Veronica F. Hinman-Department of Biological Sciences - Carnegie Mellon University

Veronica F. Hinman

Associate Professor

Address:
634A Mellon Institute
Department of Biological Sciences
Carnegie Mellon University
4400 Fifth Avenue
Pittsburgh, PA 15213
Phone: 412-268-9348
Fax: 412-268-7129

Education

Ph.D., University of Queensland, Australia
Postdoctoral Appointment, California Institute of Technology

Research

tbrain functionThe research interests and experience within this laboratory falls into the area broadly defined as evolution of developmental mechanisms. Our particular approach for understanding conserved and divergent properties of animal development is to compare architectural organization of gene regulatory networks (GRNs). GRN models consider not only the expression domains and function of many regulatory genes (mostly transcription factors), but importantly their inter-relationships. The construction of GRNs involves the use of cutting edge embryological and molecular biological technologies to study gene expression and to undertake gene perturbation, gene transfer and cis -regulatory analyses. Since our work is comparative these techniques must often be adapted for use in non-model organisms. The relationships between regulatory genes are portrayed as a network diagrams.

We use a variety of marine invertebrates, particularly echinoderms, for our research. This is due largely to the fact that the most extensive GRN currently exists for the sea urchin embryo (see http://sugp.caltech.edu/endomes/) and the starfish has been shown to be an excellent comparative model. Also marine invertebrates represent the largest morphological diversity on the planet and present a wealth of opportunity to explore the association between development, phenotype and evolution.

We use a comparative GRN method to answer questions such as:

  1. What are conserved features of GRNs? These may be particular relationships of orthologous genes that can explain the preservation of phylotypic characters or may even represent developmental phenomena more widespread among the metazoa that are thus crucial for understanding animal development.
  2. How does the architecture of GRNs diverge with morphological differences in development and how did these architectural changes arise in evolution?
  3. What are the similarities and differences that underlie the GRN of two independently evolving taxa that converge upon the same morphological outcome?
  4. What is the cis -regulatory organization that underlies GRN structure and how has the cis regulatory logic evolved in conjunction with network architecture evolution? 

Sea Urchin

Publications

Cheatle Jarvela AM, Hinman V. A Method for Microinjection of Patiria minata Zygotes. J Vis Exp. 2014 Sep 1;(91).

Cheatle Jarvela AM, Brubaker L, Vedenko A, Gupta A, Armitage BA, Bulyk ML, Hinman VF. Modular Evolution of DNA-Binding Preference of a Tbrain Transcription Factor Provides a Mechanism for Modifying Gene Regulatory Networks. Mol Biol Evol. 2014 Jul 12

Hinman VF, Cheatle Jarvela AM. Developmental gene regulatory network evolution: insights from comparative studies in echinoderms. Genesis. 2014 Mar;52(3):193-207.

McCauley BS, Akyar E, Filliger LZ, Hinman VF. Expression of Wnt and Frizzled genes in the embryos of the sea star Patiria miniata. (in press).

Yankura KA, Koechlein CS, Cryan AF, Cheatle A, Hinman VF. Gene regulatory network for neurogenesis in a sea star embryo connects broad neural specification and localized patterning. Proc Natl Acad Sci U S A. 2013 May 6.

Le HS, Schulz M, McCauley BM, Hinman VF, Bar-Joseph Z. Probabilistic error correction for RNA sequencing. Nucleic Acids Research, 2013 April 4.

McCauley BS, Wright EP, Exner C, Kitazawa C, Hinman VF. Development of an embryonic skeletogenic mesenchyme lineage in a sea cucumber reveals the trajectory of change for the evolution of novel structures in echinoderms. Evodevo. 2012 Aug 9;3(1):17. doi: 10.1186/2041-9139-3-17.

Kadri S, Hinman VF, Benos PV. RNA deep sequencing reveals differential microRNA expression during development of sea urchin and sea star. PLoS One. 2011;6(12):e29217. doi: 10.1371/journal.pone.0029217. Epub 2011 Dec 28.

Yankura KA, Martik ML, Jennings CK, Hinman VF. Uncoupling of complex regulatory patterning during evolution of larval development in echinoderms. BMC Biol. 8:143, 2010 Nov 30. See commentary:BMC Biology 2011, 9:6;F1000 review.

McCauley BS, Weideman EP, Hinman VF. A conserved gene regulatory network subcircuit drives different developmental fates in the vegetal pole of highly divergent echinoderm embryos. Dev Biol. 340(2):200-8, 2010 Apr 15. Epub 2009 Nov 23.

Kadri S, Hinman V, Benos PV. HHMMiR: Efficient de novo prediction of microRNAs using hierarchical hidden Markov models. BMC Bioinformatics;10 Suppl 1:S35, 2009 Jan 30.

Hinman VF, Yankura KA, McCauley BS. Evolution of gene regulatory network architectures: Examples of subcircuit conservation and plasticity between classes of echinoderms. Biochim Biophys Acta.1789(4):326-32, 2009.

Hinman VF and Davidson EH. Evolutionary plasticity of developmental gene regulatory network architecture. Proceedings National Academy of Sciences (USA); 104(49):19404-9, 2007.

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