High expression of new genes in trochophore enlightening the ontogeny and evolution of trochozoans
暂无分享,去创建一个
Fei Xu | Li Li | Xiaodong Fang | Thomas L. Dunwell | X. Fang | Li Li | Guofan Zhang | Tomislav Domazet-Lošo | D. Fan | T. Dunwell | Guofan Zhang | Tomislav Domazet-Lošo | Dingding Fan | Fei Xu
[1] M. Hadfield,et al. Why and how marine-invertebrate larvae metamorphose so fast. , 2000, Seminars in cell & developmental biology.
[2] M. Robinson,et al. A scaling normalization method for differential expression analysis of RNA-seq data , 2010, Genome Biology.
[3] Lior Pachter,et al. Sequence Analysis , 2020, Definitions.
[4] Gonçalo R. Abecasis,et al. The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..
[5] D. Tautz,et al. A phylogenetically based transcriptome age index mirrors ontogenetic divergence patterns , 2010, Nature.
[6] C. Nielsen. Trochophora larvae: cell-lineages, ciliary bands, and body regions. 1. Annelida and Mollusca. , 2004, Journal of experimental zoology. Part B, Molecular and developmental evolution.
[7] Ross Ihaka,et al. Gentleman R: R: A language for data analysis and graphics , 1996 .
[8] Jack D. Cohen. Development of the zootype , 1993, Nature.
[9] R. R. Strathmann,et al. Plasticity of hatching and the duration of planktonic development in marine invertebrates. , 2011, Integrative and comparative biology.
[10] Brian K. Hall,et al. Keywords and Concepts in Evolutionary Developmental Biology , 2006 .
[11] D. Tautz,et al. The evolutionary origin of orphan genes , 2011, Nature Reviews Genetics.
[12] L. Duret,et al. Comparative population genomics in animals uncovers the determinants of genetic diversity , 2014, Nature.
[13] J. Hui,et al. A "developmental hourglass" in fungi. , 2015, Molecular biology and evolution.
[14] Ximing Guo,et al. Inbreeding Depression and Maternal Effects on Early Performance of Pacific Abalone , 2005 .
[15] M. Martindale,et al. Homology of ciliary bands in Spiralian Trochophores. , 2007, Integrative and comparative biology.
[16] M. Martindale,et al. Cellular and molecular mechanisms of segmentation in annelids , 1996 .
[17] Nicholas H. Putnam,et al. Insights into bilaterian evolution from three spiralian genomes , 2012, Nature.
[18] Kevin R. Thornton,et al. The origin of new genes: glimpses from the young and old , 2003, Nature Reviews Genetics.
[19] Diethard Tautz,et al. Phylostratigraphic tracking of cancer genes suggests a link to the emergence of multicellularity in metazoa , 2010, BMC Biology.
[20] Jianzhi Zhang,et al. Phylostratigraphic Bias Creates Spurious Patterns of Genome Evolution. , 2016, Molecular biology and evolution.
[21] R. Raff. Origins of the other metazoan body plans: the evolution of larval forms , 2008, Philosophical Transactions of the Royal Society B: Biological Sciences.
[22] I. Grosse,et al. A transcriptomic hourglass in plant embryogenesis , 2012, Nature.
[23] P. Robinson,et al. Whole-exome sequencing for finding de novo mutations in sporadic mental retardation , 2010, Genome Biology.
[24] Li Li,et al. Validation of housekeeping genes as internal controls for studying gene expression during Pacific oyster (Crassostrea gigas) development by quantitative real-time PCR. , 2013, Fish & shellfish immunology.
[25] Dave T. Gerrard,et al. Gene expression divergence recapitulates the developmental hourglass model , 2010, Nature.
[26] D. Duboule. Temporal colinearity and the phylotypic progression: a basis for the stability of a vertebrate Bauplan and the evolution of morphologies through heterochrony. , 1994, Development (Cambridge, England). Supplement.
[27] Itai Yanai,et al. Developmental milestones punctuate gene expression in the Caenorhabditis embryo. , 2012, Developmental cell.
[28] Victoria Svinti,et al. New approaches for unravelling reassortment pathways , 2013, BMC Evolutionary Biology.
[29] Tomislav Domazet-Loso,et al. A phylostratigraphy approach to uncover the genomic history of major adaptations in metazoan lineages. , 2007, Trends in genetics : TIG.
[30] C. Dunn,et al. Animal Evolution: Are Phyla Real? , 2016, Current Biology.
[31] Julio A. Rozas Liras,et al. DnaSP v 5 : a software for comprehensive analysis of DNA polymorphism data , 2009 .
[32] Qiang Wang,et al. The oyster genome reveals stress adaptation and complexity of shell formation , 2012, Nature.
[33] C. Nielsen. Life cycle evolution: was the eumetazoan ancestor a holopelagic, planktotrophic gastraea? , 2013, BMC Evolutionary Biology.
[34] I. Grosse,et al. Evidence for Active Maintenance of Phylotranscriptomic Hourglass Patterns in Animal and Plant Embryogenesis , 2015, Molecular biology and evolution.
[35] Innes C Cuthill,et al. The influence of a hot environment on parental cooperation of a ground-nesting shorebird, the Kentish plover Charadrius alexandrinus , 2010, Frontiers in Zoology.
[36] W. J. Kent,et al. BLAT--the BLAST-like alignment tool. , 2002, Genome research.
[37] M. Long,et al. New genes important for development , 2014, EMBO reports.
[38] Leon Anavy,et al. The mid-developmental transition and the evolution of animal body plans , 2016, Nature.
[39] Trey Ideker,et al. Cytoscape 2.8: new features for data integration and network visualization , 2010, Bioinform..
[40] D. Zaykin,et al. Optimally weighted Z‐test is a powerful method for combining probabilities in meta‐analysis , 2011, Journal of evolutionary biology.
[41] Colin N. Dewey,et al. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome , 2011, BMC Bioinformatics.
[42] Thorsten Henrich,et al. The normal development of Platynereis dumerilii (Nereididae, Annelida) , 2010, Frontiers in Zoology.
[43] C. Arenas-Mena. Indirect development, transdifferentiation and the macroregulatory evolution of metazoans , 2010, Philosophical Transactions of the Royal Society B: Biological Sciences.
[44] Naoki Irie,et al. Comparative transcriptome analysis reveals vertebrate phylotypic period during organogenesis , 2011, Nature communications.
[45] G. Giribet,et al. Animal Phylogeny and Its Evolutionary Implications , 2014 .
[46] N. Friedman,et al. Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data , 2011, Nature Biotechnology.
[47] Pablo Librado,et al. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data , 2009, Bioinform..
[48] I. Grosse,et al. Capturing Evolutionary Signatures in Transcriptomes with myTAI , 2016, bioRxiv.
[49] X. Fang,et al. Identification of Conserved and Novel MicroRNAs in the Pacific Oyster Crassostrea gigas by Deep Sequencing , 2014, PloS one.
[50] Steven L Salzberg,et al. Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.
[51] Jianzhi Zhang,et al. Evaluating Phylostratigraphic Evidence for Widespread De Novo Gene Birth in Genome Evolution. , 2016, Molecular biology and evolution.
[52] D. Tautz,et al. No Evidence for Phylostratigraphic Bias Impacting Inferences on Patterns of Gene Emergence and Evolution , 2016, bioRxiv.
[53] T. Seki. Biological studies on the seed production of the northern Japanese abalone, Haliotis discus Hannai Ino , 1997 .
[54] P. Holland,et al. Reinforcing the Egg-Timer: Recruitment of Novel Lophotrochozoa Homeobox Genes to Early and Late Development in the Pacific Oyster , 2015, Genome biology and evolution.
[55] L. Page. Molluscan Larvae: Pelagic Juveniles or Slowly Metamorphosing Larvae? , 2009, The Biological Bulletin.