[The CRISPR case, « ready-made » mutations and Lamarckian evolution of an adaptive immunity system].

Since genetics has shown that mutation predates selection, biology has developed within the Darwinian paradigm framework. However, a mechanism that produces favorable mutations preferentially in response to adaptive constraints has been recently identified. This mechanism, the CRISPR-Cas adaptive immunity system, is considered as a bona fide example of Lamarckian evolution, even if it only reflects loosely Lamarck's ideas. This unusual evolutionary process is made possible by two prokaryotic properties: i) somatic and germinal cells are not distinct sets of cells; ii) Archae and Bacteria very frequently integrate DNA fragments from the environment, and they therefore have access to a source of "ready-made" useful genetic information. The CRISPR-Cas is a defense system against viruses and plasmids that is based on the integration of genomic fragments of these infectious agents into the host genome, and that protects the host against subsequent infections. Therefore, this mechanism does produce advantageous mutations by integrating DNA from the environment and allowing its transmission to descendants. In conclusion, most of the time evolution relies on purely Darwinian processes, i.e. mutations occurring at random, but in a small minority of cases the occurrence of mutations is more or less biased, and is therefore more or less Lamarckian. Although they are rare, such processes are nevertheless important to our understanding of the plurality of modes of evolution.

[1]  Eugene V. Koonin,et al.  Just how Lamarckian is CRISPR-Cas immunity: the continuum of evolvability mechanisms , 2016, Biology Direct.

[2]  B. Jordan [CRISPR-Cas9, a new chance for somatic gene therapy]. , 2015, Medecine sciences : M/S.

[3]  Jacques P. Tremblay [The CRISPR system can correct or modify the expression of genes responsible for hereditary diseases]. , 2015, Medecine sciences : M/S.

[4]  Luciano A. Marraffini,et al.  CRISPR-Cas immunity in prokaryotes , 2015, Nature.

[5]  Sita J. Saunders,et al.  An updated evolutionary classification of CRISPR–Cas systems , 2015, Nature Reviews Microbiology.

[6]  Alan R. Davidson,et al.  Multiple mechanisms for CRISPR–Cas inhibition by anti-CRISPR proteins , 2015, Nature.

[7]  M. Siomi,et al.  PIWI-Interacting RNA: Its Biogenesis and Functions. , 2015, Annual review of biochemistry.

[8]  B. Jordan Thérapie génique germinale, le retour ? - Chroniques génomiques , 2015 .

[9]  Eugene V Koonin,et al.  Evolution of the RAG1-RAG2 locus: both proteins came from the same transposon , 2015, Biology Direct.

[10]  Asaf Levy,et al.  CRISPR adaptation biases explain preference for acquisition of foreign DNA , 2015, Nature.

[11]  R. Terns,et al.  Cas9 function and host genome sampling in Type II-A CRISPR–Cas adaptation , 2015, Genes & development.

[12]  E. Koonin,et al.  Evolution of adaptive immunity from transposable elements combined with innate immune systems , 2014, Nature Reviews Genetics.

[13]  Didier Casane,et al.  Syllogomanie moléculaire : l’ADN non codant enrichit le jeu des possibles , 2014 .

[14]  H. Gilgenkrantz [The revolution of the CRISPR is underway]. , 2014, Medecine sciences : M/S.

[15]  E. Koonin,et al.  Casposons: a new superfamily of self-synthesizing DNA transposons at the origin of prokaryotic CRISPR-Cas immunity , 2014, BMC Biology.

[16]  Kira S. Makarova,et al.  Classification and evolution of type II CRISPR-Cas systems , 2014, Nucleic acids research.

[17]  Peter C. Fineran,et al.  CRISPR–Cas systems: beyond adaptive immunity , 2014, Nature Reviews Microbiology.

[18]  R. Martienssen,et al.  Transgenerational Epigenetic Inheritance: Myths and Mechanisms , 2014, Cell.

[19]  Eugene V Koonin,et al.  CRISPR-Cas , 2013, RNA biology.

[20]  R. MacLean,et al.  Evaluating evolutionary models of stress-induced mutagenesis in bacteria , 2013, Nature Reviews Genetics.

[21]  Eugene V Koonin,et al.  Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems , 2011, Biology Direct.

[22]  E. Danchin,et al.  Beyond DNA: integrating inclusive inheritance into an extended theory of evolution , 2011, Nature Reviews Genetics.

[23]  W. Doolittle,et al.  How a neutral evolutionary ratchet can build cellular complexity , 2011, IUBMB life.

[24]  A. Aravin,et al.  PIWI-interacting small RNAs: the vanguard of genome defence , 2011, Nature Reviews Molecular Cell Biology.

[25]  E. Koonin,et al.  Is evolution Darwinian or/and Lamarckian? , 2009, Biology Direct.

[26]  Anders F. Andersson,et al.  Virus Population Dynamics and Acquired Virus Resistance in Natural Microbial Communities , 2008, Science.

[27]  P. Foster Stress-Induced Mutagenesis in Bacteria , 2007, Critical reviews in biochemistry and molecular biology.

[28]  E. Denamur,et al.  Mutator phenotype confers advantage in Escherichia coli chronic urinary tract infection pathogenesis. , 2005, FEMS immunology and medical microbiology.

[29]  Valeria Souza,et al.  Stress-Induced Mutagenesis in Bacteria , 2003, Science.

[30]  A. Stoltzfus On the Possibility of Constructive Neutral Evolution , 1999, Journal of Molecular Evolution.

[31]  F. Taddei,et al.  Role of mutator alleles in adaptive evolution , 1997, Nature.

[32]  M. Kimura Evolutionary Rate at the Molecular Level , 1968, Nature.

[33]  M. Delbrück,et al.  Mutations of Bacteria from Virus Sensitivity to Virus Resistance. , 1943, Genetics.

[34]  C. Junien,et al.  [Epigenetics in transgenerational responses to environmental impacts: from facts and gaps]. , 2016, Medecine sciences : M/S.

[35]  G. Lecointre Les sciences face aux créationnismes , 2012 .

[36]  Laurent Loison French Roots of French Neo-Lamarckisms, 1879–1985 , 2011, Journal of the history of biology.

[37]  Biology Direct BioMed Central , 2008 .

[38]  E. Koonin,et al.  Horizontal gene transfer in prokaryotes: quantification and classification. , 2001, Annual review of microbiology.

[39]  P. Foster Adaptive mutation: the uses of adversity. , 1993, Annual review of microbiology.

[40]  C. Darwin The origin of species : by means natural selection or the preservation of favoured races in the struggle for life , 1920 .