis of healthy adult muscovy duck Ii (MDIi), from a poultry farm in the suburban district of Hefei city in China, by rapid amplification of cDNA ends (RACE)-PCR and by measuring expression of the MDIi gene in various tissues by real-time quantitative PCR. A full-length cDNA sequence of MDIi was obtained, 1188-bp long, encoding a 222-amino acid protein. A comparison of the amino acid sequence of Ii between muscovy duck and other birds showed high similarity (66.3-95.3%). Characteristic functional domains found in Ii of other species, such as cytoplasmic domain, transmembrane domain, class ІІ-associated Ii-derived peptide (CLIP) and trimerization domain, were identified in MDIi. Although all functional domains of Ii were found to be highly conserved, small differences in the CLIP sequence occur among the various species. Expression of MDIi was detected in all tissues at different levels. A higher expression level was found in the spleen, intestinal mucosa and the bursa stipe (bursa of Fabricius stipe)

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Sea bass (Dicentrarchus labrax) invariant chain and class II major histocompatibility complex: Sequencing and structural analysis using 3D homology modelling

Cited by 14 publications

References 91 publications

Characterization of MHC class II genes in the critically endangered European eel (Anguilla anguilla)

Characterization of MHC class II genes in the critically endangered European eel (Anguilla anguilla)

Shark class II invariant chain reveals ancient conserved relationships with cathepsins and MHC class II

Molecular characterization and tissue-specific expression of invariant chain in the muscovy duck (Cairina moschata)

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