Transposable Element Domestication As an Adaptation to Evolutionary Conflicts

Jangam, Diwash; Feschotte, Cédric; Betrán, Esther

doi:10.1016/j.tig.2017.07.011

Cited by 219 publications

(190 citation statements)

References 107 publications

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“…This general expression pattern could be explained either by supergene allele‐specific gene regulation or by copy number variation of TEs between SB and Sb genomes. The general consensus is that most TE insertions are neutral or slightly deleterious; however, TEs that cause adaptive phenotypes have been described in many organisms, including insects (van't Hof et al ; Jangam, Feschotte, Betrán, ; Li et al ). Thus, it would be interesting to determine whether the differential expression of these TEs is just nonfunctional noise or adaptive gene regulation, especially for those associated with social form.…”

Section: Discussionmentioning

confidence: 99%

Has gene expression neofunctionalization in the fire ant antennae contributed to queen discrimination behavior?

Dang

Cohanim

Fontana

et al. 2019

Ecology and Evolution

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Queen discrimination behavior in the fire ant Solenopsis invicta maintains its two types of societies: colonies with one (monogyne) or many (polygyne) queens, yet the underlying genetic mechanism is poorly understood. This behavior is controlled by two supergene alleles, SB and Sb, with ~600 genes. Polygyne workers, having either the SB/SB or SB/Sb genotype, accept additional SB/Sb queens into their colonies but kill SB/SB queens. In contrast, monogyne workers, all SB/SB, reject all additional queens regardless of genotype. Because the SB and Sb alleles have suppressed recombination, determining which genes within the supergene mediate this differential worker behavior is difficult. We hypothesized that the alternate worker genotypes sense queens differently because of the evolution of differential expression of key genes in their main sensory organ, the antennae. To identify such genes, we sequenced RNA from four replicates of pooled antennae from three classes of workers: monogyne SB/SB, polygyne SB/SB, and polygyne SB/Sb. We identified 81 differentially expressed protein‐coding genes with 13 encoding potential chemical metabolism or perception proteins. We focused on the two odorant perception genes: an odorant receptor SiOR463 and an odorant‐binding protein SiOBP12. We found that SiOR463 has been lost in the Sb genome. In contrast, SiOBP12 has an Sb‐specific duplication, SiOBP12b′, which is expressed in the SB/Sb worker antennae, while both paralogs are expressed in the body. Comparisons with another fire ant species revealed that SiOBP12b′ antennal expression is specific to S. invicta and suggests that queen discrimination may have evolved, in part, through expression neofunctionalization.

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Section: Discussionmentioning

confidence: 99%

Has gene expression neofunctionalization in the fire ant antennae contributed to queen discrimination behavior?

Dang

Cohanim

Fontana

et al. 2019

Ecology and Evolution

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“…There are now numerous examples of exaptation in vertebrates, and TEs have been shown to be a source of novel regulatory sequence (promoters or enhancers), of coding sequences (new genes or exons), of binding sites, and of noncoding RNAs (miRNAs and lncRNAs) [reviewed in Warren et al, 2015]. In fact, the exaptation of TEs has had some profound impacts on the evolution of networks as well as on the evolution of some important functions, such as immunity and neurotransmission [Feschotte, 2008;Jangam et al, 2017;Pastuzyn et al, 2018]. However, the vast majority of examples of exaptation in vertebrates have been found in mammals [Warren et al, 2015], arguably the best-studied vertebrate group in the field of comparative genomics.…”

Section: The Impact Of Transposable Elements On the Genome Of Their Hostmentioning

confidence: 99%

The Mobilome of Reptiles: Evolution, Structure, and Function

Boissinot¹,

Bourgeois²,

Manthey

et al. 2019

Cytogenet Genome Res

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Transposable elements (TE) constitute one of the most variable genomic features among vertebrates, impacting genome size, structure, and composition. Despite their important role in shaping genomic diversity, they have mostly been studied in mammals, which display one of the least diverse genomes in terms of TE diversity. Recent new resources in reptilian genomics have opened a broader perspective about TE evolution in amniotes. We discuss these recent results by showing that TE diversity is high in reptiles, particularly in squamates, with strong heterogeneity in the number of TE classes retained in each lineage, even at short evolutionary scales. More research is needed to uncover the exact mechanisms that regulate TE proliferation in reptiles and to what extent these selfish elements can play a role in local adaptation or in the emergence of barriers to gene flow.

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“…Interestingly, a germline‐limited PiggyBac transposase has been identified in Tetrahymena and is required for precise excision of germline‐limited DNA, whereas the somatic PiggyBac , which is responsible for the bulk of IES excision, does so at variable boundaries . These data from ciliates are yet another example of how TE proteins, regardless of their domestication status, have often been co‐opted into numerous pathways as adaptations to a variety of evolutionary conflicts spanning the tree of life …”

Section: Tes and Germ‐line Genome Architecture In Ciliatesmentioning

confidence: 99%

“…From these duplicated loci, combinatorial rearrangements can take place during development (guided by the large pool of redundant pointer sequences), generating identical somatic sequences (Fig. A) . Over time, decay/divergence of redundant pointers and/or identical coding regions could become fixed, with negligible impacts on fitness (Fig.…”

Section: Origins Of Ciliate Scrambled Germ‐line Genome Architecturementioning

confidence: 99%

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Evolutionary origins and impacts of genome architecture in ciliates

Maurer‐Alcalá

Nowacki

2019

Annals of the New York Academy of Sciences

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Genome architecture is well diversified among eukaryotes in terms of size and content, with many being radically shaped by ancient and ongoing genome conflicts with transposable elements (e.g., the large transposon‐rich genomes common among plants). In ciliates, a group of microbial eukaryotes with distinct somatic and germ‐line genomes present in a single cell, the consequences of these genome conflicts are most apparent in their developmentally programmed genome rearrangements. This complicated developmental phenomenon has largely overshadowed and outpaced our understanding of how germ‐line and somatic genome architectures have influenced the evolutionary dynamism and potential in these taxa. In our review, we highlight three central concepts: how the evolution of atypical ciliate germ‐line genome architectures is linked to ancient genome conflicts; how the complex, epigenetically guided transformation of germline to soma during development can generate widespread genetic variation; and how these features, coupled with their unusual life cycle, have increased the rate of molecular evolution linked to genome architecture in these taxa.

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Transposable Element Domestication As an Adaptation to Evolutionary Conflicts

Cited by 219 publications

References 107 publications

Has gene expression neofunctionalization in the fire ant antennae contributed to queen discrimination behavior?

Has gene expression neofunctionalization in the fire ant antennae contributed to queen discrimination behavior?

The Mobilome of Reptiles: Evolution, Structure, and Function

Evolutionary origins and impacts of genome architecture in ciliates

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