ITRAQ Proteomic Analysis of Yellow and Black Skin in Jinbian Carp (Cyprinus carpio)

Ye, Xiangchen; Zhou, Lingling; Jia, Jingyi; Wei, Lili; Yan, Xin; Huang, Jie; Gan, Baojiang; Liu, Kang; Lv, Yejian; Hu, Guangfu

doi:10.3390/life10100226

Cited by 3 publications

(3 citation statements)

References 28 publications

(50 reference statements)

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“…4 D and E ; supplementary table S3, Supplementary Material online). Interestingly, several of these genes have been shown to be involved in melanogenesis in mammals ( ldha and aldoa ; Slominski et al 2014 ) and skin coloration in carp ( aldoa ; Ye et al 2020 ), yet the majority had unknown functions. While morph-dependent DE genes are likely to be involved in the same pathways as ASIP , the genes DE between sections of the dorsal skin could be produced by the different mature chromatophores.…”

Section: Resultsmentioning

confidence: 99%

Genomic Analyses Reveal Association of ASIP with a Recurrently evolving Adaptive Color Pattern in Frogs

Goutte

Hariyani

Utzinger

et al. 2022

Molecular Biology and Evolution

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Traits shared among distantly related lineages are indicators of common evolutionary constraints, at the ecological, physiological or molecular level. Here, we show that the vertebral stripe, a cryptic color pattern, has evolved hundreds of times in the evolutionary history of anurans (frogs and toads) and is favored in terrestrial habitats. Using a genome-wide association study, we demonstrate that variation near the Agouti signaling protein gene (ASIP) is responsible for the different vertebral stripe phenotypes in the African grass frog Ptychadena robeensis. RNAseq and real-time quantitative PCR revealed that differential expression of the gene and an adjacent long non-coding RNA is linked to patterning in this species. Surprisingly, and although the stripe phenotypes are shared with closely related species, we found that the P. robeensis alleles are private to the species and unlikely to evolve under long-term balancing selection, thus indicating that the vertebral stripe phenotypes result from parallel evolution within the group. Our findings demonstrate that this cryptic color pattern evolved rapidly and recurrently in terrestrial anurans, and therefore constitutes an ideal system to study repeated evolution.

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Section: Resultsmentioning

confidence: 99%

Genomic Analyses Reveal Association of ASIP with a Recurrently evolving Adaptive Color Pattern in Frogs

Goutte

Hariyani

Utzinger

et al. 2022

Molecular Biology and Evolution

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“…GTPases with similarities to mammalian GIMAPs appear to have evolved independently in different species (56,58,59,(149)(150)(151)(152).…”

Section: Discussionmentioning

confidence: 99%

The GIMAP Family Proteins: An Incomplete Puzzle

et al. 2021

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Overview: Long-term survival of T lymphocytes in quiescent state is essential to maintain their cell numbers in secondary lymphoid organs and in peripheral circulation. In the BioBreeding diabetes-prone strain of rats (BB-DP), loss of functional GIMAP5 (GTPase of the immune associated nucleotide binding protein 5) results in profound peripheral T lymphopenia. This discovery heralded the identification of a new family of proteins initially called Immune-associated nucleotide binding protein (IAN) family. In this review we will use ‘GIMAP’ to refer to this family of proteins. Recent studies suggest that GIMAP proteins may interact with each other and also be involved in the movement of the cellular cargo along the cytoskeletal network. Here we will summarize the current knowledge on the characteristics and functions of GIMAP family of proteins.

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“…3c). Three of these were transcripts of aldoa, a gene expressed during melanogenesis in mammals 32 and up-regulated in yellow compared to black carp 33 .…”

Section: Differential Gene Expression Associated With the Vertebral Stripementioning

confidence: 99%

Coloring inside the lines: genomic architecture and evolution of a widespread color pattern in frogs

Goutte

Hariyani

Utzinger

et al. 2021

Preprint

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SummaryTraits shared among distantly related lineages are indicators of common evolutionary constraints, at the ecological, physiological or molecular level. The vertebral stripe is a color pattern that is widespread across the anuran phylogeny. Despite its prevalence in the order, surprisingly little is known about the genetic basis and evolutionary dynamic of this color pattern. Here we combine histology, genome- and transcriptome-wide analyses with order-scale phylogenetic comparative analyses to investigate this common phenotype. We show that the vertebral stripe has evolved hundreds of times in the evolutionary history of anurans and is selected for in terrestrial habitats. Using the Ethiopian Ptychadena radiation as a model system, we demonstrate that variation at the ASIP gene is responsible for the different vertebral stripe phenotypes. Alleles associated to these phenotypes are younger than the split between closely related Ptychadena species, thus indicating that the vertebral stripe results from parallel evolution within the group. Our findings demonstrate that this widespread color pattern evolves rapidly and recurrently in terrestrial anurans, and therefore constitute an ideal system to study repeated evolution.

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ITRAQ Proteomic Analysis of Yellow and Black Skin in Jinbian Carp (Cyprinus carpio)

Cited by 3 publications

References 28 publications

Genomic Analyses Reveal Association of ASIP with a Recurrently evolving Adaptive Color Pattern in Frogs

Genomic Analyses Reveal Association of ASIP with a Recurrently evolving Adaptive Color Pattern in Frogs

The GIMAP Family Proteins: An Incomplete Puzzle

Coloring inside the lines: genomic architecture and evolution of a widespread color pattern in frogs

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