Echinoderms Part B, Vol 151. Methods in Cell Biology

  • ID: 4659887
  • Book
  • 548 Pages
  • Elsevier Science and Technology
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Echinoderms, Volume 151, the latest release in the Methods in Cell Biology series, highlights advances in the field, with this update presenting chapters on Echinoderm Genome Databases, analysis of gene regulatory networks, using ATAC-seq and RNA-seq to increase resolution in GRN connectivity, multiplex cis-regulatory analysis, experimental approaches GRN/signal pathways, BACs, analysis of chromatin accessibility using ATAC-seq, analysis of sea urchin proteins /Click IT, CRISPR/Cas9-mediated genome editing in sea urchins, super-resolution and in toto imaging of echinoderm embryos, and methods for analysis of intracellular ion signals in sperm, eggs and embryos.

  • Presents clear, concise protocols provided by experts who have established the echinoderms as a model systems
  • Highlights new advances in the field, with this update presenting interesting chapters on echinoderms
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- Fertilization

When sperm meets egg-Fifty years of surprises

David Epel

Early and later studies on action potential and fertilization potential of echinoderm oocytes and Ca2+ response of mammalian oocytes

Shunichi Miyazaki

My research career on (mainly) sea urchins

Victor D. Vacquier

- Cytokenesis and Embryology

Echinoderm eggs as a model for discoveries in cell biology

David R. Burgess

Unlocking mechanisms of development through advances in tools

David McClay

From hemoglobin to urchin spicules

Fred Wilt

- Genomics and Morphogenesis

The causes of things

Robert D. Burke

A personal history of the echinoderm genome sequencing

R. Andrew Cameron

Section 1
Methods for genome and transcriptome analysis

- Genomic resources for the study of echinoderm development and evolution

Gregory A. Cary, R. Andrew Cameron and Veronica F. Hinman

- Methods for the experimental and computational analysis of gene regulatory networks in sea urchins

Isabelle S. Peter

- Using ATAC-seq and RNA-seq to increase resolution in GRN connectivity

Elijah K. Lowe, Claudia Cuomo, Danila Voronov and Maria I. Arnone

- Identifying gene expression from single cells to single genes

Nathalie Oulhen, Stephany Foster, Greg Wray and Gary Wessel

- Multiplex cis-regulatory analysis

Jongmin Nam

- Whole mount in situ hybridization techniques for analysis of the spatial distribution of mRNAs in sea urchin embryos and early larvae

Eric M. Erkenbrack, Jenifer C. Croce, Esther Miranda, Sujan Gautam, Marina Martinez-Bartolome, Shunsuke Yaguchi and Ryan C. Range

- Techniques for analyzing gene expression using BAC-based reporter constructs

Katherine M. Buckley and Charles A. Ettensohn

- Genome-wide analysis of chromatin accessibility using ATAC-seq

Tanvi Shashikant and Charles A. Ettensohn

Section 2
Genome-editing and proteomics

- Expression of exogenous mRNAs to study gene function in echinoderm embryos

Maria Dolores Molina, Christian Gache and Thierry Lepagef

- Trapping, tagging and tracking: Tools for the study of proteins during early development of the sea urchin

Michelle M. Roux-Osovitz, Kathy R. Foltz, Nathalie Oulhen and Gary Wessel

- CRISPR/Cas9-mediated genome editing in sea urchins

Che-Yi Lin, Nathalie Oulhen, Gary Wessel and Yi-Hsien Su

- Analysis of microRNA functions

Carolyn Remsburg, Kalin Konrad, Nina Faye Sampilo and Jia L. Song

- In vivo analysis of protein translation activity in sea urchin eggs and embryos

Héloïse Chassé, Sandrine Boulben, Virginie Glippa, Florian Pontheaux, Patrick Cormier and Julia Morales

- Generation, expression and utilization of single-domain antibodies for in vivo protein localization and manipulation in sea urchin embryos

Catherine S. Schrankel, Tufan Gökirmak, Chang-Wook Lee, Geoffrey Chang and Amro Hamdoun

Section 3
Imaging of echinoderm embryos

- Live-cell fluorescence imaging of echinoderm embryos

Silvia P. Sepúlveda-Ramírez, Leslie Toledo-Jacobo, Chelsea Garno, Debadrita Pal, Clara Ross, Andrea Ellis and Charles B. Shuster

- 3D + time imaging of normal and twin sea urchin embryos for the reconstruction of their cell lineage

Antonio Ortiz, Elena Kardash and Nadine Peyriéras

- High resolution imaging of the cortex isolated from sea urchin eggs and embryos

J.H. Henson, Bakary Samasa and E.C. Burg

- Spatially mapping gene expression in sea urchin primary mesenchyme cells

Daniel T. Zuch and Cynthia A. Bradham

Section 4
Methods for measurement of intracellular signals in eggs, sperm and embryos

- Probing Ca2+ release mechanisms using sea urchin egg homogenates

Yu Yuan, Gihan S. Gunaratne, Jonathan S. Marchant and Sandip Patel

- Measuring voltage and ion concentrations in live embryos

Nahomie Rodriguez-Sastre, Christopher F. Thomas and Cynthia A. Bradham

- Analysis of sperm chemotaxis

Héctor Vicente Ramírez-Gómez, Idán Tuval, Adán Guerrero and Alberto Darszon

- Kinetic and photonic techniques to study chemotactic signaling in sea urchin sperm

Hussein Hamzeh, Luis Alvarez, Timo Strünker, Michelina Kierzek, Christoph Brenker, Parker E. Deal, Evan W. Miller, Reinhard Seifert and U. Benjamin Kaupp

- Analysis of neural activity with fluorescent protein biosensors

Robert D. Burke and Shunsuke Yaguchi
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