...fluorescent proteins and luminescence have been widely used in biological research for a long time, chromoproteins... give colors in ambient light. In contrast, the widely used green fluorescent protein (GFP) gives a bright...early 2000s, a handful of chromoproteins were identified in sea anemone (Chan et al., 2006). Why do these... sequencing are more definitive, but visual identification is a good place to start before taking on more...could get around this problem. There is no single “ideal” chromoprotein plasmid that combines the most desirable...is an orange light-absorbing chromoprotein that Hideji Murakoshi’s lab developed as an acceptor for fluorescence...

...was in its infancy, but the eye was identified early on as an ideal target. It is an easily accessible ... time advances in human genetics led to the identification of several disease-causing genes, including...However, AdV was abandoned early on due to its considerable immunogenicity and its transient expression....have broad tropism in the eye. AAV-2, the first identified serotype and the one used in Luxturna™, can efficiently...therapies is impressive: clinical trials for choroideremia, X-linked retinitis pigmentosa, achromatopsia...

...validated for BiFC (Kodama and Hu, 2012). Having a rough idea of how your PIPs might interact will allow you to...each PIP and empirically test which combination provides the best fluorescent signal. As for linker sequences...experiments. In either case, overexpression should be avoided because it can generate high background fluorescence...critical to the success of BiFC experiments. The ideal control is a mutated variant of one or both of your...that you empirically test a number of mutants to identify those that inhibit BiFC in your cellular system...endogenous PIPs is expressed at increasing levels alongside your BiFC constructs. If your PIPs actually interact...

... Protocol Addgene's Video Antibody Purification Protocol Addgene's Antibody Guide References Trimmer JS...the periplasmic space to be oxidized and form disulfide bonds (Frenzel et. al., 2013). If you’re using...stained, the heavy and light chains become visible alongside your ladder and a protein standard. The density...calculated using imaging software. Any bands on the gel beside the heavy and light chains can also be measured...multiple contaminating bands or a few strong ones, consider increasing the number of washes performed during...

...method into six general steps and outlined the considerations to be made during each step. Now that you know...take a slightly deeper dive into those steps and provide you with more details to help you plan and optimize.... If your target is already on the extracellular side of the membrane, then this step may not be necessary...binding to any target protein that is still on the inside of the cell. However, assuming you do need to permeabilize... of fixatives or permeabilizers, but how do you decide which ones to use? Here are some tips for making... then optimizing from there is a good option.  Consider your target - if you are studying a membrane protein...

...an IV injection is an ideal way to deliver AAV to the PNS. It’s a happy accident that AAV.PHP.S targets...barrier - only those that cross the barrier can be identified by PCR later. The PNS presents a different problem...Cre-dependent selection yields AAV variants for widespread gene transfer to the adult brain. Nature biotechnology...Additional Resources on the Addgene Blog Important considerations when using AAVs Learn more about using AAV ...Vectors to use with your research. Visit Our AAV Guide Page for info on AAV components, common uses of ...

...Vector Plasmids Read Our Lentiviral Vector Guide Read Our AAV Guide  ...the cell when the appropriate viral proteins are provided in trans (see Other Important Components of EBOV...separate plasmids and are co-transfected into cells alongside a plasmid encoding the minigenome. These genes...The power of reverse genetics. Springer Berlin Heidelberg, 2004. 1-41. PubMed PMID:15298166. 3. Hoenen,...Posts on Viral Vectors Check out Our Scientist's Guide to Ebola Contribute to the Addgene Blog Resources...

...mission by hard work, we genuinely enjoy each other’s ideas and company. The Addgene summer picnic This past...though she generously offered. Instead we picniced outside of our new office space on the nicely manicured...together is that when it’s time for fun, everyone is confident that their teammates and project collaborators...events over the years. To keep the organizational side of things from taking too much of your time, scroll...(or more popularly- cookies). 3. Do something outside of your ordinary environment Team building events...something fun happening! Addgene actually has chimes outside of our break room. A ring of the chimes means something...

...substances are part of toxin-antitoxin systems that are widely present in bacteria. They consist of a toxin which...systems have been used as biological tools for a wide range of applications in molecular biology or in...Applications of ccdB in plasmid cloning Perhaps the most widely used application of CcdB is GatewayTM cloning, ...toxin-antitoxin systems and their applications MazE/MazF Aside from CcdB/CcdA, there are many protein-based toxin-antitoxin... endonucleases cleave DNA at or near specific nucleotide sequences. To counter this, methyltransferases...methyltransferases add methyl groups to bases at specific nucleotide sequences, preventing the cognate restriction enzyme...

...600 Cas9 orthologs and found that they could be divided into two groups: longer orthologs approximately...Split inteins are a pair of naturally occuring polypeptides that, when at the ends of two proteins, mediates... CasX enzymes comprise a distinct family of RNA-guided genome editors. Nature 566:218–223 . https://doi.org...2014) Crystal Structure of Cas9 in Complex with Guide RNA and Target DNA. Cell 156:935–949. https://doi.org...doi.org/10.1038/s41467-018-08224-4  Swiech L, Heidenreich M, Banerjee A, Habib N, Li Y, Trombetta J, Sur... Resources on Addgene.org Check out our CRISPR Guide Find CRISPR Plasmids ...

...through our hot plasmids articles. These articles provide brief summaries of recent plasmid deposits and ...might not localize to the right places, which can provide misleading information on where exactly a structure... via BirA and AviTAG. pMAK contains the signal peptide of MBP, followed by the desired nanobody (NB) sequence...sequence, an AviTAG, and 6xHis tag. The MBP signal peptide allows the NB to be exported to the periplasm of... the expression of nearly any gene via specific guide RNA (gRNA) sequences. But these approaches rely ... viral aliquots from our plasmid collection to provide ready-to-use viral preps. Here are some of the ...

...have accumulated more than 300,000 individual nucleotide sequences. More than half of these sequences ...assembly algorithms meant that we already had a clear idea of the necessary steps to perform:      ...entire package to run. The small, portable system provided by a container is sequestered from other programs...container because of the reproducibility containers provide and for convenient compatibility with our internal...complete pipeline however, required more than just identifying criteria that we needed. Prior to using Nextflow...that the desired data was available so we felt confident we were using the input and output to link the...

...with no additional off-target edits, making them ideal for size-limited AAV delivery. PE6c and PE6d are...modalities and has the potential to reduce negative side effects. This platform offers a promising approach... TransitID By Mike Lacy Proximity labeling can identify protein interactions or map a local proteome, ...dual-enrichment and mass spectrometry workflow identifies proteins bearing both labels (which had therefore...locations. C) Enrichment of dual-labeled proteins identifies proteins that had been trafficked from the “source...bioRxiv, under CC-BY-NC 4.0 license. This system provides a unique new way to record and quantify the dynamics...

...Fluorescent and bioluminescent reporter genes are widely used to study gene expression in cells. But these... by tissue. Ultrasound, on the other hand, is a widely available and inexpensive imaging modality with...high spatial and temporal resolution, making it ideal for visualizing gene expression in vivo.  But what... be easily expressed heterologously by bacteria inside the body. So we screened gas vesicles gene clusters...origin of replication (p15A) worked best under a wide range of inducer concentrations (0.1-1% L-arabinose...bARGSer-expressing E. coli. The GV-specific ultrasound signal inside the tumors was overlaid with the anatomical B-mode...

... DNA sequence to encode your peptide of interest and produce that peptide in your organism of choice. ...as easy as it sounds. Even for relatively short peptides, there can be many possible ways to encode them... the native organism.” This is possibly a better idea and has been used successfully in the past (Angov...2008), but there are still many more features to consider when designing a full gene. A non-exhaustive list...PubMed Central PMCID: PMC4794256. This review provides a great overview of codon usage bias 8. Tuller...

...others can provide you with the highest form of flattery - imitation! Use the MIQE guidelines (Bustin, ...primer and be at least 25 bp away from each primer, ideally located close to either the forward or the reverse...across the plate is fine; a 5% positive error on one side and a 5% negative error on the other will introduce...triplicates in multiple configurations can help you identify pipetting or evaporation errors. And if time allows...look at their 551 page e-book on applying MIQE guidelines! With these kinds of resources, you will soon...Shipley GL; Vandesompele J; Wittwer CT. The MIQE guidelines: minimum information for publication of quantitative...

...and find our guides, plasmid kits and other resources for microbial research. Kits, guides, plasmids, ...biology, gene cloning and expression, as well as guide pages for Synthetic Biology and Bacterial Expression... our Genome Engineering Overview and our CRISPR guide to find out how to use genome editing techniques...Expression and Insert Species filters on the right-hand side of the search page to narrow your keyword search...

...Twitter for the official launch!  Videos Look out for our next protocol video, “Western blots,” coming soon...also be building our video library all summer long, with additions to our other video series.   And if you...as excited as we are! Come join us in our blog, video, and social media endeavors - in between some much-deserved...

...frequency three orders of magnitude higher than identical targeting vectors delivered through transfection...AAV effect remains unclear, it is likely not a coincidence that the AAV genome is composed of single stranded... selection, individual gene edited clones are identified by PCR. Then, if necessary for subsequent experiments...disadvantages to the AAV-based approach that must be considered when deciding whether to use AAV or CRISPR for...for the generation of knockins, it is not always ideal. Because of these limitations, the AAV approach ...variety of cell types, now you know that AAVs can provide a powerful boost to genome editing experiments....

...for DMD treatment. Clinical trials have used oligonucleotide exon skipping (OEN) to remove mutated exons... dystrophin transcript. Unfortunately, the oligonucleotides only modestly improve muscle function, and...Dystrophin and genome editing Since complex oligonucleotide treatment comes with many challenges, researchers...rigorously examined over a long period of time. High fidelity Cas9s such as eSpCas9 and SpCas9-HF should be ...Covello G, Denti MA. Exon-skipping antisense oligonucleotides to correct missplicing in neurogenetic diseases... Resources on Addgene.org Check out Our CRISPR Guide Pages Find CRISPR Plasmids for Your Research Find...