Transposable elements and small RNAs: Genomic fuel for species diversity

While transposable elements (TE) have long been suspected of involvement in species diversification, identifying specific roles has been difficult. We recently found evidence of TE-derived regulatory RNAs in a species-rich family of bats. The TE-derived small RNAs are temporally associated with the burst of species diversification, suggesting that they may have been involved in the processes that led to the diversification. In this commentary, we expand on the ideas that were briefly touched upon in that manuscript. Specifically, we suggest avenues of research that may help to identify the roles that TEs may play in perturbing regulatory pathways. Such research endeavors may serve to inform evolutionary biologists of the ways that TEs have influenced the genomic and taxonomic diversity around us.

[1]  J. Losos,et al.  Supplementary Materials for Rapid evolution of a native species following invasion by a congener , 2014 .

[2]  Robert J. Baker,et al.  Rolling-Circle Transposons Catalyze Genomic Innovation in a Mammalian Lineage , 2014, Genome biology and evolution.

[3]  Sumio Sugano,et al.  A single female-specific piRNA is the primary determiner of sex in the silkworm , 2014, Nature.

[4]  Justin T. Roberts,et al.  Burgeoning evidence indicates that microRNAs were initially formed from transposable element sequences , 2014, Mobile genetic elements.

[5]  D. Ray,et al.  Large numbers of novel miRNAs originate from DNA transposons and are coincident with a large species radiation in bats. , 2014, Molecular biology and evolution.

[6]  G. Borchert,et al.  Continuing analysis of microRNA origins , 2013, Mobile genetic elements.

[7]  D. Ray,et al.  Transposable element evolution in Heliconius suggests genome diversity within Lepidoptera , 2013, Mobile DNA.

[8]  J. A. Encarnação,et al.  Insectivorous Bats Digest Chitin in the Stomach Using Acidic Mammalian Chitinase , 2013, PloS one.

[9]  D. Fukui,et al.  Bird predation by the birdlike noctule in Japan , 2013 .

[10]  T. Nakano,et al.  piRNA and spermatogenesis in mice , 2013, Philosophical Transactions of the Royal Society B: Biological Sciences.

[11]  Keith R. Oliver,et al.  Transposable elements and viruses as factors in adaptation and evolution: an expansion and strengthening of the TE-Thrust hypothesis , 2012, Ecology and evolution.

[12]  R. Hellmich,et al.  Mobilizing the Genome of Lepidoptera through Novel Sequence Gains and End Creation by Non-autonomous Lep1 Helitrons , 2011, DNA research : an international journal for rapid publication of reports on genes and genomes.

[13]  J. Jurka,et al.  Families of transposable elements, population structure and the origin of species , 2011, Biology Direct.

[14]  Jacob D. Jaffe,et al.  The genome of the green anole lizard and a comparative analysis with birds and mammals , 2011, Nature.

[15]  Keith R. Oliver,et al.  Mobile DNA and the TE-Thrust hypothesis: supporting evidence from the primates , 2011, Mobile DNA.

[16]  C. Gatto,et al.  Comprehensive analysis of microRNA genomic loci identifies pervasive repetitive-element origins , 2011, Mobile genetic elements.

[17]  M. B. Fenton,et al.  Eating local: influences of habitat on the diet of little brown bats (Myotis lucifugus) , 2011, Molecular ecology.

[18]  D. Ray,et al.  The limited distribution of Helitrons to vesper bats supports horizontal transfer. , 2011, Gene.

[19]  S. Boissinot,et al.  The Evolution and Diversity of DNA Transposons in the Genome of the Lizard Anolis carolinensis , 2010, Genome biology and evolution.

[20]  M. Holderied,et al.  An Aerial-Hawking Bat Uses Stealth Echolocation to Counter Moth Hearing , 2010, Current Biology.

[21]  N. Backström,et al.  Speciation genetics: current status and evolving approaches , 2010, Philosophical Transactions of the Royal Society B: Biological Sciences.

[22]  J. Hayes,et al.  Facultative Nectar-Feeding Behavior in a Gleaning Insectivorous Bat (Antrozous pallidus) , 2009 .

[23]  M. A. McClure,et al.  The evolutionary dynamics of autonomous non-LTR retrotransposons in the lizard Anolis carolinensis shows more similarity to fish than mammals. , 2009, Molecular biology and evolution.

[24]  Yoichi Ishida,et al.  Transposable elements and an epigenetic basis for punctuated equilibria , 2009, BioEssays : news and reviews in molecular, cellular and developmental biology.

[25]  P. Hebert,et al.  Species on the menu of a generalist predator, the eastern red bat (Lasiurus borealis): using a molecular approach to detect arthropod prey , 2009, Molecular ecology.

[26]  D. Ray,et al.  Multiple waves of recent DNA transposon activity in the bat, Myotis lucifugus. , 2008, Genome research.

[27]  C. Feschotte Transposable elements and the evolution of regulatory networks , 2008, Nature Reviews Genetics.

[28]  Gang Li,et al.  Diet, Echolocation Calls, and Phylogenetic Affinities of the Great Evening Bat (Ia io; Vespertilionidae): Another Carnivorous Bat , 2007 .

[29]  T. Samuelsson,et al.  Useful ‘junk’: Alu RNAs in the human transcriptome , 2007, Cellular and Molecular Life Sciences.

[30]  J. Coyne,et al.  THE LOCUS OF EVOLUTION: EVO DEVO AND THE GENETICS OF ADAPTATION , 2007, Evolution; international journal of organic evolution.

[31]  M. Finke Estimate of chitin in raw whole insects. , 2007, Zoo biology.

[32]  E. Ostertag,et al.  Current topics in genome evolution: Molecular mechanisms of new gene formation , 2007, Cellular and Molecular Life Sciences.

[33]  Cédric Feschotte,et al.  Massive amplification of rolling-circle transposons in the lineage of the bat Myotis lucifugus , 2007, Proceedings of the National Academy of Sciences.

[34]  D. Ray,et al.  Bats with hATs: evidence for recent DNA transposon activity in genus Myotis. , 2006, Molecular biology and evolution.

[35]  M. Speek,et al.  L1 Antisense Promoter Drives Tissue-Specific Transcription of Human Genes , 2006, Journal of biomedicine & biotechnology.

[36]  A. Evsikov,et al.  Retrotransposons regulate host genes in mouse oocytes and preimplantation embryos. , 2004, Developmental cell.

[37]  T. Peterson,et al.  Transposition of Reversed Ac Element Ends Generates Chromosome Rearrangements in Maize , 2004, Genetics.

[38]  H. Kazazian Mobile Elements: Drivers of Genome Evolution , 2004, Science.

[39]  J. Whitaker,et al.  Chitinase in Insectivorous Bats , 2004 .

[40]  W. Metzner,et al.  Dietary analysis confirms that Rickett's big-footed bat ( Myotis ricketti ) is a piscivore , 2003 .

[41]  E. Eichler,et al.  Structural Dynamics of Eukaryotic Chromosome Evolution , 2003, Science.

[42]  S. Agosta,et al.  Feeding ecology of the bat Eptesicus fuscus: ‘preferred’ prey abundance as one factor influencing prey selection and diet breadth , 2003 .

[43]  M. Speek,et al.  Many human genes are transcribed from the antisense promoter of L1 retrotransposon. , 2002, Genomics.

[44]  M. Batzer,et al.  Alu repeats and human genomic diversity , 2002, Nature Reviews Genetics.

[45]  H. Cauchie Chitin production by arthropods in the hydrosphere , 2002, Hydrobiologia.

[46]  C. Ibáñez,et al.  Bat predation on nocturnally migrating birds , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[47]  M. Speek Antisense Promoter of Human L1 Retrotransposon Drives Transcription of Adjacent Cellular Genes , 2001, Molecular and Cellular Biology.

[48]  Y. Gray,et al.  It takes two transposons to tango: transposable-element-mediated chromosomal rearrangements. , 2000, Trends in genetics : TIG.

[49]  M. Cáceres,et al.  Generation of a widespread Drosophila inversion by a transposable element. , 1999, Science.

[50]  K. Mathiopoulos,et al.  Cloning of inversion breakpoints in the Anopheles gambiae complex traces a transposable element at the inversion junction. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[51]  R. Arlettaz,et al.  Feeding behaviour and foraging strategy of free-living mouse-eared bats,Myotis myotisandMyotis blythii , 1996, Animal Behaviour.

[52]  Johng K. Lim,et al.  Gross chromosome rearrangements mediated by transposable elements in Drosophila melanogaster , 1994, BioEssays : news and reviews in molecular, cellular and developmental biology.

[53]  S. Wessler,et al.  Molecular evidence that chromosome breakage by Ds elements is caused by aberrant transposition. , 1993, The Plant cell.

[54]  S. Robson Myotis adversus (Chiroptera: Vespertilionidae): Australia's fish-eating bat. , 1984, Australian Mammalogy.

[55]  M. King,et al.  Evolution at two levels in humans and chimpanzees. , 1975, Science.

[56]  W. O. McMillan,et al.  The genomics of an adaptive radiation: insights across the Heliconius speciation continuum. , 2014, Advances in experimental medicine and biology.

[57]  S. Boissinot,et al.  Independent and parallel lateral transfer of DNA transposons in tetrapod genomes. , 2010, Gene.

[58]  H. Merzendorfer,et al.  Insect chitin synthases: a review , 2005, Journal of Comparative Physiology B.

[59]  P. Chevret,et al.  Amplification of the ancient murine Lx family of long interspersed repeated DNA occurred during the murine radiation , 2004, Journal of Molecular Evolution.

[60]  Heinz Saedler,et al.  Chromosome rearrangements and transposable elements. , 2002, Annual review of genetics.

[61]  Dawson,et al.  The echolocation calls of the spotted bat Euderma maculatum are relatively inaudible to moths , 1997, The Journal of experimental biology.

[62]  R. Arlettaz,et al.  Feeding behaviour and foraging strategy of free-living mouse-eared bats , Myotis myotis and Myotis , 1995 .

[63]  Paul Schedl,et al.  The locus of , 1984 .