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NEW for June 2009

  • Targeted single-cell electroporation of mammalian neurons in vivo

Many of our protocols include movies showing examples of results obtained or how to carry out a part of the protocol. The below movies include some that may be of wider interest to users of the site than the specific protocol to which they are associated, they are grouped by category:

Biochemistry and Protein analysis

Movie: SAFA Tutorial – Loading
Movie: SAFA Tutorial – Lanes
Movie: SAFA Tutorial – Align
Movie: SAFA Tutorial – Quantification
Movie: SAFA Tutorial – Fitting
Movie: SAFA Tutorial – Normalization
From Semiautomated and rapid quantification of nucleic acid footprinting and structure mapping experiments by Alain Laederdach et al. Nature Protocols 3, 1395 - 1401 (2008) doi:10.1038/nprot.2008.134

Cell and Developmental Biology

Movie: Dissection of late pupae for live imaging
From Live imaging of epidermal morphogenesis during the development of the adult abdominal epidermis of Drosophila by Nikolay Ninov and Enrique Martín-Blanco Nature Protocols 2, 3074 - 3080 (2007) doi:10.1038/nprot.2007.417

Movie: Isolation of the nucleus from the oocytes of Xenopus laevis
From A protocol for isolating Xenopus oocyte nuclear envelope for visualization and characterization by scanning electron microscopy (SEM) or transmission electron microscopy (TEM) by Terry Allen et al. Nature Protocols 2, 1166 - 1172 (2007) doi:10.1038/nprot.2007.137

Cell and tissue culture

Movie: Preparation of the culture plates
Movie: Preparation of dissection hood and tools
Movie: Hippocampal slices preparation
Movie: Slice transfer to culture dishes
Movie: Slice transfer for imaging experiment
All from Preparation of organotypic hippocampal slice cultures: interface method by Anna De Simoni and Lily MY Yu, Nature Protocols 1, 1439 - 1445 (2006) doi:10.1038/nprot.2006.228

Computational and Theoretical biology

Movie: SAFA Tutorial – Loading
Movie: SAFA Tutorial – Lanes
Movie: SAFA Tutorial – Align
Movie: SAFA Tutorial – Quantification
Movie: SAFA Tutorial – Fitting
Movie: SAFA Tutorial – Normalization
From Semiautomated and rapid quantification of nucleic acid footprinting and structure mapping experiments by Alain Laederdach et al. Nature Protocols 3, 1395 - 1401 (2008) doi:10.1038/nprot.2008.134

Genetic modification

Movie: Opening the egg and yolk collection
Movie: Peeling the vitelline membrane from the yolk.
Movie: Trimming and cleaning the membrane.
Movie: Explanting a young embryo from the yolk
Movie: Freeing the young embryo from the yolk
Movie: Freeing an older embryo from the membrane.
Movie: The electroporation chamber and electroporation
Movie: Finishing the New culture
All from Spatially and temporally controlled electroporation of early chick embryos by Octavian Voiculescu et al., Nature Protocols 3, 419 - 426 (2008) doi:10.1038/nprot.2008.10

Movie: Performing transgenesis in a fish embryo.
From Transgenesis in fish: efficient selection of transgenic fish by co-injection with a fluorescent reporter construct by Martina Rembold et al. Nature Protocols 1, 1133 - 1139 (2006) doi:10.1038/nprot.2006.165

Movie: How to remove nuclear material from a mouse oocyte.
Movie: How to transfer nuclear material into a mouse ooycte.
Both from Production of cloned mice by somatic cell nuclear transfer by Satoshi Kishigami et al. Nature Protocols 1, 125 - 138 (2006) doi:10.1038/nprot.2006.21

Movie: Mouse piezo intracytoplasmic sperm injection
From Piezo-actuated mouse intracytoplasmic sperm injection (ICSI) by Naoko Yoshida and Anthony CF Perry, Nature Protocols 2, 296 - 304 (2007) doi:10.1038/nprot.2007.7

Movie: Transfection of schizonts of P. berghei using the Amaxa Nucleofector device and injection of transfected schizonts into a mouse.
From High-efficiency transfection and drug selection of genetically transformed blood stages of the rodent malaria parasite Plasmodium berghei by Chris J Janse et al. Nature Protocols 1, 346 - 356 (2006) doi:10.1038/nprot.2006.53

Movie: How to fill an injection needle for Xenopus laevis transgenesis via sperm nuclear injection.
Movie: How to perform sperm nuclear injection in Xenopus laevis.
Both from Xenopus laevis transgenesis by sperm nuclear injection by Stuart J Smith et al. Nature Protocols 1, 2195 - 2203 (2006) doi:10.1038/nprot.2006.325

Imaging

Movie: Dissection of late pupae for live imaging
From Live imaging of epidermal morphogenesis during the development of the adult abdominal epidermis of Drosophila by Nikolay Ninov and Enrique Martín-Blanco Nature Protocols 2, 3074 - 3080 (2007)

Movie: Slice transfer for imaging experiment
From Preparation of organotypic hippocampal slice cultures: interface method by Anna De Simoni and Lily MY Yu, Nature Protocols 1, 1439 - 1445 (2006) doi:10.1038/nprot.2006.228

Isolation, purification and separation

Movie: Dissection of embryonic forebrain septa.
From Purification and culture of nerve growth factor receptor (p75)-expressing basal forebrain cholinergic neurons by Aletta C Schnitzler et al. Nature Protocols 3, 34 - 40 (2008)

Movie: Purification of cultured, mature schizonts of P. berghei by Nycodenz density-gradient centrifugation.
From High-efficiency transfection and drug selection of genetically transformed blood stages of the rodent malaria parasite Plasmodium berghei by Chris J Janse et al. Nature Protocols 1, 346 - 356 (2006) doi:10.1038/nprot.2006.53

Movie: Isolation of the nucleus from the oocytes of Xenopus laevis
From A protocol for isolating Xenopus oocyte nuclear envelope for visualization and characterization by scanning electron microscopy (SEM) or transmission electron microscopy (TEM) by Terry Allen et al. Nature Protocols 2, 1166 - 1172 (2007) doi:10.1038/nprot.2007.137

Microbiology and Virology

Movie: Purification of cultured, mature schizonts of P. berghei by Nycodenz density-gradient centrifugation.
Movie: Transfection of schizonts of P. berghei using the Amaxa Nucleofector device and injection of transfected schizonts into a mouse.
Both from High-efficiency transfection and drug selection of genetically transformed blood stages of the rodent malaria parasite Plasmodium berghei by Chris J Janse et al. Nature Protocols 1, 346 - 356 (2006) doi:10.1038/nprot.2006.53

Model organisms

Chicken
Movie: Opening the egg and yolk collection
Movie: Peeling the vitelline membrane from the yolk.
Movie: Trimming and cleaning the membrane.
Movie: Explanting a young embryo from the yolk
Movie: Freeing the young embryo from the yolk
Movie: Freeing an older embryo from the membrane.
Movie: The electroporation chamber and electroporation
Movie: Finishing the New culture
All from Spatially and temporally controlled electroporation of early chick embryos by Octavian Voiculescu et al., Nature Protocols 3, 419 - 426 (2008) doi:10.1038/nprot.2008.10

Drosophila
Movie: Dissection of late pupae for live imaging
From Live imaging of epidermal morphogenesis during the development of the adult abdominal epidermis of Drosophila by Nikolay Ninov and Enrique Martín-Blanco Nature Protocols 2, 3074 - 3080 (2007)

Fish
Movie: Performing transgenesis in a fish embryo.
From Transgenesis in fish: efficient selection of transgenic fish by co-injection with a fluorescent reporter construct by Martina Rembold et al. Nature Protocols 1, 1133 - 1139 (2006)

Mouse
Movie: Single-cell electroporation guided by shadowimaging.
Movie: Successive electroporation of multiple neurons in a defined spatial pattern.
From Targeted single-cell electroporation of mammalian neurons in vivo by Benjamin Judkewitz et al., Nature Protocols 4, 862 - 869 (2009) doi:10.1038/nprot.2009.56

Movie: Dissection of embryonic forebrain septa.
From Purification and culture of nerve growth factor receptor (p75)-expressing basal forebrain cholinergic neurons by Aletta C Schnitzler et al. Nature Protocols 3, 34 - 40 (2008)

Movie: How to remove nuclear material from a mouse oocyte.
Movie: How to transfer nuclear material into a mouse ooycte.
Both from Production of cloned mice by somatic cell nuclear transfer by Satoshi Kishigami et al. Nature Protocols 1, 125 - 138 (2006) doi:10.1038/nprot.2006.21

Movie: Purification of cultured, mature schizonts of P. berghei by Nycodenz density-gradient centrifugation.
Movie: Transfection of schizonts of P. berghei using the Amaxa Nucleofector device and injection of transfected schizonts into a mouse.
Both from High-efficiency transfection and drug selection of genetically transformed blood stages of the rodent malaria parasite Plasmodium berghei by Chris J Janse et al. Nature Protocols 1, 346 - 356 (2006) doi:10.1038/nprot.2006.53

Xenopus
Movie: How to fill an injection needle for Xenopus laevis transgenesis via sperm nuclear injection.
Movie: How to perform sperm nuclear injection in Xenopus laevis.
Both from Xenopus laevis transgenesis by sperm nuclear injection by Stuart J Smith et al. Nature Protocols 1, 2195 - 2203 (2006) doi:10.1038/nprot.2006.325

Nucleic Acid based Molecular Biology

Movie: Demonstration of Sample pooling round 1 (generation of 84 Pools) and round 2 (generation of 12 Superpools) procedures.
From A PCR-based high-throughput screen with multiround sample pooling: application to somatic cell gene targeting by Hiroyuki Konishi et al., Nature Protocols 2, 2865 - 2874 (2007) doi:10.1038/nprot.2006.409

Neuroscience

Movie: Single-cell electroporation guided by shadowimaging.
Movie: Successive electroporation of multiple neurons in a defined spatial pattern.
From Targeted single-cell electroporation of mammalian neurons in vivo by Benjamin Judkewitz et al., Nature Protocols 4, 862 - 869 (2009) doi:10.1038/nprot.2009.56

Movie: Preparation of the culture plates
Movie: Preparation of dissection hood and tools
Movie: Hippocampal slices preparation
Movie: Slice transfer to culture dishes
Movie: Slice transfer for imaging experiment
All from Preparation of organotypic hippocampal slice cultures: interface method by Anna De Simoni and Lily MY Yu, Nature Protocols 1, 1439 - 1445 (2006) doi:10.1038/nprot.2006.228

Movie: Simultaneous recording from a pair of L5 pyramidal neurons.
From Paired-recordings from synaptically coupled cortical and hippocampal neurons in acute and cultured brain slices by Dominique Debanne et al. Nature Protocols 3, 1559 - 1568 (2008) doi:10.1038/nprot.2008.147

Pharmacology and toxicology

Movie: Parafilm method for setting up the incubation of proteins onto a microarray of small-molecules.
Movie: Printing small molecules in a microarray format.
Both from A method for the covalent capture and screening of diverse small molecules in a microarray format by James E. Bradner et al. Nature Protocols 1, 2344 - 2352 (2006) doi:10.1038/nprot.2006.282

Plant Biology

Movie: Preparation of root meristem squashes.
From BAC 'landing' on chromosomes of Brachypodium distachyon for comparative genome alignment by Glyn Jenkins and Robert Hasterok, Nature Protocols 2, 88 - 98 (2007) doi:10.1038/nprot.2006.490

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