1. Before Performing Surgery, Be Aware That There Are Legal and Ethical Requirements Around the Use of Animals in Research and Teaching
<ol>
	<li>All surgical procedures must be approved by the local ethical or legal authority ( IACUC or Ethics committee or Home Office, etc.).</li>
	<li>Make sure this approval is in place before beginning.</li>
	<li>If there is any question of approval for surgery or approval for the use of animals, do not proceed.</li>
</ol>
2. Understanding Aseptic Technique<ol>
	<li>Sterility as a concept
	<ol>
		<li>The goal of aseptic technique is to reduce or eliminate where possible the normal bacterial burden present on the animal and in the environment before beginning surgery. This means that instruments are sterilized, the surgical working surface is disinfected, and the animal and the surgeon's hands are disinfected.</li>
		<li>Surgery, performed properly, does not need prophylactic antibiotics or any other treatments, other than pain relief.</li>
		<li>Even with excellent aseptic technique, bacteria originating from the surgical subject may still be introduced into a surgically-created wound. Proper aseptic technique limits the risk of introduction of infectious agents, primarily bacteria, into surgical sites.</li>
	</ol>
	</li>
	<li>Sterile field
	<ol>
		<li>The sterile field encompasses the surgical area, the area prepared on the animal, and the front of the surgeon.</li>
	</ol>
	</li>
	<li>Breaks in sterility
	<ol>
		<li>Breaks in sterility occur when the surgeon touches something outside the sterile field. This may be her face, a light fixture, an unprepared area of the animal, or a non-sterile instrument.</li>
		<li>This is the reason prophylactic antibiotics may be used.</li>
		<li>Remember, a special activity is taking place. Be calm, thoughtful, and precise.</li>
	</ol>
	</li>
</ol>
3. Preparing for Surgery<ol>
	<li>Rodent surgery does not require a dedicated surgical suite. Ideally, surgeries should be conducted in a separate area within a lab, such as a hood or laminar flow cabinet. Regardless, the area chosen should be tidy, well-lit, and out of traffic flow. Rodent surgeries are often conducted on a laboratory benchtop. Before arranging the surgical area, clean the benchtop well with a disinfectant.</li>
	<li>It is helpful for the surgeon to have an assistant. This assistant can help with anesthesia, preparing animals, and monitoring recovery. This allows the surgeon to prepare themselves while the animals are prepared, thus shortening the animal's time under anesthesia, and perhaps allowing for more surgeries to be performed.</li>
	<li>Arrange the surgical area so that there are three distinct zones: preparation, surgery, and recovery.</li>
	<li>For the preparation area, assemble the supplies needed:
	<ol>
		<li>Lubricating ophthalmic ointment</li>
		<li>Clippers or razor</li>
		<li>Gauze</li>
		<li>Surgical scrub solutions
		<ol>
			<li>Surgical scrub solutions commonly used are iodophors or chlorhexidine/</li>
			<li>70% isopropyl alcohol is also used as part of the surgical scrub.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>For the surgical area, assemble and arrange the supplies needed.
	<ol>
		<li>Heat source for keeping the rodent warm
		<ol>
			<li>The ideal heat source is a recirculating water heating pad. Electrical heating pads are not acceptable for surgery. Surgical gloves filled with warm water, or chemical hand warmers may also be used. If either of the latter two are used, the temperature of the object must be carefully monitored during surgery.</li>
		</ol>
		</li>
		<li>Surgical platform
		<ol>
			<li>This may be a sterile waterproof pad placed over the heat source.</li>
		</ol>
		</li>
		<li>Disposable supplies
		<ol>
			<li>These may include: sterile surgical drapes, gauze, cotton applicators, fluids for administration to the rodent, tissue irrigation solution.</li>
		</ol>
		</li>
		<li>Sterile instruments
		<ol>
			<li>The complement of instruments will vary depending on the surgery, but generally include scalpels, tissue retractors, forceps, hemostats, and scissors.</li>
			<li>Instrument sterilizer or sterilizing solution if the same instruments are to be used on more than one surgical subject
			<ol>
				<li>The use of a hot bead sterilizer to sterilize instruments between animals is common.</li>
			</ol>
			</li>
		</ol>
		</li>
		<li>Material to close the surgical incision.
		<ol>
			<li>The materials used will depend on the surgical site and application but may include: Suture and needles, staples and a staple applicator, or tissue glue</li>
		</ol>
		</li>
		<li>Any other special equipment needed (stereotaxic apparatus, implants, operating microscope)</li>
	</ol>
	</li>
</ol>
4. Preparing the Instruments for Surgery<ol>
	<li>Instruments should be clean and sterile at the start of surgery. This is often accomplished by creating complete surgical packs that are autoclaved.</li>
	<li>Instruments may be used for more than one rodent surgery without autoclaving and repacking, but should be cleaned and sterilized between rodents.
	<ol>
		<li>If a hot bead sterilizer is used, be sure to allow time for the instruments to cool down after sterilization. Instruments may be cooled by dipping in sterile water.</li>
		<li>Chemical sterilants may also be used, but require a longer contact time (~10 minutes-could be 30-60 minutes, require rinsing). Alcohol is not a sterilant.</li>
	</ol>
	</li>
	<li>Arrange instruments on sterile waterproof drape in order in which they will be used.</li>
</ol>
5. Preparing the Animal for Surgery<ol>
	<li>The three things that are administered before surgery are anesthesia, analgesia, and antibiotics.
	<ol>
		<li>Anesthesia is necessary for surgery. Anesthetics may be administered via inhalation or injection.
		<ol>
			<li>Most common inhalant anesthetic in use is currently isoflurane.</li>
			<li>Most common injectable anesthetic used is a combination of ketamine and xylazine, possibly with another sedative added.</li>
			<li>Consult your facility veterinary staff for appropriate dosages.</li>
		</ol>
		</li>
		<li>Pre-emptive analgesics are recommended and should be administered before surgery begins.
		<ol>
			<li>Commonly used non-steroidal anti-inflammatories include flunixin and carprofen.</li>
			<li>Available opioids may include buprenorphine, morphine, or fentanyl.</li>
			<li>Consult your facility veterinary staff for appropriate dosages and routes of administration.</li>
		</ol>
		</li>
		<li>With properly conducted surgery, antibiotics are not generally needed, except for some high-risk gastrointestinal surgeries.
		<ol>
			<li>If antibiotics are used, used provide peri-operatively (before first incision).</li>
			<li>Consult your facility veterinary staff for appropriate antibiotics, dosages, and routes of administration.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>Surgical preparation of the incision site
	<ol>
		<li>Shave the incision site. Generally shave an area approximately 3 times the size of the proposed incision. The size of the shaved and prepared area may be limited by the size of the animal or area on the animal.</li>
		<li>The shaved area is disinfected using multiple applications of surgical scrub solution and isopropyl alcohol. Application is typically surgical scrub first, then alcohol. End with a final application of scrub solution.</li>
		<li>Surgical scrubbing is performed in a circular pattern, beginning in the center and spiraling outward, or on smaller animals, a unidirectional fashion.
		<ol>
			<li>If scrubbing unidirectionally, place sterile gauze at the crainial margin of the shaved area, covering the hair of the animal. Grasp and stabilize the animal gently through the sterile gauze. Apply scrub solution and alcohol unidirectionally away from the sterile gauze.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>Moving the animal to the surgical area
	<ol>
		<li>Move the animal with the prepared surgical site upward, and without contacting the prepared site.</li>
		<li>Position the animal on the surgical area so the surgical site is upward, facing the surgeon.</li>
	</ol>
	</li>
	<li>Draping the animal
	<ol>
		<li>If the animal is draped by the assistant, the assistant must remember that the exterior surface of the drape is considered part of the sterile field and must not be handled by the assistant. Draping is often left to the surgeon, and drape is included in the surgical pack.</li>
		<li>A standard waterproof disposable paper drape is generally recommended.</li>
	</ol>
	</li>
</ol>
6. Preparing the Surgeon for Surgery<ol>
	<li>Preparation of the surgeon should emphasize that a special activity will be taking place, one in which the surgeon must be cognizant of their every move in and out of the sterile field.</li>
	<li>The hair and face are generally covered by a cap and mask, respectively. These should be new at the start of the surgical session, but do not need to be changed between animals.</li>
	<li>Surgeons should wear a disposable surgical gown, clean disposable lab coat or at the least a clean lab coat. This does not need to be changed between animals, but should be changed between surgery sessions.</li>
	<li>Hands should be cleaned well before surgery. Surgical gloves or exam gloves should be used. If exam gloves are used, they should be washed with a surgical disinfectant before being used. Gloves should be changed between animals.</li>
</ol>
7. During the Surgery<ol>
	<li>Maintenance of the sterile field.
	<ol>
		<li>Once your hands are sterile and the operating field is sterile, you will have to move carefully and remember not to break sterility. This includes having a sterile field on which you may set down instruments, remembering not to scratch your nose, and only handing the surgical patient through the sterile drape.</li>
	</ol>
	</li>
	<li>Tissue handling
	<ol>
		<li>Handle tissues gently. Keep tissues moist, especially if surgery is prolonged. Minimize the creation of tissue pockets and unnecessary dissection.</li>
		<li>Proper tissue handling reduces opportunity and risk of post-op infections, speeds healing, and reduces post-operative pain.</li>
	</ol>
	</li>
	<li>Replace fluids lost
	<ol>
		<li>The usual routes of fluid administration in rodents are subcutaneous or intraperitoneal. Use small volumes for small animals-1-2 ml intraperitoneally for mice, for example.</li>
		<li>Warmed fluids may help prevent a drop in body temperature. Mouse and rat body temperature is higher than humans, so fluids must be warmer.</li>
	</ol>
	</li>
	<li>Maintain warmth
	<ol>
		<li>Placement of a heating pad below the animal during surgery and the cage during recovery is a standard way to maintain an animal's body temperature.
		<ol>
			<li>Careful with heating pads-use only those marked for surgery. Others may induce thermal injury.</li>
		</ol>
		</li>
		<li>Warmed fluids, given intraperitoneally, may also help warm animals.</li>
	</ol>
	</li>
	<li>Operating microscope-may facilitate some procedures (microvascular surgery, older surgeons, etc. Can also be achieved by use of magnifiers like loupes, etc.)</li>
</ol>
8. Post-operative Recovery Considerations<ol>
	<li>Animals should recover on a flat paper bedding (sterile paper towels, etc.) rather than standard animal husbandry bedding.</li>
	<li>Keep the animal warm. Warmth will aid in speedy recovery. This is often accomplished by placing the recovery cage half-on a heating pad so that animals may choose their preferred temperature as they recover.</li>
	<li>Do not return animals or cages to the animal holding area until all animals appear normal. Any animal that has had surgery must have regained the ability to right itself in the cage and be able to move about normally before being returned to the holding area.</li>
	<li>Monitor animals post-operatively for unexpected signs of illness or infection. Animals will generally lose a small amount of weight after surgery, but with proper analgesia and the provision of food, they should regain the weight quickly.</li>
</ol>
9. Post-operative Monitoring is the Final Part of Successful Surgery<ol>
	<li>For five to seven days after surgery, monitor the general condition of the animal.
	<ol>
		<li>Post-operatively, animals should be bright, alert, and active. They should be interacting normally with cagemates, eating and drinking, and able to achieve normal species-specific postures.</li>
		<li>Animals that are depressed, anorectic, or sluggish should be examined as to the cause of this change. Consider the possibility of untreated pain or infection.</li>
	</ol>
	</li>
	<li>Food/fluid intake is also important to recovery.
	<ol>
		<li>There will be some drop-off in consumption after surgery. This may be mitigated by making food and water easier to access.
		<ol>
			<li>Longer sipper tubes might be useful.</li>
			<li>Daily provision of wetted food in the bottom of the cage may also entice animals to eat.</li>
		</ol>
		</li>
		<li>Some analgesics in rats result in pica, so be aware that animals may eat inappropriate items (such as bedding) to injury.</li>
	</ol>
	</li>
	<li>Monitor animals for signs of infection at the incision. The danger period is the first 7 days and animals should be checked daily.
	<ol>
		<li>Signs of infection include redness, swelling, discharge (purulent or serous), pain, or the opening of the incision (dehiscence).</li>
	</ol>
	</li>
</ol>
10. After Your Surgery is Finished, the Final Step is Gauging Success of Your Surgery
<ol>
	<li>Was the model induced/part removed/functionality restored?</li>
	<li>Was there as little pain as possible?</li>
	<li>Was there no infection?</li>
	<li>Success!</li>
</ol>

<ol>
	<li>. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> American College of Laboratory Animal Medicine Position on Rodent Surgery. , .</li><li>. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> Animal Welfare, 9 CFR, Parts 1, 2, and 3. , .</li><li>Bradfield, J. F., Schachtman, T. R., McLaughlin, R. M., Steffen, E. K. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Behavioral+and+physiologic+effects+of+inapparent+wound+infection+in+rats.">Behavioral and physiologic effects of inapparent wound infection in rats.</a> Lab Anim Sci. 42, 572-578 (1992).</li><li>Brown, M. J., Pearson, P. T., Tomson, F. N. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Guidelines+for+animal+surgery+in+research+and+teaching.+AVMA+Panel+on+Animal+Surgery+in+Research+and+Teaching,+and+the+ASLAP+(American+Society+of+Laboratory+Animal+Practitioners).">Guidelines for animal surgery in research and teaching. AVMA Panel on Animal Surgery in Research and Teaching, and the ASLAP (American Society of Laboratory Animal Practitioners).</a> Am J Vet Res. 54, 1544-1559 (1993).</li><li>Brown, P. A., Hoogstraten-Miller, S., Reuter, J. D., Suckow, M. A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Principles+of+Aseptic+Rodent+Survival+Surgery:+Parts+I+&#38;+2.">Principles of Aseptic Rodent Survival Surgery: Parts I &#38; 2.</a> Laboratory Animal Medicine and Management. , (2004).</li><li>Institute of Laboratory Animal Resources, National Research Council. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> Guide for the Care and Use of Laboratory Animals. , 556-570 (1996).</li><li>Popp, M. B., Brennan, M. F. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Long-term+vascular+access+in+the+rat:+importance+of+asepsis.">Long-term vascular access in the rat: importance of asepsis.</a> Am J Physiol. 241, H606-H612 (1981).</li><li>Rutala, W. A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=APIC+guideline+for+selection+and+use+of+disinfectants.">APIC guideline for selection and use of disinfectants.</a> Am J Infect Control. 24, 313-342 (1996).</li></ol>

All authors work for Charles River, a major supplier of surgically-altered animals for research.

Experimental surgery on rodents is rarely carried out by veterinarians or physicians. Instead, it is often performed by biomedical researchers with little or no formal training in the principles of surgery and aseptic technique. In a research setting, surgery is typically learned from colleagues, themselves usually not formally trained either. Surgery performed in the research laboratory may also be viewed primarily as a method of preparing an animal model with the goal of generating a set of animals for a study. While any particular surgery is usually a matter of hand-eye coordination and technical skill, both of which can be acquired via practice, principles and skills associated with the concept of aseptic technique (and thus surgery without infection) cannot be acquired solely via practice and are often not fully conveyed to researchers. 
The absence of formal training in surgical principles can lead to a lack of understanding of the equal significance of both technically correct surgery and pre- and post-operative care of animals. Consideration of both the surgery itself and the peri-operative care of animals will result in an increase in animal welfare and the quality of data obtained from the surgical model. For example, subclinical post-surgical infection can confound results, as can changes in behavior and physiology seen with pain. As prey species, most rodents are surprisingly stoic and although suffering from post-surgical pain or infection may show few clinical signs. The subtle signs of pain or distress in rodents are further obscured by a general lack of training of biomedical researchers in recognition of such signs in rodents. Additionally, rodents are most active during the dark cycle, when staff are generally not available to view clinical and behavioral signs of pain following surgery. This video does not substitute for proper surgical training, which would ideally be both hands-on and provided by their institution, but is designed to give researchers an overview of common concerns and visual demonstration of accepted aseptic procedures and techniques required to develop a minimal competency in performance of survival surgery in rodents.

A correction to author list has been made for article Principles of Rodent Surgery for the New Surgeon.

Erratum: Principles of Rodent Surgery for the New Surgeon.

principles of rodent surgery for the new surgeon

For both scientific and animal welfare reasons, training in basic surgical concepts and techniques should be undertaken before ever seeking to perform surgery on a rodent. Students, post-doctoral scholars, and others interested in performing surgery on rodents as part of a research protocol may not have had formal surgical training as part of their required coursework. Surgery itself is a technical skill, and one that will improve with practice. The principles of aseptic technique, however, often remain unexplained or untaught. For most new surgeons, this vital information is presented in piecemeal fashion or learned on the job, neither of which is ideal. It may also make learning how to perform a particular surgery difficult, as the new surgeon is learning both a surgical technique and the principles of asepsis at the same time. This article summarizes and makes recommendations for basic surgical skills and techniques necessary for successful rodent surgery. This article is designed to supplement hands-on training by the user's institution.

Watch this Scientific Journal Video about Principles of Rodent Surgery for the New Surgeon at JoVE.com

Principles of Rodent Surgery for the New Surgeon

Before attempting surgery, a new surgeon should have training in basic surgical techniques and concepts. This article will present basic surgical considerations with an emphasis on rodents.

For both scientific and animal welfare reasons, training in basic surgical concepts and techniques should be undertaken before ever seeking to perform ...

principles-of-rodent-surgery-for-the-new-surgeon

Research

JoVE Journal

Biology

111.8K Views.  Research Models and Services. Before attempting surgery, a new surgeon should have training in basic surgical techniques and concepts. This article will present basic surgical considerations with an emphasis on rodents.

Video: Principles of Rodent Surgery for the New Surgeon

Ole Isacson: Development of New Therapies for Parkinson's Disease

Ole Isacson gives a concise overview of Parkinsons's disease, its causes, therapeutic strategies, and advances in Parkinson's research.

Principles of Site-Specific Recombinase (SSR) Technology

Site-specific recombinase (SSR) technology allows the manipulation of gene structure to explore gene function and has become an integral tool of molecular biology. Site-specific recombinases are proteins that bind to distinct DNA target sequences. The Cre/lox system was first described in bacteriophages during the 1980's. Cre recombinase is a Type I topoisomerase that catalyzes site-specific recombination of DNA between two loxP (locus of X-over P1) sites. The Cre/lox system does not require any cofactors. LoxP sequences contain distinct binding sites for Cre recombinases that surround a directional core sequence where recombination and rearrangement takes place. When cells contain loxP sites and express the Cre recombinase, a recombination event occurs. Double-stranded DNA is cut at both loxP sites by the Cre recombinase, rearranged, and ligated ("scissors and glue"). Products of the recombination event depend on the relative orientation of the asymmetric sequences.
SSR technology is frequently used as a tool to explore gene function. Here the gene of interest is flanked with Cre target sites loxP ("floxed"). Animals are then crossed with animals expressing the Cre recombinase under the control of a tissue-specific promoter. In tissues that express the Cre recombinase it binds to target sequences and excises the floxed gene. Controlled gene deletion allows the investigation of gene function in specific tissues and at distinct time points. Analysis of gene function employing SSR technology --- conditional mutagenesis -- has significant advantages over traditional knock-outs where gene deletion is frequently lethal.

Principles of Site-Specific Recombinase SSR Technology

The advent of site-specific recombinase (SSR) technology and the Cre/lox system has led to numerous advances in molecular biology, and has proven itself as a valuable tool for assessing gene function in transgenic animals. This interview discusses the mechanism of site specific recombination by Cyclization recombinase (Cre) and how the use of this enzyme has led to the development of conditional mutagenesis, which has significant advantages over traditional knock out strategies.

Site-specific recombinase (SSR) technology allows the manipulation of gene structure to explore gene function and has become an integral tool of molecular ...

Supported Planar Bilayers for the Formation of Study of Immunological Synapses and Kinapse

Supported planar bilayers are powerful tools that can be used to model the molecular interactions in an immunological synapse.   To mimic the interactions between lymphocytes and antigen presenting cells, we use Ni2+-chelating lipids to anchor recombinant cell adhesion and MHC proteins to the upper leaflet of a bilayer with poly-histidine tags. Planar bilayers are generated by preparing lipid, treating the glass surfaces where the bilayer will form, and then forming the bilayer in a specialized chamber containing a flow-cell where the lymphocytes will be added.  Then, bilayers are charged with Ni and his-tagged recombinant proteins are added.  Finally,  lymphocytes are injected into the flow cell and TIRF microscopy can be used to image synapse formation and the mechanisms that control T cell locomotion, sites of receptor sorting,  and sites of receptor degradation.

Supported planar bilayers are powerful tools that can be used to model the molecular interactions in an immunological synapse. Here, we show methods for anchoring cell adhesion proteins known to modulate synapse formation to the upper leaflet of the lipid bilyer and visualize synapse formation using TIRF microscopy.

Supported planar bilayers are powerful tools that can be used to model the molecular interactions in an immunological synapse.   To mimic the interactions ...

Preparation of embryos for Electron Microscopy of the Drosophila embryonic heart tube

The morphogenesis of the Drosophila embryonic heart tube has emerged as a valuable model system for studying cell migration, cell-cell adhesion and cell shape changes during embryonic development. One of the challenges faced in studying this structure is that the lumen of the heart tube, as well as the membrane features that are crucial to heart tube formation, are difficult to visualize in whole mount embryos, due to the small size of the heart tube and intra-lumenal space relative to the embryo. The use of transmission electron microscopy allows for higher magnification of these structures and gives the advantage of examining the embryos in cross section, which easily reveals the size and shape of the lumen. In this video, we detail the process for reliable fixation, embedding, and sectioning of late stage Drosophila embryos in order to visualize the heart tube lumen as well as important cellular structures including cell-cell junctions and the basement membrane.

Preparation of embryos for Electron Microscopy of the Drosophila embryonic heart tube

We describe a process for fixation, embedding, sectioning, and imaging of late stage Drosophila embryos for Trasmission Electron Microscopy of the embryonic heart tube. This technique allows for the visualization of the heart tube lumen as well as the basement membrane, which lines the lumen of the heart.

The morphogenesis of the Drosophila  embryonic heart tube has emerged as a valuable model system for studying cell migration, cell-cell adhesion and cell ...

The Method of Rodent Whole Embryo Culture using the Rotator-type Bottle Culture System

Whole embryo culture (WEC) technique has been developed in 1950's by New and his colleagues, and applied for developmental biology 1. Although development and growth of mammalian embryos are critically dependent on the function of the placenta, WEC technique allows us to culture mouse and rat embryos ex vivo condition during limited periods corresponding to midgestation stages during embryonic day (E) 6.5-E12.5 in the mouse or E8.5-E14.5 in the rat 2, 3, 4. In WEC, we can directly target desired areas of embryos using fine glass capillaries because embryos can be manipulated under the microscope. Therefore, rodent WEC is very useful technique when we want to study dynamic developmental processes of postimplanted mammalian embryos. Up to date, several types of WEC systems have been developed 1. Among those, the rotator-type bottle culture system is most popular and suitable for long-term culture of embryos at midgestation, i.e., after E9.5 and E11.5 in the mouse and rat, respectively 1. In this video protocol, we demonstrate our standard procedures of rat WEC after E12.5 using a refined model of the original rotator system, which was designed by New and Cockroft 5, 6, and introduce various applications of WEC technique for studies in mammalian developmental biology.

Whole embryo culture technique allows us to culture mouse and rat embryos ex vivo condition during limited periods corresponding to midgestation stages. In this video protocol, we demonstrate our standard procedures of rat whole embryo culture after E12.5 using the rotator-type bottle culture system.

Whole embryo culture (WEC) technique has been developed in 1950's by New and his colleagues, and applied for developmental biology 1. Although development ...

Modified Yeast-Two-Hybrid System to Identify Proteins Interacting with the Growth Factor Progranulin

Progranulin (PGRN), also known as granulin epithelin precursor (GEP), is a 593-amino-acid autocrine growth factor. PGRN is known to play a critical role in a variety of physiologic and disease processes, including early embryogenesis, wound healing 1, inflammation 2, 3, and host defense 4. PGRN also functions as a neurotrophic factor 5, and mutations in the PGRN gene resulting in partial loss of the PGRN protein cause frontotemporal dementia 6, 7. Our recent studies have led to the isolation of PGRN as an important regulator of cartilage development and degradation 8-11. Although PGRN, discovered nearly two decades ago, plays crucial roles in multiple physiological and pathological conditions, efforts to exploit the actions of PGRN and understand the mechanisms involved have been significantly hampered by our inability to identify its binding receptor(s). To address this issue, we developed a modified yeast two-hybrid (MY2H) approach based on the most commonly used GAL4 based 2-hybrid system. Compared with the conventional yeast two-hybrid screen, MY2H dramatically shortens the screen process and reduces the number of false positive clones. In addition, this approach is reproducible and reliable, and we have successfully employed this system in isolating the binding proteins of various baits, including ion channel 12, extracellular matrix protein 10, 13, and growth factor14. In this paper, we describe this MY2H experimental procedure in detail using PGRN as an example that led to the identification of TNFR2 as the first known PGRN-associated receptor 14, 15.

We have modified the conventional yeast two-hybrid screening, an effective genetic tool in identifying protein interaction. This modification markedly shortens the process, reduces the workload, and most importantly, reduces the number of false positives. In addition, this approach is reproducible and reliable.

Progranulin (PGRN), also known as granulin epithelin precursor (GEP), is a 593-amino-acid autocrine growth factor. PGRN is known to play a critical role ...

Using RNA-mediated Interference Feeding Strategy to Screen for Genes Involved in Body Size Regulation in the Nematode C. elegans

Double-strand RNA-mediated interference (RNAi) is an effective strategy to knock down target gene expression1-3. It has been applied to many model systems including plants, invertebrates and vertebrates. There are various methods to achieve RNAi in vivo4,5. For example, the target gene may be transformed into an RNAi vector, and then either permanently or transiently transformed into cell lines or primary cells to achieve gene knockdown effects; alternatively synthesized double-strand oligonucleotides from specific target genes (RNAi oligos) may be transiently transformed into cell lines or primary cells to silence target genes; or synthesized double-strand RNA molecules may be microinjected into an organism. Since the nematode C. elegans uses bacteria as a food source, feeding the animals with bacteria expressing double-strand RNA against target genes provides a viable strategy6. Here we present an RNAi feeding method to score body size phenotype. Body size in C. elegans is regulated primarily by the TGF- &beta; - like ligand DBL-1, so this assay is appropriate for identification of TGF-&beta; signaling components7. We used different strains including two RNAi hypersensitive strains to repeat the RNAi feeding experiments. Our results showed that rrf-3 strain gave us the best expected RNAi phenotype. The method is easy to perform, reproducible, and easily quantified. Furthermore, our protocol minimizes the use of specialized equipment, so it is suitable for smaller laboratories or those at predominantly undergraduate institutions.

Using RNA-mediated Interference Feeding Strategy to Screen for Genes Involved in Body Size Regulation in the Nematode C. elegans

We demonstrate how to use the RNAi feeding technique to knock down target genes and score body size phenotype in C. elegans. This method could be used for a large scale screen to identify potential genetic components of interest, such as those involved in body size regulation by DBL-1/TGF-&beta; signaling.

Double-strand RNA-mediated interference (RNAi) is an effective strategy to knock down target gene expression1-3. It has been applied to many model systems ...

The Use of Chemostats in Microbial Systems Biology

Cells regulate their rate of growth in response to signals from the external world. As the cell grows, diverse cellular processes must be coordinated including macromolecular synthesis, metabolism and ultimately, commitment to the cell division cycle. The chemostat, a method of experimentally controlling cell growth rate, provides a powerful means of systematically studying how growth rate impacts cellular processes - including gene expression and metabolism - and the regulatory networks that control the rate of cell growth. When maintained for hundreds of generations chemostats can be used to study adaptive evolution of microbes in environmental conditions that limit cell growth. We describe the principle of chemostat cultures, demonstrate their operation and provide examples of their various applications. Following a period of disuse after their introduction in the middle of the twentieth century, the convergence of genome-scale methodologies with a renewed interest in the regulation of cell growth and the molecular basis of adaptive evolution is stimulating a renaissance in the use of chemostats in biological research.

Cell growth rate is a regulated process and a primary determinant of cell physiology. Continuous culturing using chemostats enables extrinsic control of cell growth rate by nutrient limitation facilitating the study of molecular networks that control cell growth and how those networks evolve to optimize cell growth.

Cells regulate their rate of growth in response to signals from the external world. As the cell grows, diverse cellular processes must be coordinated ...

Intravital Microscopy of the Microcirculation in the Mouse Cremaster Muscle for the Analysis of Peripheral Stem Cell Migration

In the era of intravascular cell application protocols in the context of regenerative cell therapy, the underlying mechanisms of stem cell migration to nonmarrow tissue have not been completely clarified. We describe here the technique of intravital microscopy applied to the mouse cremaster microcirculation for analysis of peripheral bone marrow stem cell migration in vivo. Intravital microscopy of the M. cremaster has been previously introduced in the field of inflammatory research for direct observation of leucocyte interaction with the vascular endothelium. Since sufficient peripheral stem and progenitor cell migration includes similar initial steps of rolling along and firm adhesion at the endothelial lining it is conceivable to apply the M. cremaster model for the observation and quantification of the interaction of intravasculary administered stem cells with the endothelium. As various chemical components can be selectively applied to the target tissue by simple superfusion techniques, it is possible to establish essential microenvironmental preconditions, for initial stem cell recruitment to take place in a living organism outside the bone marrow.

Intravital microscopy of the mouse M. cremaster microcirculation offers a unique and well-standardized in vivo model for the analysis of peripheral bone marrow stem cell migration.

In the era of intravascular cell application protocols in the context of regenerative cell therapy, the underlying mechanisms of stem cell migration to ...

High-throughput Image Analysis of Tumor Spheroids: A User-friendly Software Application to Measure the Size of Spheroids Automatically and Accurately

The increasing number of applications of three-dimensional (3D) tumor spheroids as an in vitro model for drug discovery requires their adaptation to large-scale screening formats in every step of a drug screen, including large-scale image analysis. Currently there is no ready-to-use and free image analysis software to meet this large-scale format. Most existing methods involve manually drawing the length and width of the imaged 3D spheroids, which is a tedious and time-consuming process. This study presents a high-throughput image analysis software application &#8211; SpheroidSizer, which measures the major and minor axial length of the imaged 3D tumor spheroids automatically and accurately; calculates the volume of each individual 3D tumor spheroid; then outputs the results in two different forms in spreadsheets for easy manipulations in the subsequent data analysis. The main advantage of this software is its powerful image analysis application that is adapted for large numbers of images. It provides high-throughput computation and quality-control workflow. The estimated time to process 1,000 images is about 15 min&#160;on a minimally configured laptop, or around 1 min&#160;on a multi-core performance workstation. The graphical user interface (GUI) is also designed for easy quality control, and users can manually override the computer results. The key method used in this software is adapted from the active contour algorithm, also known as Snakes, which is especially suitable for images with uneven illumination and noisy background that often plagues automated imaging processing in high-throughput screens. The complimentary &#8220;Manual Initialize&#8221; and &#8220;Hand Draw&#8221; tools provide the flexibility to SpheroidSizer in dealing with various types of spheroids and diverse quality images. This high-throughput image analysis software remarkably reduces labor and speeds up the analysis process. Implementing this software is beneficial for 3D tumor spheroids to become a routine in vitro model for drug screens in industry and academia.

We present a high-throughput image analysis software application to measure the size of three-dimensional tumor spheroids imaged with bright-field microscopy. This application provides a fast and effective way to examine the effects of therapeutic drugs on spheroids, which is beneficial for researchers who wish to use spheroids in drug screens.

The increasing number of applications of three-dimensional (3D) tumor spheroids as an in vitro model for drug discovery requires their adaptation to ...