Using Evolutionary Information and Ancestral Sequences to Understand the Sequence–Function Relationship in GLP-1 Agonists

Skovgaard, Marie; Kodra, János T.; Gram, Dorte X.; Knudsen, Sanne Møller; Madsen, Dennis; Liberles, David A.

doi:10.1016/j.jmb.2006.08.066

Cited by 24 publications

(19 citation statements)

References 71 publications

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“…This grouping driven by function has been reported for different gene families, such as GLP-1 [51] and opsin proteins [55]. An interesting study based on simulations is also reported in [40].…”

Section: Resultssupporting

confidence: 67%

Error Detection and Correction of Gene Trees

Lafond

Swenson

El-Mabrouk

2013

Models and Algorithms for Genome Evolution

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Reconstructing the phylogeny of a gene family and reconciling the obtained gene tree with the species tree reveals the history of duplications, losses and other events that have shaped the gene family, with important implications towards the functional specificity of genes. However, evolutionary histories inferred by reconciliation are strongly dependent upon the accuracy of the trees, and few misplaced leaves will lead to a completely different history. Furthermore, sequence data alone often lack the information to confidently support a gene tree topology. We outline a number of criteria that can be used to detect erroneous gene trees. Analysing Ensembl gene trees of the fish genomes Stickleback, Medaka, Tetraodon, and Zebrafish reveals a significant number of erroneous gene trees. Finally, some potential directions for error correction of gene trees are explored.

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Section: Resultssupporting

confidence: 67%

Error Detection and Correction of Gene Trees

Lafond

Swenson

El-Mabrouk

2013

Models and Algorithms for Genome Evolution

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“…While it may be argued that lattice models are smaller than most domains and this restricts the number of possible solutions to a given functional problem relative to real proteins, similar restrictions have been observed in the natural evolution of real proteins (Weinreich et al, 2006). Similar anecdotal observations of phylogenetic placement potentially driven by function have also been reported for GLP-1 (Skovgaard et al, 2006) and opsin proteins (Taylor et al, 2005). Lastly, it should be noted that the observed evolutionarily accessible solutions in the lattice are not the only theoretically possible solutions to the selection criteria.…”

Section: Resultsmentioning

confidence: 59%

Characterizing positive and negative selection and their phylogenetic effects

Massey

Churbanov

Rastogi

et al. 2008

Gene

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“…In contrast to mammals, where GLP-1 acts through the pancreatic islets to increase insulin release, causing a decrease in blood glucose, in fish, GLP-1, which is released from both intestinal and pancreatic cells, acts directly on the liver causing the release of glucose into the blood like glucagon 4,9,10…”

Section: Introductionmentioning

confidence: 99%

“…The function of GLP-2 is known in mammals, where it acts as an intestinal growth factor. In fish, the biological function of GLP-2 is unknown, but it dose not act like glucagon or GLP-1 4,9,10…”

Section: Introductionmentioning

confidence: 99%

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Species-Specific Actions of Incretin: From the Evolutionary Perspective

2010

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Two modes of incretin-based therapy, incretin mimetics (ie, glucagon-like peptide-1 (GLP-1) agonists) and incretin enhancers (ie, inhibitors of dipeptidyl peptidase IV (DPP-IV)), have recently been introduced into the clinical use. From the viewpoint of evolutionary endocrinology of GLP-1 and their receptors, the incretin action of GLP-1 seems to be relatively recent. Exendin-3 and exendin-4 are paralogs of GLP-1 from the lizards, and the synthetic exendin-4, exenatide, is a paralog of GLP-1. It has recently been indicated that GLP-1 and its receptor are expressed in the taste buds of the tongue, suggesting their possible function in the taste sensing signal pathway. In order to elucidate unknown functions of GLP-1 and its agonists and enhancers, ie, other than incretin actions in humans, it is possibly useful to consider GLP-1 from the viewpoint of integrated systems biology and evolutionary endocrinology.

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Using Evolutionary Information and Ancestral Sequences to Understand the Sequence–Function Relationship in GLP-1 Agonists

Cited by 24 publications

References 71 publications

Error Detection and Correction of Gene Trees

Error Detection and Correction of Gene Trees

Characterizing positive and negative selection and their phylogenetic effects

Species-Specific Actions of Incretin: From the Evolutionary Perspective

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