The evolution of duplicate gene expression in mammalian organs

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The evolution of duplicate gene expression in mammalian organs

Guschanski, Katerina (author): Uppsala universitet,Zooekologi

Warnefors, Maria (author): Center for Molecular Biology of Heidelberg University (ZMBH), DKFZ-ZMBH Alliance

Kaessmann, Henrik (author): Center for Molecular Biology of Heidelberg University (ZMBH), DKFZ-ZMBH Alliance

(creator_code:org_t)

2017-07-25
2017
English.
In: Genome Research. - : Cold Spring Harbor Laboratory. - 1088-9051 .- 1549-5469. ; 27:9, s. 1461-1474

Related links:: https://uu.diva-port... (primary) (Raw object); show more...; http://genome.cshlp....; https://urn.kb.se/re...; https://doi.org/10.1...; show less...

Journal article (peer-reviewed)

Abstract Subject headings

Gene duplications generate genomic raw material that allows the emergence of novel functions, likely facilitating adaptive evolutionary innovations. However, global assessments of the functional and evolutionary relevance of duplicate genes in mammals were until recently limited by the lack of appropriate comparative data. Here, we report a large-scale study of the expression evolution of DNA-based functional gene duplicates in three major mammalian lineages (placental mammals, marsupials, egg-laying monotremes) and birds, on the basis of RNA sequencing (RNA-seq) data from nine species and eight organs. We observe dynamic changes in tissue expression preference of paralogs with different duplication ages, suggesting differential contribution of paralogs to specific organ functions during vertebrate evolution. Specifically, we show that paralogs that emerged in the common ancestor of bony vertebrates are enriched for genes with brain-specific expression and provide evidence for differential forces underlying the preferential emergence of young testis-and liver-specific expressed genes. Further analyses uncovered that the overall spatial expression profiles of gene families tend to be conserved, with several exceptions of pronounced tissue specificity shifts among lineage-specific gene family expansions. Finally, we trace new lineage-specific genes that may have contributed to the specific biology of mammalian organs, including the little-studied placenta. Overall, our study provides novel and taxonomically broad evidence for the differential contribution of duplicate genes to tissue-specific transcriptomes and for their importance for the phenotypic evolution of vertebrates.

Subject headings

NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
LANTBRUKSVETENSKAPER -- Bioteknologi med applikationer på växter och djur (hsv//swe)
AGRICULTURAL SCIENCES -- Agricultural Biotechnology (hsv//eng)
NATURVETENSKAP -- Biologi -- Mikrobiologi (hsv//swe)
NATURAL SCIENCES -- Biological Sciences -- Microbiology (hsv//eng)
LANTBRUKSVETENSKAPER -- Bioteknologi med applikationer på växter och djur -- Genetik och förädling inom lantbruksvetenskap (hsv//swe)
AGRICULTURAL SCIENCES -- Agricultural Biotechnology -- Genetics and Breeding in Agricultural Sciences (hsv//eng)

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NATURAL SCIENCES: NATURAL SCIENCES; and Biological Scien ...; and Biochemistry and ...

AGRICULTURAL SCIENCES: AGRICULTURAL SCI ...; and Agricultural Bio ...

NATURAL SCIENCES: NATURAL SCIENCES; and Biological Scien ...; and Microbiology

AGRICULTURAL SCIENCES: AGRICULTURAL SCI ...; and Agricultural Bio ...; and Genetics and Bre ...

Articles in the publication: Genome Research

By the university: Uppsala University

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