Trends, Stasis, and Drift in the Evolution of Nematode Vulva Development

BACKGROUND A surprising amount of developmental variation has been observed for otherwise highly conserved features, a phenomenon known as developmental system drift. Either stochastic processes (e.g., drift and absence of selection-independent constraints) or deterministic processes (e.g., selection or constraints) could be the predominate mechanism for the evolution of such variation. We tested whether evolutionary patterns of change were unbiased or biased, as predicted by the stochastic or deterministic hypotheses, respectively. As a model, we used the nematode vulva, a highly conserved, essential organ, the development of which has been intensively studied in the model systems Caenorhabditis elegans and Pristionchus pacificus. RESULTS For 51 rhabditid species, we analyzed more than 40 characteristics of vulva development, including cell fates, fate induction, cell competence, division patterns, morphogenesis, and related aspects of gonad development. We then defined individual characters and plotted their evolution on a phylogeny inferred for 65 species from three nuclear gene sequences. This taxon-dense phylogeny provides for the first time a highly resolved picture of rhabditid evolution and allows the reconstruction of the number and directionality of changes in the vulva development characters. We found an astonishing amount of variation and an even larger number of evolutionary changes, suggesting a high degree of homoplasy (convergences and reversals). Surprisingly, only two characters showed unbiased evolution. Evolution of all other characters was biased. CONCLUSIONS We propose that developmental evolution is primarily governed by selection and/or selection-independent constraints, not stochastic processes such as drift in unconstrained phenotypic space.

[1]  J. Sulston,et al.  Post-embryonic cell lineages of the nematode, Caenorhabditis elegans. , 1977, Developmental biology.

[2]  H. Horvitz,et al.  Gonadal cell lineages of the nematode Panagrellus redivivus and implications for evolution by the modification of cell lineage. , 1981, Developmental biology.

[3]  M. Lynch The frailty of adaptive hypotheses for the origins of organismal complexity , 2007, Proceedings of the National Academy of Sciences.

[4]  R. Sommer,et al.  Microevolutionary analysis of the nematode genus Pristionchus suggests a recent evolution of redundant developmental mechanisms during vulva formation , 2001, Evolution & development.

[5]  Y. Ohshima,et al.  Mosaic analysis of the let-23 gene function in vulval induction of Caenorhabditis elegans. , 1995, Development.

[6]  N. Johnson,et al.  Evolution of branched regulatory genetic pathways: directional selection on pleiotropic loci accelerates developmental system drift , 2006, Genetica.

[7]  Frédéric Delsuc,et al.  Heterotachy and long-branch attraction in phylogenetics , 2005, BMC Evolutionary Biology.

[8]  Fabio Piano,et al.  Caenorhabditis phylogeny predicts convergence of hermaphroditism and extensive intron loss , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[9]  J. True,et al.  Evolution and Development: Anchors away! , 2007, Current Biology.

[10]  W. Sudhaus,et al.  Rhabditis (Oscheius) Guentheri1 Sp.N., an Unusual Species With Reduced Posterior Ovary, With Observations On the Dolichura and Insectivora Groups (Nematoda: Rhabditidae) , 1994 .

[11]  S. Gould The Structure of Evolutionary Theory , 2002 .

[12]  R. Sommer Evolutionary changes of developmental mechanisms in the absence of cell lineage alterations during vulva formation in the Diplogastridae (Nematoda). , 1997, Development.

[13]  H. B. An Introduction to Nematology , 1937, Nature.

[14]  R. J. Hill,et al.  lin-17/Frizzled and lin-18 regulate POP-1/TCF-1 localization and cell type specification during C. elegans vulval development. , 2005, Developmental biology.

[15]  D. Fitch,et al.  Comparative studies on the phylogeny and systematics of the rhabditidae (nematoda). , 2001, Journal of nematology.

[16]  Robert C. Edgar,et al.  MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.

[17]  Eric S. Haag,et al.  Compensatory vs. pseudocompensatory evolution in molecular and developmental interactions , 2006, Genetica.

[18]  Thomas R Clandinin,et al.  Different Levels of the C. elegans growth factor LIN-3 promote distinct vulval precursor fates , 1995, Cell.

[19]  M. Sundaram,et al.  RTK/Ras/MAPK signaling. , 2006, WormBook : the online review of C. elegans biology.

[20]  K. Nishiwaki Mutations affecting symmetrical migration of distal tip cells in Caenorhabditis elegans. , 1999, Genetics.

[21]  S. Fullerton,et al.  Phenogenetic drift and the evolution of genotype-phenotype relationships. , 2000, Theoretical population biology.

[22]  R. Sommer,et al.  Novel cell-cell interactions during vulva development in Pristionchus pacificus. , 2000, Development.

[23]  M. Félix,et al.  Control of vulval competence and centering in the nematode Oscheius sp. 1 CEW1. , 2003, Genetics.

[24]  J. White,et al.  Formation of the vulva in Caenorhabditis elegans: a paradigm for organogenesis. , 1999, Development.

[25]  Carola B. Sigrist,et al.  Vulva formation in Pristionchus pacificus relies on continuous gonadal induction , 1999, Development Genes and Evolution.

[26]  P. Sternberg,et al.  Caenorhabditis elegans HOM-C genes regulate the response of vulval precursor cells to inductive signal. , 1997, Developmental biology.

[27]  Andrew D. Chisholm,et al.  Control of cell fates in the central body region of C. elegans by the homeobox gene lin-39 , 1993, Cell.

[28]  J Kimble,et al.  Alterations in cell lineage following laser ablation of cells in the somatic gonad of Caenorhabditis elegans. , 1981, Developmental biology.

[29]  W. Arthur Developmental drive: an important determinant of the direction of phenotypic evolution , 2001, Evolution & development.

[30]  M. Félix,et al.  Phenotypic neighborhood and micro-evolvability. , 2004, Trends in genetics : TIG.

[31]  Paul W. Sternberg,et al.  Multiple intercellular signalling systems control the development of the Caenorhabditis elegans vulva , 1991, Nature.

[32]  B. J. Hwang,et al.  A cell-specific enhancer that specifies lin-3 expression in the C. elegans anchor cell for vulval development , 2004, Development.

[33]  Stuart K. Kim,et al.  Sequential signalling during Caenorhabditis elegans vulval induction , 1995 .

[34]  R. Sommer,et al.  Conservation and diversification of Wnt signaling function during the evolution of nematode vulva development , 2005, Nature Genetics.

[35]  J. White,et al.  Morphogenesis of the C. elegans hermaphrodite uterus. , 1996, Development.

[36]  A. Rokas Evolution: Different paths to the same end , 2006, Nature.

[37]  P. Sternberg,et al.  Two nested gonadal inductions of the vulva in nematodes. , 1997, Development.

[38]  P. Sternberg,et al.  Reciprocal EGF signaling back to the uterus from the induced C. elegans vulva coordinates morphogenesis of epithelia , 1999, Current Biology.

[39]  Mark L. Blaxter,et al.  A molecular evolutionary framework for the phylum Nematoda , 1998, Nature.

[40]  R. Sommer,et al.  Formation of the egg-laying system in Pristionchus pacificus requires complex interactions between gonadal, mesodermal and epidermal tissues and does not rely on single cell inductions. , 2001, Development.

[41]  R. Sommer,et al.  HAIRY-like Transcription Factors and the Evolution of the Nematode Vulva Equivalence Group , 2006, Current Biology.

[42]  Paul W. Sternberg,et al.  Pattern formation during vulval development in C. elegans , 1986, Cell.

[43]  B. Podbilewicz,et al.  Pristionchus pacificus vulva formation: polarized division, cell migration, cell fusion, and evolution of invagination. , 2004, Developmental biology.

[44]  A. Stoltzfus,et al.  Bias in the introduction of variation as an orienting factor in evolution , 2001, Evolution & development.

[45]  R. Sommer Evolution of development in nematodes related to C. elegans. , 2005, WormBook : the online review of C. elegans biology.

[46]  R. Sommer,et al.  Pristionchus pacificus: a well-rounded nematode. , 2006, BioEssays : news and reviews in molecular, cellular and developmental biology.

[47]  P. Sternberg,et al.  Control of vulval cell division number in the nematode Oscheius/Dolichorhabditis sp. CEW1. , 2001, Genetics.

[48]  G. Fusco How many processes are responsible for phenotypic evolution? , 2001, Evolution & development.

[49]  J. Thompson,et al.  The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. , 1997, Nucleic acids research.

[50]  R. Sommer,et al.  Evolution of cell lineage and pattern formation in the vulval equivalence group of rhabditid nematodes. , 1995, Developmental biology.

[51]  J. True,et al.  Developmental system drift and flexibility in evolutionary trajectories , 2001, Evolution & development.

[52]  R. Sommer,et al.  Pristionchus pacificus, a nematode with only three juvenile stages, displays major heterochronic changes relative to Caenorhabditis elegans , 1999, Proceedings of the Royal Society of London. Series B: Biological Sciences.

[53]  Burkhard Morgenstern,et al.  DIALIGN: multiple DNA and protein sequence alignment at BiBiServ , 2004, Nucleic Acids Res..

[54]  D. Maddison,et al.  MacClade 4: analysis of phy-logeny and character evolution , 2003 .

[55]  R. Sommer,et al.  Changes of induction and competence during the evolution of vulva development in nematodes. , 1994, Science.

[56]  R. Sommer,et al.  Gonadogenesis in Pristionchus pacificus and organ evolution: development, adult morphology and cell-cell interactions in the hermaphrodite gonad. , 2005, Developmental biology.

[57]  M. Blaxter,et al.  Systematic position and phylogeny , 2002 .

[58]  Ning Chen,et al.  The lateral signal for LIN-12/Notch in C. elegans vulval development comprises redundant secreted and transmembrane DSL proteins. , 2004, Developmental cell.

[59]  R. Sommer,et al.  Apoptosis and change of competence limit the size of the vulva equivalence group in Pristionchus pacificus: a genetic analysis , 1996, Current Biology.

[60]  H. Horvitz,et al.  Genetic control of programmed cell death in the Caenorhabditis elegans hermaphrodite germline. , 1999, Development.

[61]  Paul W. Sternberg,et al.  Lateral inhibition during vulval induction in Caenorhabditis elegans , 1988, Nature.

[62]  John White,et al.  The type I membrane protein EFF-1 is essential for developmental cell fusion. , 2002, Developmental cell.

[63]  Bryan Kolaczkowski,et al.  Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous , 2004, Nature.

[64]  V. Ambros,et al.  Cell cycle-dependent sequencing of cell fate decisions in Caenorhabditis elegans vulva precursor cells. , 1999, Development.

[65]  W. Sudhaus,et al.  A phylogenetic classification and catalogue of the Diplogastridae (Secernentea, Nematoda) , 2003 .

[66]  P. Tyler,et al.  An improved molecular phylogeny of the Nematoda with special emphasis on marine taxa. , 2007, Molecular phylogenetics and evolution.

[67]  P. Sternberg,et al.  Symmetry breakage in the development of one-armed gonads in nematodes. , 1996, Development.

[68]  E. Maldonado,et al.  Stress-induced germ cell apoptosis by a p53 independent pathway in Caenorhabditis elegans , 2006, Cell Death and Differentiation.

[69]  S. W. Emmons,et al.  18S ribosomal RNA gene phylogeny for some Rhabditidae related to Caenorhabditis. , 1995, Molecular biology and evolution.

[70]  R. Sommer,et al.  The homeotic gene lin-39 and the evolution of nematode epidermal cell fates. , 1997, Science.

[71]  Joe C. Campbell,et al.  Developmental Constraints and Evolution: A Perspective from the Mountain Lake Conference on Development and Evolution , 1985, The Quarterly Review of Biology.

[72]  M. Félix,et al.  Polymorphism and evolution of vulval precursor cell lineages within two nematode genera, Caenorhabditis and Oscheius , 2001, Current Biology.

[73]  Johannes Helder,et al.  Phylum-wide analysis of SSU rDNA reveals deep phylogenetic relationships among nematodes and accelerated evolution toward crown Clades. , 2006, Molecular biology and evolution.

[74]  J. Sulston,et al.  Regulation and cell autonomy during postembryonic development of Caenorhabditis elegans. , 1980, Developmental biology.

[75]  J. Hodin,et al.  Plasticity and constraints in development and evolution. , 2000, The Journal of experimental zoology.

[76]  Marie-Anne Félix,et al.  Cryptic Quantitative Evolution of the Vulva Intercellular Signaling Network in Caenorhabditis , 2007, Current Biology.

[77]  T. Mchugh Social behavior of the American buffalo (Bison bison bison) , 1958, Zoologica : scientific contributions of the New York Zoological Society..

[78]  R. Hill,et al.  EVOLUTION OF HEMOGLOBIN. , 1964, Federation proceedings.

[79]  R. Sommer,et al.  Evolution of vulva development in the Cephalobina (Nematoda). , 2000, Developmental biology.

[80]  A. Bergman,et al.  Functional and evolutionary inference in gene networks: does topology matter? , 2006, Genetica.

[81]  Daniel J. Bumbarger,et al.  Phylogeny of Cephalobina (Nematoda): molecular evidence for recurrent evolution of probolae and incongruence with traditional classifications. , 2006, Molecular phylogenetics and evolution.

[82]  Min Han,et al.  SynMuv genes redundantly inhibit lin-3/EGF expression to prevent inappropriate vulval induction in C. elegans. , 2006, Developmental cell.

[83]  D. Roff Phenotypic Evolution — A Reaction Norm Perspective , 1999, Heredity.

[84]  W. Arthur The effect of development on the direction of evolution: toward a twenty‐first century consensus , 2004, Evolution & development.

[85]  M. Félix,et al.  The two steps of vulval induction in Oscheius tipulae CEW1 recruit common regulators including a MEK kinase. , 2004, Developmental biology.

[86]  B. Podbilewicz,et al.  Changing of the cell division axes drives vulva evolution in nematodes. , 2008, Developmental biology.

[87]  H. Horvitz,et al.  Postembryonic nongonadal cell lineages of the nematode Panagrellus redivivus: description and comparison with those of Caenorhabditis elegans. , 1982, Developmental biology.

[88]  Janet Wiles,et al.  A generative bias towards average complexity in artificial cell lineages , 2007, Proceedings of the Royal Society B: Biological Sciences.

[89]  D. Hirsh,et al.  The postembryonic cell lineages of the hermaphrodite and male gonads in Caenorhabditis elegans. , 1979, Developmental biology.

[90]  R. Raff The Shape of Life , 1996 .

[91]  B. Podbilewicz,et al.  Ring formation drives invagination of the vulva in Caenorhabditis elegans: Ras, cell fusion, and cell migration determine structural fates. , 2000, Developmental biology.

[92]  W. Cressler The Shape of Life: Genes, Development, and the Evolution of Animal Form , 1998 .

[93]  S. K. Kirn,et al.  Sequential signalling during Caenorhabditis elegans vulval induction , 1995, Nature.

[94]  M. Félix Alternative morphs and plasticity of vulval development in a rhabditid nematode species , 2004, Development Genes and Evolution.

[95]  Qin Zhang,et al.  Control of , 2021, Agriculture Automation and Control.