Description
Mannose receptor targeting by mannosylated liposomes has been demonstrated for a variety of mannosylated lipid conjugates in a variety of liposome morphologies and compositions in several different in vitro and in vivo models. A very large number of publications is about using a hydrophobic derivative of mannose (4-aminophenyl alpha-D-mannopyranoside) rather than using a mannosylated lipid in clodronate liposomes. This is mainly due to the high cost and complexity of synthesizing and conjugating mannose to lipid. 4-aminophenyl alpha-D-mannopyranoside is commercially available and far less expensive than synthesizing mannose conjugated lipid.
Why mannose? Mannose is one of the carbohydrate components of many bacterial and viral cell surfaces; therefore, the ever-efficient, highly redundant immune system has evolved multiple mechanisms for identifying pathogens based on mannose recognition. The animal and plant kingdoms likewise utilize carbohydrate recognition signaling mechanisms including mannose residues. Many publications evaluate other carbohydrates as targeting mechanisms for various cell types, however mannose targeting to phagocytes appears to be one of the more specific mechanisms identified to date. Mammalian cell surface identification molecules based on mannose binding, such as the ICAM family of leukocyte adhesion molecules, target the SIGN family of mannose receptors to accomplish self-recognition in vivo.
A well-known and cited study by Umezawa & Eto [1] demonstrates that liposomes containing aminophenyl mannoside were most efficiently incorporated into the mouse brain across the blood brain barrier. The radiolabeled liposomes bearing aminophenyl-alpha-D-mannopyranoside were maximally incorporated into the mouse brain after 48 hours, whereas in the spleen and liver, these radioactivities were maximum after 12 hours. The studies also showed that liposomes were most incorporated was glial cells rather than neuronal cell. The subcellular fractionation study indicates that mannose labeled liposomes are incorporated into lysosomes rich fraction both in liver and brain.
There are five mannosylated fluorescent control liposome products (m-Fluoroliposome®) for m-Clodrosome® (mannosylated clodronate liposomes). All five mannosylated fluorescent liposomes incorporate a lipophilic dye inside their membranes. They are insoluble in water; however, their fluorescence is easily detected when incorporated into membranes. DiI, DiO, DiD, DiR and DiA cover a wide range of excitation and emission wavelengths from 300s to 900s. DiI and DiO have fluorescence excitation and emission maxima separated by about 65 nm, facilitating two-color labeling. The emission spectrum of DiA is very broad, allowing it to be detected as green, orange, or even red fluorescence depending on the optical filter used. DiI, DiO, DiD and DiR belong to the dialkylcarbocyanines family of compounds. The spectral properties of the dialkylcarbocyanines are largely independent of the lengths of the alkyl chains but are instead determined by the heteroatoms in the terminal ring systems and the length of the connecting bridge. They have extremely high extinction coefficients, moderate fluorescence quantum yields, and short excited state lifetimes in lipid environments (~1 ns). The fluorescence spectrum of each dye is shown below.
You can choose the m-Fluoroliposome® based on the type of the fluorescent equipment and filters that you use in your lab. Mannosylated clodronate liposomes cannot be made fluorescent simply due to the potential for inaccurate and/or uninterpretable data being generated by labelled m-Clodrosome®. For more information, please refer to the technical note section.


Formulation Information
Clodrosome® Liposomal Clodronate Suspension
| Lipid Composition | Concentration (mg/ml) | Concentration (mM) | Molar Ratio Percentage |
|---|---|---|---|
| Total | 23 mg/ml | 35.1 mM | 100 |
| L-alpha-Phosphatidylcholine | 18.8 | 24.3 | 70 |
| Cholesterol | 4.2 | 10.9 | 30 |
| Encapsulated Drug | Concentration |
|---|---|
| Clodronate ((Dichloro-phosphono-methyl)phosphonate), Disodium Salt | 18.4* mM |
| * Depending on the type of the clodronate salt, itsconcentration (mg/ml) varies. If tetra hydrate salt is used, the concentration of the encapsulated drug will be ~7 mg/ml, and if a non-hydrated salt is used, the concentration will be ~5 mg/ml. | |
Fluoroliposome®-DiR
| Lipid Composition | Concentration (mg/ml) | Concentration (mM) | Molar Ratio Percentage |
|---|---|---|---|
| Total | 23 mg/ml | 35.1 mM | 100 |
| L-alpha-Phosphatidylcholine | 18.8 | 24.3 | 70 |
| Cholesterol | 4.2 | 10.9 | 30 |
| Mannosylation | Concentration |
|---|---|
| 4-Aminophenyl-alpha-D-mannopyranoside | 9.53 mol% |
| Fluorescent Dye | Excitation/Emission (nm) | Concentration (mg/ml) | Concentration (mM) |
|---|---|---|---|
1,1'-Dioctadecyl-3,3,3',3'-Tetramethylindotricarbocyanine Iodide (DiR)![]() | 750/780 | 0.066 | 0.0651 |
| Buffer and Liposome Size | Specification |
|---|---|
| Buffer | Phosphate Buffered Saline |
| pH | 7.4 |
| Liposome Size | 1.5-2 µm |
Technical Notes
- To reach bloodstream-accessible, mannose-receptor positive cells outside the liver, a significant number of liposomes will have to escape first-pass uptake by the liver and spleen, so that the target cells are exposed to a higher concentration of mannosylated liposomes from the blood. One strategy that has been used to ensure that liposomes escape the liver and spleen is known as reticuloendothelial system (RES) blockade in which animals are pre-dosed with a sufficient quantity of liposomes to temporarily saturate the phagocytic cells of the blood, liver and spleen, also known as the reticuloendothelial system (RES) or the mononuclear phagocyte system (MPS). This sufficient quantity is dependent upon the liposome type and composition as well as the species being dosed; the pre-dosed liposomes do not necessarily need to be the same type or composition as the therapeutic or diagnostic liposomes avoiding the RES. Soon after this pre-dose is cleared from the bloodstream (usually within a couple of hours), the liposomes of interest are dosed. Since the RES is involved in digesting the previous dose of liposomes, the subsequently dosed liposomes will remain in the circulation much longer thus be much more likely to bind to their target site outside the RES including those phagocytic cells which are accessible, but are not usually exposed to a higher concentration of liposomes.
- While RES blockade is usually thought of as saturating phagocytic cells, it has been shown that opsonin-binding by liposomes is a saturable phenomenon. Therefore, part of RES blockade may involve serum depletion of complement and other opsonins known to coat liposomes. In the current application, removal or reduction in the concentration of soluble mannose-receptors may further increase the probability of a mannosylated liposome being able to interact with mannose receptors on the target cell. Therefore, if the goal is to deplete a target subset of mannose-receptor + cells which may not normally be exposed to a substantial number of mannosylated liposomes, pre-dosing with mannosylated clodronate liposomes, in order to both saturate the blood, liver and spleen phagocytes and reduce the concentration of opsonins including soluble mannose receptors, should increase the number of subsequently dosed mannosylated clodronate liposomes available to this target subset hypothetically resulting in increased uptake and depletion by these targeted cells.
- The issue with fluorescent Clodrosome® has to do with the potential for inaccurate and/or uninterpretable data being generated by labelled Clodrosome®. When Clodrosome® induces macrophage apoptosis, the fluorescent lipid incorporated into the Clodrosome® that is disrupted and metabolized in the phagolysosome will be dispersed among the residual apoptotic bodies which are subsequently phagocytosed by other macrophages. Therefore, fluorescent lipid may be detected in phagocytic cells which never phagocytosed Clodrosome® especially when FACS or fluoroscopy are utilized to detect fluorescent cells (FACS) or fluorescence levels in a tissue homogenate (fluoroscopy). Another potential artifact arises from fluorescent lipid remaining in the extracellular “garbage”, which has not yet been cleared by other phagocytes, generating a high background fluorescence. However, experienced confocal microscopist may be able to differentiate between the punctate fluorescence resulting from fluorescent intact liposomes versus the more diffuse fluorescence characteristic of disrupted liposomes and some have successfully used fluorescent clodronate liposomes to visualize the cellular location of these liposomes by confocal microscopy in vivo [2]. A further complicating factor is that published data varies widely as to exactly when clodronate liposomes begin to induce apoptosis in macrophages. Mönkönnnen et al. show that macrophage death is measurable within the first hour after clodronate liposome treatment on RAW264 cells in vitro [3], while others have reported no signs of macrophage apoptosis until several hours after treatment in vivo. The variability in the data is likely due to different liposomal formulations of clodronate as well as the vastly different experimental conditions. Therefore, as with most biological studies, especially those involving liposomes, the amount of time between treating the animal or cells with clodronate liposomes and the onset of apoptosis will need to be established in each experimental model. If the nature of the research demands that Clodrosome® be tracked rather than the control, Encapsula can provide DiI-labelled Clodrosome® upon request, and assuming that the Clodrosome® distribution can definitively be assessed prior to the onset of apoptosis, clear and valid data on the biodistribution of fluorescent Clodrosome® should be obtainable. Still, for most purposes, Fluoroliposome® (fluorescent control liposomes) will provide the required data with far fewer potential artifacts.
- When monitoring monocyte uptake in vivo in normal animals, the circulating monocytes may “disappear” or show reduced counts within the first 2 h post-injection due to margination of the monocytes post-liposome phagocytosis. These cells will re-enter the circulation within a few hours. Sunderkötter et al. demonstrate this phenomenon and discuss the behavior in detail. Also consider that circulating monocytes have a lifetime of about 24 h so labeled monocytes will be continually leaving the circulation, even in normal animals, due to aging of the monocytes [4].
- When animals or cells are treated with Clodrosome®, phagocytic cells recognize the liposomes as invading foreign particles and proceed to remove the liposomes from the local tissue or serum via phagocytosis. The liposomes then release clodronate into the cytosol resulting in cell death. Unencapsulated clodronate cannot cross the cell membrane to initiate cell death.
- Encapsome® control liposomes are recognized and phagocytosed by the same mechanism as Clodrosome®. Since the control liposomes do not contain clodronate, the phagocytic cells are not killed. However, phagocytes do respond to the ingestion of the control liposomes by cytokine secretion, temporary suspension of phagocytic activity and other responses described in the literature.
- The product must be removed from the vial using sterile technique. Do not use if sterility is compromised. This is particularly important if a single vial is accessed multiple times over several weeks. The product should not be used more than 60 days after receipt, even if unopened.
- Liposomes may settle when left undisturbed for more than a few hours. Immediately prior to use, in order to ensure a homogeneous liposome suspension, slowly invert the vial several times until the suspension appears homogeneous by visual inspection. Vigorous or erratic shaking will not damage the liposomes but may induce foaming and bubble formation making it more difficult to accurately measure the desired dosage.
- If the personnel performing intravenous injections are not experienced in or familiar with, precautions for injecting larger volumes (~10% animal weight in ml), viscous liquids or particulate suspensions, consider having extra animals available in case serious injection-related adverse events occur. Dose control animals first to become familiar with large volume injections.
- Within hours after systemic administration of Clodrosome®, animals begin to lose important components of their immune system. Standard animal handling and housing protocols are not suitable for immunocompromised animals. Even when such precautions are taken, monitor the general health of each animal for opportunistic infections unrelated to the experimental protocol. There is no inherent toxicity to the product at the recommended dose levels.
- When dosing intravenously, use standard precautions for dosing larger volumes to animals including the following: a) warm product to room temperature prior to dosing; b) ensure that all air bubbles are removed from the syringe prior to dosing. Intravenous injection of air bubbles may result in air emboli which can kill or seriously injure animals; c) inject product at a slow, steady rate of no more than 1 ml/min; d) decrease infusion rate if animals display any atypical reactions such as unusual agitation.
- Infusion-related adverse reactions usually involve the animal gasping for air or other seizure-like movements. Animals often recover with no apparent permanent injury, but any potential effects on experimental results must be assessed by the researcher.
- Liposomes should be kept at 4°C and NEVER be frozen.
Dosage
Appearance
m-Clodrosome® is a white milky suspension, and m-Fluoroliposome®-DiR is a dark blue liquid suspension, both made of large micro size multilamellar liposomes. Due to their large size, some liposomes might settle to the bottom of the vial. If left sitting idle in the refrigerator, m-Fluoroliposome®-DiR will phase separate and form pellets in the bottom of the vial, leaving a clear solution on top. m-Clodrosome® might do the same only not as severely. Therefore, both should be gently shaken not to form bubbles but to form a homogeneous solution prior to use. Therefore, both should be shaken to form a homogeneous solution prior to use.
Educational Videos
Ordering/Shipping Information
- All liposome based formulations are shipped on blue ice at 4°C in insulated packages using overnight shipping or international express shipping.
- Liposomes should NEVER be frozen. Ice crystals that form in the lipid membrane can rupture the membrane, change the size of the liposomes and cause the encapsulated drug to leak out. Liposomes in liquid form should always be kept in the refrigerator.
- Clients who order from outside of the United States of America are responsible for their government import taxes and customs paperwork. Encapsula NanoSciences is NOT responsible for importation fees to countries outside of the United States of America.
- We strongly encourage the clients in Japan, Korea, Taiwan and China to order via a distributor. Tough customs clearance regulations in these countries will cause delay in custom clearance of these perishable formulations if ordered directly through us. Distributors can easily clear the packages from customs. To see the list of the distributors click here.
- Clients ordering from universities and research institutes in Australia should keep in mind that the liposome formulations are made from synthetic material and the formulations do not require a “permit to import quarantine material”. Liposomes are NOT biological products.
- If you would like your institute’s FedEx or DHL account to be charged for shipping, then please provide the account number at the time of ordering.
- Encapsula NanoSciences has no control over delays due to inclement weather or customs clearance delays. You will receive a FedEx or DHL tracking number once your order is confirmed. Contact FedEx or DHL in advance and make sure that the paperwork for customs is done on time. All subsequent shipping inquiries should be directed to Federal Express or DHL.
Storage and Shelf Life
Storage
m-Clodrosome® and m-Fluoroliposome® should always be stored at in the dark at 4°C, except when brought to room temperature for brief periods prior to animal dosing. DO NOT FREEZE. If the suspension is frozen, clodronate can be released from the liposomes thus limiting its effectiveness in depleting macrophages. ENS is not responsible for results generated by frozen product.
Shelf Life
m-Clodrosome® and m-Fluoroliposome® are made on daily basis. The batch that is shipped is manufactured on the same day. It is advised to use the products within 60 days of the manufacturing date.
References and background reading
1. Umezawa FA, Eto Y. Liposome targeting to mouse brain: mannose as a recognition marker. Biochemical and biophysical research communications. 1988 Jun 30;153(3):1038-44.
2. Polfliet MM, Goede PH, van Kesteren-Hendrikx EM, van Rooijen N, Dijkstra CD, van den Berg TK. A method for the selective depletion of perivascular and meningeal macrophages in the central nervous system. J. Neuroimmunol. 2001 Jun 1;116(2):188–95.
3. Mönkkönen J, Liukkonen J, Taskinen M, Heath TD, Urtti A. Studies on liposome formulations for intra-articular delivery of clodronate. Journal of Controlled Release. 1995 Aug;35(2–3):145–54.
4. Sunderkötter C, Nikolic T, Dillon MJ, van Rooijen N, Stehling M, Drevets DA, Leenen P. Subpopulations of Mouse Blood Monocytes Differ in Maturation Stage and Inflammatory Response. J Immunol. 2004 Apr 1;172(7):4410–7.
5. Nagai H, Kuwahira I, Schwenke DO, Tsuchimochi H, Nara A, Ogura S, Sonobe T, Inagaki T, Fujii Y, Yamaguchi R, Wingenfeld L. Pulmonary macrophages attenuate hypoxic pulmonary vasoconstriction via β3AR/iNOS pathway in rats exposed to chronic intermittent hypoxia. PLoS One. 2015 Jul 1;10(7):e0131923.
6. Zhu Y, Soderblom C, Krishnan V, Ashbaugh J, Bethea JR, Lee JK. Hematogenous macrophage depletion reduces the fibrotic scar and increases axonal growth after spinal cord injury. Neurobiology of disease. 2015 Feb 28;74:114-25.
7. Yun MH, Davaapil H, Brockes JP. Recurrent turnover of senescent cells during regeneration of a complex structure. Elife. 2015;4:e05505.
8. Arwert EN, Harney AS, Entenberg D, Wang Y, Sahai E, Pollard JW, Condeelis JS. A Unidirectional Transition from Migratory to Perivascular Macrophage Is Required for Tumor Cell Intravasation. Cell reports. 2018 May 1;23(5):1239-48.
9. Ito T, Ishigami M, Matsushita Y, Hirata M, Matsubara K, Ishikawa T, Hibi H, Ueda M, Hirooka Y, Goto H, Yamamoto A. Secreted Ectodomain of SIGLEC-9 and MCP-1 Synergistically Improve Acute Liver Failure in Rats by Altering Macrophage Polarity. Scientific reports. 2017 Mar 8;7:44043.
10. Miron VE, Boyd A, Zhao JW, Yuen TJ, Ruckh JM, Shadrach JL, van Wijngaarden P, Wagers AJ, Williams A, Franklin RJ. M2 microglia and macrophages drive oligodendrocyte differentiation during CNS remyelination. Nature neuroscience. 2013 Sep;16(9):1211.
11. Andreou K, Sarmiento Soto M, Allen D, Economopoulos V, de Bernardi A, Larkin J, Sibson NR. Anti-Inflammatory Microglia/Macrophages as a Potential Therapeutic Target in Brain Metastasis. Frontiers in oncology. 2017;7:251.
12. Alishekevitz D, Gingis-Velitski S, Kaidar-Person O, Gutter-Kapon L, Scherer SD, Raviv Z, Merquiol E, Ben-Nun Y, Miller V, Rachman-Tzemah C, Timaner M. Macrophage-induced lymphangiogenesis and metastasis following paclitaxel chemotherapy is regulated by VEGFR3. Cell reports. 2016 Oct 25;17(5):1344-56.
13. Oh SH, Kim HN, Park HJ, Shin JY, Bae EJ, Sunwoo MK, Lee SJ, Lee PH. Mesenchymal stem cells inhibit transmission of α-synuclein by modulating clathrin-mediated endocytosis in a Parkinsonian model. Cell reports. 2016 Feb 2;14(4):835-49.
14. Kano F, Matsubara K, Ueda M, Hibi H, Yamamoto A. Secreted Ectodomain of Sialic Acid‐Binding Ig‐Like Lectin‐9 and Monocyte Chemoattractant Protein‐1 Synergistically Regenerate Transected Rat Peripheral Nerves by Altering Macrophage Polarity. STEM CELLS. 2017 Mar 1;35(3):641-53.
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:探讨人巨细胞病毒(HCMV)核酸定量检测试剂(PCR‐荧光探针法)的临床使用及初步评价。
定量结果显示:1.血液中有乙肝病毒DNA分子,受检者被乙肝病毒感染了;2.血液中的乙肝病毒浓度较高,积极治疗吧
⑴测序是为了验证扩增产物是否为自己的目的产物,既然我的产物长度符合要求,那么有必要进行测序吗?②对于荧光定量检测,我先前的那对引物可以接着用吗?③如用ABI7700采用Taqman探针法检测,探针的设计是自行用软件(如primer5.0)或参考文献提交公司合成(像PCR引物合成)那样吗?④看到有的文章介绍,探针是国外的、国内的,这是什么意思?依我的理解:就像PCR引物合成,只要合成正确,荧光标记完好,国外国内不都一样吗?⑤看到有相应试剂盒提供,其提供的东西有哪几样?是不是探针,引物都包括了,对于那些常见的基因都有相应的试剂盒卖吧,关键是价钱贵吗?
看到一个同事做一课题就是设计荧光定量PCR检测某产物,结果半年也没搞出来,令我感到很生畏。现在还有很多临床病原微生物的荧光定量检测还未成功,有的还需优化,是不是设计较困难,哎呀,还未做,就感到力不从心了,大家帮帮我
荧光定量PCR原理等大家都已经很熟了,我就不细说了,主要是写一些有人问过的事,希望写的内容是大家都关心的。
普通PCR与荧光定量PCR技术区别?
简单的讲PCR技术最早是用于扩增一段特异的PCR片段,用于克隆、测序等实验,后来也将其用于样本中特异的PCR片段有无或非很粗的相对定量,而荧光定量PCR技术则是为了测定样本中特异的PCR片段相对及绝对量,是一种测定特异的PCR片段含量的方式。如测定病人样本中病原体的含量、实验样本中某一特定的mRNA的含量等。
前些年有人讲过普通PCR后,通过电泳也可以进行定量,其实是将PCR产物的定量与PCR样本中模板定量相混了。近两年没有人再讲这类的话了。
SybrGreen、Taqman、Molecularbeacon、LUX这些方法如何选择?
从实验成本来讲,SybrGreen是最好的,基本上就是普通PCR加上一点SybrGreenI荧光染料即可,其信号强度也很好,还可以进行融解曲线分析等,但缺点是只能在一个反应管内进行一种PCR反应的检测,另一个问题是非特异性扩增会影响实验结果,当然也有一些技术解决这些问题,后面会讲到。对于研究人员来讲,如果需要检测的基因很多,而每个反应管中进行一种PCR反应的检测可以满足实验要求,则SybrGreen是最好的选择。
如果需要进行多通道实验,即在一个反应管中进行2种或以上的反应,则要选择其他的方法,最常用的是Taqman、Molecularbeacon,这两种都是探针的方式,由于增加了探针的特异性,因此其扩增曲线反映的就是特异性产物的扩增曲线,不含有非特异性扩增的成分。因此商业用途的检测试剂盒大都采用这一技术,以减少非特异性产物造成错误结论的可能性。其缺点在于探针成本较高,有时设计的探针并不合适,有造成损失的可能性。并且要进行较多的实验条件的优化。这两种探针技术用于商业目的时都有专利问题,据说取得Molecularbeacon的许可权的成本相对较低,但只是据说。
另一种值得一提的是LUX探针,它也可进行多通道实验,但它没有Taqman和Molecularbeacon方法的增加探针特异性的功能,因此只能是一种折中的方案,如果不考虑多通道实验,则不如SybrGreen法.
无创DNA检测是准确的。无创DNA产前检测技术仅需采取孕妇静脉血,利用新一代DNA测序技术对母体外周血浆中的游离DNA片段进行测序,并将测序结果进行生物信息分析,可以从中得到胎儿的遗传信息,无创DNA产前检测准确率可达99% 。无创产前基因检测是通过采集孕妇外周血(5ml),提取游离DNA,采用新一代高通量测序技术,结合生物信息分析,得出胎儿患染色体非整倍性疾病(21-三体又称唐氏综合征,18-三体,13-三体)的风险率。
价格上第一种如果是几百万个SNP位点的一般是1000元左右,如果是单基因或少数几个基因的也就几十块钱。第二种全基因组测序的一般测序深度30X以上,90G左右数据,测序费用大概在8000左右,分析snp和Indel的变异费用在1000左右。
但是,目前完全不建议做。因为SNP的变异与疾病和表型的研究完全不够充分。单基因的遗传疾病根本不用测序自己就看出来了,多基因的复杂疾病基因遗传因素所占比例有限,只是一个相关概率问题,而且即便知道了也没什么手段,早点拿到的数据也是一堆ATCG和SNP变异和所谓风险值。
还有测序和数据分析费用在飞速下降,目前上万的全基因组测序同样的数据可能1年后只用几百块,真正有效的解读也还要等到几年后,没必要花这个冤枉钱。
但是以下人群有这个切实需要:肿瘤的突变分型(目前并没有特别靠谱的高通量测序产品,主要还是基于荧光定量PCR的检测试剂盒),新生儿的遗传病筛查(看个人接受程度)
荧光定量PCR详细流程和问题解析
普通PCR与荧光定量PCR技术区别?
简单的讲PCR技术最早是用于扩增一段特异的PCR片段,用于克隆、测序等实验,后来也将其用于样本中特异的PCR片段有无或非很粗的相对定量,而荧光定量PCR技术则是为了测定样本中特异的PCR片段相对及绝对量,是一种测定特异的PCR片段含量的方式。如测定病人样本中病原体的含量、实验样本中某一特定的mRNA的含量等。
前些年有人讲过普通PCR后,通过电泳也可以进行定量,其实是将PCR产物的定量与PCR样本中模板定量相混了。近两年没有人再讲这类的话了。
SybrGreen、Taqman、Molecularbeacon、LUX这些方法如何选择?从实验成本来讲,SybrGreen是最好的,基本上就是普通PCR加上一点SybrGreenI荧光染料即可,其信号强度也很好,还可以进行融解曲线分析等,但缺点是只能在一个反应管内进行一种PCR反应的检测,另一个问题是非特异性扩增会影响实验结果,当然也有一些技术解决这些问题,后面会讲到。对于研究人员来讲,如果需要检测的基因很多,而每个反应管中进行一种PCR反应的检测可以满足实验要求,则SybrGreen是最好的选择。
如果需要进行多通道实验,即在一个反应管中进行2种或以上的反应,则要选择其他的方法,最常用的是Taqman、Molecularbeacon,这两种都是探针的方式,由于增加了探针的特异性,因此其扩增曲线反映的就是特异性产物的扩增曲线,不含有非特异性扩增的成分。因此商业用途的检测试剂盒大都采用这一技术,以减少非特异性产物造成错误结论的可能性。其缺点在于探针成本较高,有时设计的探针并不合适,有造成损失的可能性。并且要进行较多的实验条件的优化。这两种探针技术用于商业目的时都有专利问题,据说取得Molecularbeacon的许可权的成本相对较低,但只是据说。
另一种值得一提的是LUX探针,它也可进行多通道实验,但它没有Taqman和Molecularbeacon方法的增加探针特异性的功能,因此只能是一种折中的方案,如果不考虑多通道实验,则不如SybrGreen法
选择单通道实验还是多通道实验?
这是要根据实验需要来选择的,如果有一个、两个或是三个基因要进行比较,并用看家基因进行对照,可以考虑选择多通道实验。多通道实验的好处是可以消除样本加样的误差。但要克服的困难也比较多,一是条件的优化比较麻烦,即多种PCR反应以及探针要在同一个反应条件下进行,并且效率都要比较高,另一个困难是要求相互之间没有干扰,因为干扰会影响到实验结果。还有一个困难是当一个基因的模板数显著大于其他基因时,因为共用核苷酸等资源的原因,会让模板数少的基因的定量值变小或变为零。因此一般两通道的实验比较多些,即一个基因进行多样本比较,用看家基因进行对照。
可以看出,如果单通道实验可以解决问题,就不要选择多通道实验了。三个以上的基因进行比较时就最好用单通道。因为一般的仪器最多也只有四个通道,就是有更多的通道,实验条件的优化也是足够麻烦了。
双通道实验时如何克服反应条件、干扰以及模板数差别很大等困难?对于反应条件的优化,可通过两个单独实验的标准曲线来优化,主要是复性温度,可用PCR仪的温度梯度功能来选择,然后找到一个合适的复性温度。对于如何确定是否存在相互干扰,则要通过两个独立的单通道实验与双通道实验的结果进行比较,如果差别不大,则表明没有干扰。至于模板数差别很大的问题,可以通过降低引物浓度的方法来实现,即primerlimited,在一般的PCR反应中,引物的浓度是足够高的,基本上可以将反应液中的核苷酸全部消耗尽,在优化引物浓度时,用不同的引物浓度进行实验,找到不影响反应的C值的最低引物浓度。这样在实际反应中,模板数高的基因在引物耗尽后,反应液中仍然有足够的核苷酸等用于另一个基因的反应。
引物设计中的几个注意事项
1、引物设计最好用相关的软件来进行设计,考虑引物自身回折、错配、引物二聚体、复性温度、产物变性温度等问题,其中产物的变性温度是大家不太关心的问题,但有些产物在一般的95度条件下不能充分解链,会严重影响实验结果。2、引物所设计的片断一定要有足够的特异性,选择好片段后,最好到互联网中进行相关的搜索,看在样本的基因组有没有相拟的基因以及假基因等,如果有,则可选择特异性更高的区域。
3、在进行mRNA表达量的定量,可以在引物设计时考虑基因组的污染问题,即在引物设计时让两个引物跨一个内含子,这样基因组污染所造成的扩增可以区别出来,或因为片段过大而不能扩增
4、由于mRNA表达量的定量有一个逆转录的过程,如果逆转录是用poly(T)作引物,则设计的片段尽量靠近poly(A),以免逆转录的效率影响到实验结果。如果用特异性引物进行逆转录,则要考虑引物区是否存在RNA二级结构的问题5、产物片段的大小:定量PCR一般产生片段都不大,不会超过600bp。SybrGreen法一般选择250-600bp,过大会影响到PCR扩增的效率,过小则很难通过融解曲线与引物二聚体分开,但并不是绝对的。Taqman法的扩增片段都很小,几十或是100多,这是其原理造成的。Molecularbeacon法对片段大小的要求不高,只要不是太长即可。
SybrGreen法的实验策略:
实验可分为三个阶段,即实验条件的优化、预实验和正式实验。一、实验条件的优化阶段,这一阶段是最花时间的,
1、要找到一个阳性的模板,可以是克隆有基因质粒、强阳性样本或纯化的PCR产物等。有了阳性的模板才能进行最基本的定量扩增实验,如果有普通PCR的实验条件,也可以此为基础进行实验。
2、扩增出的产物要通过电泳方法确定其大小,以确认定量PCR扩增的产物是你的目的基因,有些用户就发生过优化了几天的条件才发现扩增片段的大小不对,不是自己想要的基因。当然,能测个序什么的最好。并通过融解曲线实验来确定产生的Tm值以及所用的变性温度是否已经足够,个别情况下会出来解键不充分的现象。
3、有了基本的PCR条件后,要将阳性模板进行倍比稀释,一般用10倍稀释。将稀释的模板带上阴性对照,分成多份进行温度梯度实验,对复性温度进行优化,以找出复性温度范围,复性温度最好能满足以下条件:高中低模板浓度下PCR扩增效率都很高、阴性模板没有扩增。选择满足条件的中间温度,这样可以提高实验的稳定性,不会因为样本管在加热模块中的位置不同而影响实验结果。
4、如果找不到合适的条件,如引物二聚体过多,可对引物浓度、Mg2+离子浓度、DMSO含量等进行优化,然后再进行复性温度梯度实验。其中Mg2+离子浓度、DMSO含量都会影响Tm值以及所用的变性温度。
二、预实验阶段
按照优化的条件对所需要分析的样本做一个没有重复的实验,每个样本做一个10倍和100倍稀释的实验,预实验的目的主要有两个,一是了解样本的模板浓度范围,如果有样本的模板浓度在标准曲线之外,如过高或过低,则可能要对标准曲线进行重新优化,当然,如果过高和过低不影响你的实验结论则可定为高于多少或低于多少,直接进行外推是不科学的。另一个目的看样本中是否有PCR抑制物的影响,如果每个样本的定量结果与其10及100倍稀释后的样本的结果相同,则表明没有抑制物的影响,如果不同,如原倍结果为零,而10及100倍稀释后的样本的结果为阳性,则表明样本中PCR抑制物浓度较高。可用其10及100倍稀释后的样本进行定量。
有几个用户发现过实验为阴性的样本在其10及100倍稀释后的样本为阳性的,也许有更多用户没有进行这样的实验,得到了错误的结论。因为样本RNA的提取试剂中经常有抑制PCR反应的物质,清洗不干净就会影响到定量PCR反应。
三、正式实验阶段
然后就可以进行正式实验了,只需要将每个样本作三个或更多的重复即可以了。有抑制物的样本先进行稀释,计算浓度时不要忘记就行了。最后就可以进行实验结果分析了,个别样本中离群的数值可以删除。
SybrGreen法的注意事项
1、最好按照上面提到策略进行实验,以免造成不必要重复实验,从而降低实验成本
2、SybrGreenI一般是先将母液用DMSO进行稀释100倍,最终的使用浓度为4000-10000分之一。可能不同的SybrGreenI母液的稀释倍数不同,可通过实验来证明,但高浓度的SybrGreenI肯定会影响PCR反应。另外用水稀释后的SybrGreenI保存的时间很短,一般1周后就不能用了。DMSO似乎反复冻融会影响性能,但原因不明。3、在对引物浓度、Mg2+离子浓度、DMSO含量等进行优化后仍得不到满意的结果,特别是引物二聚体很多时,可以考虑更换引物,因为引物成本低,而优化实验成本很高。
4、当有少量引物二聚体影响荧光结果时,可以提高荧光读板时的温度来消除引物二聚体的影响,如将读板时的温度提高到82度,此时引物二聚体已经解链而产物没有解链。但引物二聚体浓度很高时会严重影响PCR反应,消除引物二聚体的影响也没有用。有荧光定量PCR扩增的效率都接近于100%,可以通过实验来证明。但大多数用户并没有进行这样的实验就直接用2ΔΔC(t)来计算了。这是错误的,会得到错误结论。
6、无论是使用自配的试剂还是用商业的荧光定量试剂盒,最好买够试剂,以免进行预实验或正式实验时没有试剂而必需采用其他试剂,由于不同试剂的缓冲液成份有较大差别,如有的试剂中含有DMSO及Mg2+离子等,可能会影响到实验结果,甚至要重新进行实验条件的优化。
7、不要在管盖上写字,原因很明显,但有些用户习惯了写字,后来再擦掉,也会对实验有些影响。
8、最好使用高质量的PCR管,低质量管的管间差可能会很大。
9、每次实验一定要有阳性对照和阴性对照,以免出现问题时找不到原因。10、在样本很珍贵时可以采用对样本进行稀释的方式进行定量。只要浓度不是太低,理论来讲对稀释是不会影响实验结果的。
其他方法也可以采用类拟的策略,以节约成本,提高效率。
想到的内容就这些了,希望大家多批评指正。
5、大家都知道进行绝对定量需要标准曲线,有些用户认为进行相对定量


