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基因组定点修饰技术

已有 7136 次阅读 2013-9-15 17:02 |个人分类:分子育种|系统分类:科研笔记| 基因组, 技术

基于CRISPR RNA/Cas9系统的基因组定点修饰技术.

Cas9 是一种核酸内切酶,CRISPR RNA用来引导这个酶去切割目标DNA.目标怎么设定?既然这里有RNA,那么

它可以去发现和其互补的DNA.所谓定点靠这个来实现.

这个技术的妙出在于:http://yunpan.cn/QGrT5k5BFXnbk

1 获得的最终产品是经过了遗传修饰的(定点修饰,通过转基因的方法定点修饰,因为这个系

统是细菌里的,所以要靠转基因的方法转到植物中),但终产品里却可以不包含任何转基因的成分(CRISPR

RNA/Cas9,构建到一个载体里,转基因植株以杂合的形式保存就行了).

2 这个技术修饰的是一个物种自身的基因,所以没有明显可见的安全性问题.

3 呵呵,这个技术和我前面设想的用水稻的基因来改良水稻的观点是吻合的.(http://blog.sciencenet.cn/blog-479743-709708.html)

4 外行人,不知道基因还可以这样转.

新东西我也不是很熟,下面是在Pubmed搜索的一些文献,有兴趣的朋友可以细致的看看.估计明年的国家自然科

学基金会有人写这个.

我下载到的一些全文愿意分享:
1: Walsh RM, Hochedlinger K. A variant CRISPR-Cas9 system adds versatility to
genome engineering. Proc Natl Acad Sci U S A. 2013 Sep 6. [Epub ahead of print]
PubMed PMID: 24014593.


2: Chen C, Fenk LA, de Bono M. Efficient genome editing in Caenorhabditis elegans
by CRISPR-targeted homologous recombination. Nucleic Acids Res. 2013 Sep 5. [Epub
ahead of print] PubMed PMID: 24013562.


3: Kondo S, Ueda R. Highly Improved Gene Targeting by Germline-Specific Cas9
Expression in Drosophila. Genetics. 2013 Sep 3. [Epub ahead of print] PubMed
PMID: 24002648.


4: Jiang W, Zhou H, Bi H, Fromm M, Yang B, Weeks DP. Demonstration of
CRISPR/Cas9/sgRNA-mediated targeted gene modification in Arabidopsis, tobacco,
sorghum and rice. Nucleic Acids Res. 2013 Sep 2. [Epub ahead of print] PubMed
PMID: 23999092.


5: Yu Z, Ren M, Wang Z, Zhang B, Rong YS, Jiao R, Gao G. Highly Efficient Genome
Modifications Mediated by CRISPR/Cas9 in Drosophila. Genetics. 2013
Sep;195(1):289-91. doi: 10.1534/genetics.113.153825. Epub 2013 Jul 5. PubMed
PMID: 23833182; PubMed Central PMCID: PMC3761309.


6: Pattanayak V, Lin S, Guilinger JP, Ma E, Doudna JA, Liu DR. High-throughput
profiling of off-target DNA cleavage reveals RNA-programmed Cas9 nuclease
specificity. Nat Biotechnol. 2013 Sep;31(9):839-43. doi: 10.1038/nbt.2673. Epub
2013 Aug 11. PubMed PMID: 23934178.


7: Mali P, Aach J, Stranges PB, Esvelt KM, Moosburner M, Kosuri S, Yang L, Church
GM. CAS9 transcriptional activators for target specificity screening and paired
nickases for cooperative genome engineering. Nat Biotechnol. 2013
Sep;31(9):833-8. doi: 10.1038/nbt.2675. Epub 2013 Aug 1. PubMed PMID: 23907171.


8: Hsu PD, Scott DA, Weinstein JA, Ran FA, Konermann S, Agarwala V, Li Y, Fine
EJ, Wu X, Shalem O, Cradick TJ, Marraffini LA, Bao G, Zhang F. DNA targeting
specificity of RNA-guided Cas9 nucleases. Nat Biotechnol. 2013 Sep;31(9):827-32.
doi: 10.1038/nbt.2647. Epub 2013 Jul 21. PubMed PMID: 23873081.


9: Dickinson DJ, Ward JD, Reiner DJ, Goldstein B. Engineering the Caenorhabditis
elegans genome using Cas9-triggered homologous recombination. Nat Methods. 2013
Sep 1. doi: 10.1038/nmeth.2641. [Epub ahead of print] PubMed PMID: 23995389.


10: Fujii W, Kawasaki K, Sugiura K, Naito K. Efficient generation of large-scale
genome-modified mice using gRNA and CAS9 endonuclease. Nucleic Acids Res. 2013
Aug 30. [Epub ahead of print] PubMed PMID: 23997119.


11: Ran FA, Hsu PD, Lin CY, Gootenberg JS, Konermann S, Trevino AE, Scott DA,
Inoue A, Matoba S, Zhang Y, Zhang F. Double Nicking by RNA-Guided CRISPR Cas9 for
Enhanced Genome Editing Specificity. Cell. 2013 Aug 28. doi:pii:
S0092-8674(13)01015-5. 10.1016/j.cell.2013.08.021. [Epub ahead of print] PubMed
PMID: 23992846.


12: Yang H, Wang H, Shivalila CS, Cheng AW, Shi L, Jaenisch R. One-Step
Generation of Mice Carrying Reporter and Conditional Alleles by
CRISPR/Cas-Mediated Genome Engineering. Cell. 2013 Aug 27. doi:pii:
S0092-8674(13)01016-7. 10.1016/j.cell.2013.08.022. [Epub ahead of print] PubMed
PMID: 23992847.


13: Cheng AW, Wang H, Yang H, Shi L, Katz Y, Theunissen TW, Rangarajan S,
Shivalila CS, Dadon DB, Jaenisch R. Multiplexed activation of endogenous genes by
CRISPR-on, an RNA-guided transcriptional activator system. Cell Res. 2013 Aug 27.
doi: 10.1038/cr.2013.122. [Epub ahead of print] PubMed PMID: 23979020.


14: Waaijers S, Portegijs V, Kerver J, Lemmens BB, Tijsterman M, van den Heuvel
S, Boxem M. CRISPR/Cas9-Targeted Mutagenesis in Caenorhabditis elegans. Genetics.
2013 Aug 26. [Epub ahead of print] PubMed PMID: 23979586.


15: Tzur YB, Friedland AE, Nadarajan S, Church GM, Calarco JA, Colaiácovo MP.
Heritable Custom Genomic Modifications in Caenorhabditis elegans via a
CRISPR-Cas9 System. Genetics. 2013 Aug 26. [Epub ahead of print] PubMed PMID:
23979579.


16: Katic I, Großhans H. Targeted Heritable Mutation and Gene Conversion by
Cas9-CRISPR in Caenorhabditis elegans. Genetics. 2013 Aug 26. [Epub ahead of
print] PubMed PMID: 23979578.


17: Chiu H, Schwartz HT, Antoshechkin I, Sternberg PW. Transgene-Free Genome
Editing in Caenorhabditis elegans Using CRISPR-Cas. Genetics. 2013 Aug 26. [Epub
ahead of print] PubMed PMID: 23979577.


18: Cho SW, Lee J, Carroll D, Kim JS, Lee J. Heritable Gene Knockout in
Caenorhabditis elegans by Direct Injection of Cas9-sgRNA Ribonucleoproteins.
Genetics. 2013 Aug 26. [Epub ahead of print] PubMed PMID: 23979576.


19: Jao LE, Wente SR, Chen W. Efficient multiplex biallelic zebrafish genome
editing using a CRISPR nuclease system. Proc Natl Acad Sci U S A. 2013 Aug
20;110(34):13904-9. doi: 10.1073/pnas.1308335110. Epub 2013 Aug 5. PubMed PMID:
23918387; PubMed Central PMCID: PMC3752207.


20: Xie K, Yang Y. RNA-guided Genome Editing in Plants Using A CRISPR-Cas System.
Mol Plant. 2013 Aug 17. [Epub ahead of print] PubMed PMID: 23956122.


21: Lo TW, Pickle CS, Lin S, Ralston EJ, Gurling M, Schartner CM, Bian Q, Doudna
JA, Meyer BJ. Precise and Heritable Genome Editing in Evolutionarily Diverse
Nematodes Using TALENs and CRISPR/Cas9 to Engineer Insertions and Deletions.
Genetics. 2013 Aug 14. [Epub ahead of print] PubMed PMID: 23934893.


22: Hou Z, Zhang Y, Propson NE, Howden SE, Chu LF, Sontheimer EJ, Thomson JA.
Efficient genome engineering in human pluripotent stem cells using Cas9 from
Neisseria meningitidis. Proc Natl Acad Sci U S A. 2013 Aug 12. [Epub ahead of
print] PubMed PMID: 23940360.


23: Fujita T, Fujii H. Efficient isolation of specific genomic regions and
identification of associated proteins by engineered DNA-binding molecule-mediated
chromatin immunoprecipitation (enChIP) using CRISPR. Biochem Biophys Res Commun.
2013 Aug 11. doi:pii: S0006-291X(13)01329-6. 10.1016/j.bbrc.2013.08.013. [Epub
ahead of print] PubMed PMID: 23942116.


24: Cradick TJ, Fine EJ, Antico CJ, Bao G. CRISPR/Cas9 systems targeting β-globin
and CCR5 genes have substantial off-target activity. Nucleic Acids Res. 2013 Aug
11. [Epub ahead of print] PubMed PMID: 23939622.


25: Gratz SJ, Cummings AM, Nguyen JN, Hamm DC, Donohue LK, Harrison MM, Wildonger
J, O'Connor-Giles KM. Genome Engineering of Drosophila with the CRISPR RNA-Guided
Cas9 Nuclease. Genetics. 2013 Aug;194(4):1029-35. doi:
10.1534/genetics.113.152710. Epub 2013 May 24. PubMed PMID: 23709638; PubMed
Central PMCID: PMC3730909.


26: Friedland AE, Tzur YB, Esvelt KM, Colaiácovo MP, Church GM, Calarco JA.
Heritable genome editing in C. elegans via a CRISPR-Cas9 system. Nat Methods.
2013 Aug;10(8):741-3. doi: 10.1038/nmeth.2532. Epub 2013 Jun 30. PubMed PMID:
23817069.


27: Bikard D, Jiang W, Samai P, Hochschild A, Zhang F, Marraffini LA.
Programmable repression and activation of bacterial gene expression using an
engineered CRISPR-Cas system. Nucleic Acids Res. 2013 Aug 1;41(15):7429-7437.
Epub 2013 Jun 12. PubMed PMID: 23761437; PubMed Central PMCID: PMC3753641.


28: Xiao A, Wang Z, Hu Y, Wu Y, Luo Z, Yang Z, Zu Y, Li W, Huang P, Tong X, Zhu
Z, Lin S, Zhang B. Chromosomal deletions and inversions mediated by TALENs and
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PMC3737551.


29: Yang L, Guell M, Byrne S, Yang JL, De Los Angeles A, Mali P, Aach J,
Kim-Kiselak C, Briggs AW, Rios X, Huang PY, Daley G, Church G. Optimization of
scarless human stem cell genome editing. Nucleic Acids Res. 2013 Jul 31. [Epub
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30: Perez-Pinera P, Kocak DD, Vockley CM, Adler AF, Kabadi AM, Polstein LR,
Thakore PI, Glass KA, Ousterout DG, Leong KW, Guilak F, Crawford GE, Reddy TE,
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31: Bassett AR, Tibbit C, Ponting CP, Liu JL. Highly efficient targeted
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23827738; PubMed Central PMCID: PMC3714591.


32: Wei C, Liu J, Yu Z, Zhang B, Gao G, Jiao R. TALEN or Cas9 - rapid, efficient
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33: Wang H, Yang H, Shivalila CS, Dawlaty MM, Cheng AW, Zhang F, Jaenisch R.
One-step generation of mice carrying mutations in multiple genes by
CRISPR/Cas-mediated genome engineering. Cell. 2013 May 9;153(4):910-8. doi:
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34: Chang N, Sun C, Gao L, Zhu D, Xu X, Zhu X, Xiong JW, Xi JJ. Genome editing
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35: DiCarlo JE, Norville JE, Mali P, Rios X, Aach J, Church GM. Genome
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36: Cho SW, Kim S, Kim JM, Kim JS. Targeted genome engineering in human cells
with the Cas9 RNA-guided endonuclease. Nat Biotechnol. 2013 Mar;31(3):230-2. doi:
10.1038/nbt.2507. Epub 2013 Jan 29. PubMed PMID: 23360966.


37: Jiang W, Bikard D, Cox D, Zhang F, Marraffini LA. RNA-guided editing of
bacterial genomes using CRISPR-Cas systems. Nat Biotechnol. 2013 Mar;31(3):233-9.
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PMCID: PMC3748948.


38: Hwang WY, Fu Y, Reyon D, Maeder ML, Tsai SQ, Sander JD, Peterson RT, Yeh JR,
Joung JK. Efficient genome editing in zebrafish using a CRISPR-Cas system. Nat
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39: Mali P, Yang L, Esvelt KM, Aach J, Guell M, DiCarlo JE, Norville JE, Church
GM. RNA-guided human genome engineering via Cas9. Science. 2013 Feb
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40: Cong L, Ran FA, Cox D, Lin S, Barretto R, Habib N, Hsu PD, Wu X, Jiang W,
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41: Jinek M, East A, Cheng A, Lin S, Ma E, Doudna J. RNA-programmed genome
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42: Pleckaityte M, Zilnyte M, Zvirbliene A. Insights into the CRISPR/Cas system
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43: Gasiunas G, Barrangou R, Horvath P, Siksnys V. Cas9-crRNA ribonucleoprotein
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44: Liu J, Li C, Yu Z, Huang P, Wu H, Wei C, Zhu N, Shen Y, Chen Y, Zhang B, Deng
WM, Jiao R. Efficient and specific modifications of the Drosophila genome by
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45: Sapranauskas R, Gasiunas G, Fremaux C, Barrangou R, Horvath P, Siksnys V. The
Streptococcus thermophilus CRISPR/Cas system provides immunity in Escherichia
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2011 Aug 3. PubMed PMID: 21813460; PubMed Central PMCID: PMC3241640.


46: Huang J, Zhou W, Dong W, Hong Y. Targeted engineering of the Drosophila
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19823033.

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Plant genome editing made easy: targeted mutagenesis in model and crop plants using the CRISPR/Cas system

 



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