A molecular atlas of the developing ectoderm defines neural, neural crest, placode, and nonneural progenitor identity in vertebrates
Publication Date
October 19, 2017
Authors
Jean Louis Plouhinec, Sofía Medina Ruiz, Caroline Borday, Elsa Bernard, et al
Volume
15
Issue
10
Pages
e2004045
DOI
https://dx.plos.org/10.1371/journal.pbio.2004045
Publisher URL
http://journals.plos.org/plosbiology/article?id=10.1371%2Fjournal.pbio.2004045
Scopus
85032792849
Mendeley
http://www.mendeley.com/research/molecular-atlas-developing-ectoderm-defines-neural-neural-crest-placode-nonneural-progenitor-identit
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Mendeley | Further Information

{"title"=>"A molecular atlas of the developing ectoderm defines neural, neural crest, placode, and nonneural progenitor identity in vertebrates", "type"=>"journal", "authors"=>[{"first_name"=>"Jean Louis", "last_name"=>"Plouhinec", "scopus_author_id"=>"6507321408"}, {"first_name"=>"Sofía", "last_name"=>"Medina-Ruiz", "scopus_author_id"=>"18042507700"}, {"first_name"=>"Caroline", "last_name"=>"Borday", "scopus_author_id"=>"8060031100"}, {"first_name"=>"Elsa", "last_name"=>"Bernard", "scopus_author_id"=>"56355314600"}, {"first_name"=>"Jean Philippe", "last_name"=>"Vert", "scopus_author_id"=>"6603053445"}, {"first_name"=>"Michael B.", "last_name"=>"Eisen", "scopus_author_id"=>"7004331829"}, {"first_name"=>"Richard M.", "last_name"=>"Harland", "scopus_author_id"=>"7103070907"}, {"first_name"=>"Anne H.", "last_name"=>"Monsoro-Burq", "scopus_author_id"=>"6603641286"}], "year"=>2017, "source"=>"PLoS Biology", "identifiers"=>{"pui"=>"619032459", "pmid"=>"29049289", "doi"=>"10.1371/journal.pbio.2004045", "issn"=>"15457885", "scopus"=>"2-s2.0-85032792849", "sgr"=>"85032792849", "isbn"=>"1111111111"}, "id"=>"2e9e3427-a7b2-315a-ae31-f4441fe0aebd", "abstract"=>"During vertebrate neurulation, the embryonic ectoderm is patterned into lineage progenitors for neural plate, neural crest, placodes and epidermis. Here, we use Xenopus laevis embryos to analyze the spatial and temporal transcriptome of distinct ectodermal domains in the course of neurulation, during the establishment of cell lineages. In order to define the transcriptome of small groups of cells from a single germ layer and to retain spatial information, dorsal and ventral ectoderm was subdivided along the anterior-posterior and medial-lateral axes by microdissections. Principal component analysis on the transcriptomes of these ectoderm fragments primarily identifies embryonic axes and temporal dynamics. This provides a genetic code to define positional information of any ectoderm sample along the anterior-posterior and dorsal-ventral axes directly from its transcriptome. In parallel, we use nonnegative matrix factorization to predict enhanced gene expression maps onto early and mid-neurula embryos, and specific signatures for each ectoderm area. The clustering of spatial and temporal datasets allowed detection of multiple biologically relevant groups (e.g., Wnt signaling, neural crest development, sensory placode specification, ciliogenesis, germ layer specification). We provide an interactive network interface, EctoMap, for exploring synexpression relationships among genes expressed in the neurula, and suggest several strategies to use this comprehensive dataset to address questions in developmental biology as well as stem cell or cancer research.", "link"=>"http://www.mendeley.com/research/molecular-atlas-developing-ectoderm-defines-neural-neural-crest-placode-nonneural-progenitor-identit", "reader_count"=>41, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>5, "Student > Doctoral Student"=>1, "Researcher"=>11, "Student > Ph. D. Student"=>8, "Student > Postgraduate"=>1, "Student > Master"=>1, "Student > Bachelor"=>7, "Professor"=>5, "Unspecified"=>2}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>5, "Student > Doctoral Student"=>1, "Researcher"=>11, "Student > Ph. D. Student"=>8, "Student > Postgraduate"=>1, "Student > Master"=>1, "Student > Bachelor"=>7, "Professor"=>5, "Unspecified"=>2}, "reader_count_by_subject_area"=>{"Unspecified"=>3, "Engineering"=>2, "Biochemistry, Genetics and Molecular Biology"=>14, "Agricultural and Biological Sciences"=>17, "Arts and Humanities"=>1, "Neuroscience"=>2, "Sports and Recreations"=>1, "Computer Science"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>2}, "Neuroscience"=>{"Neuroscience"=>2}, "Sports and Recreations"=>{"Sports and Recreations"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>17}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>14}, "Unspecified"=>{"Unspecified"=>3}, "Arts and Humanities"=>{"Arts and Humanities"=>1}}, "group_count"=>1}

Scopus | Further Information

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