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Evolution of the duplicated intracellular lipid-binding protein genes of teleost fishes

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Abstract

Increasing organismal complexity during the evolution of life has been attributed to the duplication of genes and entire genomes. More recently, theoretical models have been proposed that postulate the fate of duplicated genes, among them the duplication-degeneration-complementation (DDC) model. In the DDC model, the common fate of a duplicated gene is lost from the genome owing to nonfunctionalization. Duplicated genes are retained in the genome either by subfunctionalization, where the functions of the ancestral gene are sub-divided between the sister duplicate genes, or by neofunctionalization, where one of the duplicate genes acquires a new function. Both processes occur either by loss or gain of regulatory elements in the promoters of duplicated genes. Here, we review the genomic organization, evolution, and transcriptional regulation of the multigene family of intracellular lipid-binding protein (iLBP) genes from teleost fishes. Teleost fishes possess many copies of iLBP genes owing to a whole genome duplication (WGD) early in the teleost fish radiation. Moreover, the retention of duplicated iLBP genes is substantially higher than the retention of all other genes duplicated in the teleost genome. The fatty acid-binding protein genes, a subfamily of the iLBP multigene family in zebrafish, are differentially regulated by peroxisome proliferator-activated receptor (PPAR) isoforms, which may account for the retention of iLBP genes in the zebrafish genome by the process of subfunctionalization of cis-acting regulatory elements in iLBP gene promoters.

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Fig. 1
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(Adapted from Parmar et al. 2012b)

Fig. 5

(Adapted from Parmar and Wright 2013b)

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Fig. 7

(Adapted from Venkatachalam et al. 2013)

Fig. 8
Fig. 9

(Adapted from Laprairie et al. 2016a)

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Abbreviations

iLBP:

Intracellular lipid-binding protein

WGD:

Whole genome duplication

FABP:

Mammalian fatty acid-binding protein

FABP :

Mammalian fatty acid-binding protein gene

Fabp:

Fish fatty acid-binding protein

fabp :

Fish fatty acid-binding protein gene

RBP:

Retinol-binding protein

RBP :

Retinol-binding protein gene

CRABP:

Cellular retinoic acid-binding protein

CRABP :

Cellular retinoic acid-binding protein gene

PPAR:

Peroxisome proliferator-activated receptor

PPRE:

Peroxisome proliferator response element

RAR:

Retinoic acid receptor

RXR:

Retinoid X receptor

RT-qPCR:

Reverse transcription-quantitative polymerase chain reaction

FA:

Fatty acid

PP:

Peroxisome proliferator

DDC:

Duplication-degeneration-complementation

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Authors and Affiliations

  1. Department of Biology, Dalhousie University, 1355 Oxford Street, PO BOX 15000, Halifax, NS, B3H 4R2, Canada

    Ananda B. Venkatachalam, Manoj B. Parmar & Jonathan M. Wright

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  1. Ananda B. Venkatachalam
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  2. Manoj B. Parmar
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  3. Jonathan M. Wright
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Correspondence to Jonathan M. Wright.

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Communicated by S. Hohmann.

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Venkatachalam, A.B., Parmar, M.B. & Wright, J.M. Evolution of the duplicated intracellular lipid-binding protein genes of teleost fishes. Mol Genet Genomics 292, 699–727 (2017). https://doi.org/10.1007/s00438-017-1313-5

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  • DOI: https://doi.org/10.1007/s00438-017-1313-5

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