CRISPR Journal最新文献_第5页

From Code to Comprehension: AI Captures the Language of Life. 从代码到理解：人工智能捕捉生活语言。

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2025-02-01 Epub Date: 2025-01-29 DOI: 10.1089/crispr.2025.0008

Luis E Valentin-Alvarado, Gavin J Knott

引用次数: 0

Establishment of a CRISPR-Cas9-Mediated Genome Editing System in Flax. crispr - cas9介导的亚麻基因组编辑系统的建立

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2025-02-01 Epub Date: 2025-01-13 DOI: 10.1089/crispr.2024.0064

Chunming Wang, Chao Sun, Li Shi, Jiannan Zhou, Shuai Liu, Yongsheng Bai, Weichang Yu

{"title":"Establishment of a CRISPR-Cas9-Mediated Genome Editing System in Flax.","authors":"Chunming Wang, Chao Sun, Li Shi, Jiannan Zhou, Shuai Liu, Yongsheng Bai, Weichang Yu","doi":"10.1089/crispr.2024.0064","DOIUrl":"10.1089/crispr.2024.0064","url":null,"abstract":"Flax is an important crop used for oil and fiber production. Although genetic engineering has been possible in flax, it is not commonly used to produce cultivars. However, the use of genome editing technology, which can produce site-specific mutations without introducing foreign genes, may be a valuable tool for creating elite cultivars that can be easily cultivated. The purpose of this study was to investigate the potential of genome editing in flax by establishing the clustered regularly interspaced short palindromic repeats (CR ISPR)-CRISPR-associated protein 9 (CRISPR-Cas9) genome editing system using the phytoene desaturase (PDS) gene, which produces albino mutants that are easily identifiable. Four sgRNAs were designed from two PDS genes of Flax (LuPDS1 and LuPDS2), and CRISPR-Cas9 genome editing vectors were constructed. After gene transformation, albino phenotypes were observed in transformed callus and regenerated plantlets on selection media. Polymerase chain reaction (PCR) amplification and sequencing of the PDS genes revealed deletions and insertions in the albino tissues, indicating successful editing of the PDS genes. Potential off-target sites were analyzed, but no off-target mutations were found, indicating the specificity of the CRISPR-Cas9 system. The establishment of a flax genome editing system using the CRISPR-Cas9 technology opens up new possibilities for the genetic engineering of flax. This study demonstrates the potential of genome editing in creating elite cultivars that can be easily cultivated, which can have significant implications for the flax industry.","PeriodicalId":54232,"journal":{"name":"CRISPR Journal","volume":" ","pages":"51-59"},"PeriodicalIF":3.7,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142973285","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

CRISPR-Cas9-Mediated Correction of TSC2 Pathogenic Variants in iPSCs from Patients with Tuberous Sclerosis Complex Type 2. crispr - cas9介导的2型结节性硬化症患者iPSCs中TSC2致病变异的校正

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2025-02-01 Epub Date: 2024-12-10 DOI: 10.1089/crispr.2024.0079

Gongbo Guo, Morgan Moser, Lincoln Chifamba, Dominic Julian, Samantha Teierle, Prajwal Rajappa, Cecelia Miller, Mark E Hester

{"title":"CRISPR-Cas9-Mediated Correction of TSC2 Pathogenic Variants in iPSCs from Patients with Tuberous Sclerosis Complex Type 2.","authors":"Gongbo Guo, Morgan Moser, Lincoln Chifamba, Dominic Julian, Samantha Teierle, Prajwal Rajappa, Cecelia Miller, Mark E Hester","doi":"10.1089/crispr.2024.0079","DOIUrl":"10.1089/crispr.2024.0079","url":null,"abstract":"Tuberous sclerosis complex (TSC) is an autosomal dominant disorder caused by mutations in either the TSC1 or TSC2 genes. Though TSC causes the formation of nonmalignant tumors throughout multiple organs, the most frequent causes of mortality and morbidity are due to neurological complications. In two-thirds of cases, TSC occurs sporadically and TSC2 pathogenic variants are approximately three times more prevalent than TSC1 pathogenic variants. Here, we utilized CRISPR-Cas9-mediated homology directed repair in patient induced pluripotent stem cells (iPSCs) to correct two types of TSC2 pathogenic variants generating two isogenic lines. In one line, we corrected a splice acceptor variant (c.2743-1G>A), which causes the skipping of coding exon 23 and subsequent frameshift and introduction of a stop codon in coding exon 25. In the second line, we corrected a missense variant in coding exon 40 within the GTPase-activating protein domain (c.5228G>A, p.R1743Q). The generation of TSC2 patient iPSCs in parallel with their corresponding CRISPR-corrected isogenic lines will be an important tool for disease modeling applications and for developing therapeutics.","PeriodicalId":54232,"journal":{"name":"CRISPR Journal","volume":" ","pages":"60-70"},"PeriodicalIF":3.7,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142802489","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Efficient Generation of SOCS2 Knock-Out Sheep by Electroporation of CRISPR-Cas9 Ribonucleoprotein Complex with Dual-sgRNAs. 用双sgrnas电穿孔CRISPR-Cas9核糖核蛋白复合物高效产生SOCS2基因敲除羊。

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2025-02-01 Epub Date: 2025-01-14 DOI: 10.1089/crispr.2024.0055

Ahmed K Mahdi, Devon S Fitzpatrick, Darren E Hagen, Bret R McNabb, Tara Urbano Beach, William M Muir, Nicholas Werry, Alison L Van Eenennaam, Juan F Medrano, Pablo J Ross

{"title":"Efficient Generation of SOCS2 Knock-Out Sheep by Electroporation of CRISPR-Cas9 Ribonucleoprotein Complex with Dual-sgRNAs.","authors":"Ahmed K Mahdi, Devon S Fitzpatrick, Darren E Hagen, Bret R McNabb, Tara Urbano Beach, William M Muir, Nicholas Werry, Alison L Van Eenennaam, Juan F Medrano, Pablo J Ross","doi":"10.1089/crispr.2024.0055","DOIUrl":"10.1089/crispr.2024.0055","url":null,"abstract":"In mice, naturally occurring and induced mutations in the suppressor of cytokine signaling-2 (Socs2) gene are associated with a high growth phenotype characterized by rapid post-weaning weight gain and 30-50% heavier mature body weight. In this work, we demonstrate an electroporation-based method of producing SOCS2 knock-out (KO) sheep. Electroporation of dual-guide CRISPR-Cas9 ribonucleoprotein complexes targeting SOCS2 was performed 6 h post-fertilization in sheep zygotes. Fifty-two blastocysts were transferred to 13 estrus-synchronized recipients, yielding five live lambs and one stillborn. These lambs all carried mutations predicted to result in SOCS2 KO. Three carried large deletion alleles which evaded detection in initial PCR screening. Off-target analysis using whole genome sequencing comparing the frequency of mutations in regions within 100 bp of possible sgRNA binding sites (up to 4 bp mismatches) and elsewhere in the genome showed no significant difference when comparing unedited control sheep to edited animals (p = 0.71). In conclusion, electroporation of zygotes with dual-guide CRISPR-Cas9 RNPs was effective at generating knock-out sheep with no substantial off-target activity.","PeriodicalId":54232,"journal":{"name":"CRISPR Journal","volume":" ","pages":"13-25"},"PeriodicalIF":3.7,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142980871","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

An Efficient and Cost-Effective Novel Strategy for Identifying CRISPR-Cas-Mediated Mutants in Plant Offspring. 在植物后代中鉴定crispr - cas介导的突变体的一种高效且经济的新策略。

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2025-02-01 Epub Date: 2025-01-13 DOI: 10.1089/crispr.2024.0057

Xueting Liu, Li Huang, Meng Li, Ying Fu, Wei Zhang, Sen Zhang, Xinyue Liang, Qian Shen

{"title":"An Efficient and Cost-Effective Novel Strategy for Identifying CRISPR-Cas-Mediated Mutants in Plant Offspring.","authors":"Xueting Liu, Li Huang, Meng Li, Ying Fu, Wei Zhang, Sen Zhang, Xinyue Liang, Qian Shen","doi":"10.1089/crispr.2024.0057","DOIUrl":"10.1089/crispr.2024.0057","url":null,"abstract":"The clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 system has revolutionized targeted mutagenesis, but screening for mutations in large sample pools can be time-consuming and costly. We present an efficient and cost-effective polymerase chain reaction (PCR)-based strategy for identifying edited mutants in the T1 generation. Unlike previous methods, our approach addresses the challenges of large progeny populations by using T0 generation sequencing results for genotype prediction. The T1 generation plants were then divided into two scenarios: ≥4 bp indels and 1-2 bp indels. Specific primers are designed for these categories, employing dual-primers critical annealing temperature PCR for ≥4 bp indels and the derived cleaved amplified polymorphic sequences (dCAPS) method for 1-2 bp indels. This method is straightforward, cost-effective, and allows rapid and precise identification of T1 editing outcomes, distinguishing between wild-type, heterozygous, and homozygous plants. This strategy accelerates gene functional analysis in plants and beyond.","PeriodicalId":54232,"journal":{"name":"CRISPR Journal","volume":" ","pages":"26-36"},"PeriodicalIF":3.7,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142973282","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Genome Editing in Apicomplexan Parasites: Current Status, Challenges, and Future Possibilities. 表皮复合寄生虫的基因组编辑：现状、挑战和未来的可能性》。

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2024-12-01 Epub Date: 2024-10-10 DOI: 10.1089/crispr.2024.0032

Ethel Webi, Hussein M Abkallo, George Obiero, Paul Ndegwa, Shengsong Xie, Shuhong Zhao, Vishvanath Nene, Lucilla Steinaa

引用次数: 0

Correction to: Give Cas a Chance: An Actionable Path to a Platform for CRISPR Cures, by Fyodor D. Urnov [DOI: 10.1089/crispr.2024.0082]. 更正为给 Cas 一个机会：费奥多尔-D-乌尔诺夫（Fyodor D. Urnov）著：《通往 CRISPR 治疗平台的可行之路》[DOI: 10.1089/crispr.2024.0082]。

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2024-12-01 DOI: 10.1089/crispr.2024.0082.correx

引用次数: 0

Benchmark Software and Data for Evaluating CRISPR-Cas9 Experimental Pipelines Through the Assessment of a Calibration Screen. 通过校准筛选评估 CRISPR-Cas9 实验流程的基准软件和数据。

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2024-12-01 Epub Date: 2024-01-02 DOI: 10.1089/crispr.2023.0040

Raffaele M Iannuzzi, Ichcha Manipur, Clare Pacini, Fiona M Behan, Mario R Guarracino, Mathew J Garnett, Aurora Savino, Francesco Iorio

{"title":"Benchmark Software and Data for Evaluating CRISPR-Cas9 Experimental Pipelines Through the Assessment of a Calibration Screen.","authors":"Raffaele M Iannuzzi, Ichcha Manipur, Clare Pacini, Fiona M Behan, Mario R Guarracino, Mathew J Garnett, Aurora Savino, Francesco Iorio","doi":"10.1089/crispr.2023.0040","DOIUrl":"10.1089/crispr.2023.0040","url":null,"abstract":"Genome-wide genetic screens using CRISPR-guide RNA libraries are widely performed in mammalian cells to functionally characterize individual genes and for the discovery of new anticancer therapeutic targets. As the effectiveness of such powerful and precise tools for cancer pharmacogenomics is emerging, tools and methods for their quality assessment are becoming increasingly necessary. Here, we provide an R package and a high-quality reference data set for the assessment of novel experimental pipelines through which a single calibration experiment has been executed: a screen of the HT-29 human colorectal cancer cell line with a commercially available genome-wide library of single-guide RNAs. This package and data allow experimental researchers to benchmark their screens and produce a quality-control report, encompassing several quality and validation metrics. The R code used for processing the reference data set, for its quality assessment, as well as to evaluate the quality of a user-provided screen, and to reproduce the figures presented in this article is available at https://github.com/DepMap-Analytics/HT29benchmark. The reference data is publicly available on FigShare.","PeriodicalId":54232,"journal":{"name":"CRISPR Journal","volume":" ","pages":"355-365"},"PeriodicalIF":3.7,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139075824","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

'Tis the Season: CRISPR Products All Around. 这个季节：CRISPR产品无处不在。

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2024-12-01 Epub Date: 2024-12-06 DOI: 10.1089/crispr.2024.0094

Rodolphe Barrangou

引用次数: 0

Early Detection of Wildlife Disease Pathogens Using CRISPR-Cas System Methods. 利用 CRISPR-Cas 系统方法早期检测野生动物疾病病原体。

IF 3.7 4区生物学

CRISPR Journal Pub Date : 2024-12-01 Epub Date: 2024-10-31 DOI: 10.1089/crispr.2024.0030

Adam A Pérez, Guelaguetza Vazquez-Meves, Margaret E Hunter

引用次数: 0