Thomas Jacobsen

Works (5)

Updated: July 31st, 2023 21:15

2020 article

Characterization of Cas12a nucleases reveals diverse PAM profiles between closely-related orthologs

Jacobsen, T., Ttofali, F., Liao, C., Manchalu, S., Gray, B. N., & Beisel, C. L. (2020, April 7). Nucleic Acids Research.

By: T. Jacobsen n, F. Ttofali n, C. Liao *, S. Manchalu *, B. Gray* & C. Beisel n

MeSH headings : Bacterial Proteins / chemistry; Bacterial Proteins / classification; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; CRISPR-Associated Proteins / chemistry; CRISPR-Associated Proteins / classification; CRISPR-Associated Proteins / genetics; CRISPR-Associated Proteins / metabolism; DNA Cleavage; Endodeoxyribonucleases / chemistry; Endodeoxyribonucleases / classification; Endodeoxyribonucleases / genetics; Endodeoxyribonucleases / metabolism; HEK293 Cells; Humans; Mutation; Phylogeny; Prevotella / enzymology; Protein Biosynthesis; Protein Domains; Transcription, Genetic
topics (OpenAlex): CRISPR and Genetic Engineering; Insect symbiosis and bacterial influences; Mosquito-borne diseases and control
TL;DR: Cas12a nucleases therefore can exhibit widely varying properties between otherwise related orthologs, suggesting selective pressure to diversify PAM recognition and supporting expansion of the CRISPR toolbox through ortholog mining and PAM engineering. (via Semantic Scholar)
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Source: Web Of Science
Added: October 5, 2020

2020 article

Tunable self-cleaving ribozymes for modulating gene expression in eukaryotic systems

Jacobsen, T., Yi, G., Asafen, H. A., Jermusyk, A. A., Beisel, C. L., & Reeves, G. T. (2020, April 30). PLoS ONE.

By: T. Jacobsen n, G. Yi n, H. Asafen  n, A. Jermusyk  n, C. Beisel n & G. Reeves n

MeSH headings : Animals; Drosophila / genetics; Eukaryota / genetics; Eukaryota / metabolism; Eukaryotic Cells / metabolism; Gene Expression / genetics; Gene Expression / physiology; Gene Expression Regulation / genetics; Gene Expression Regulation / physiology; Genetic Engineering / methods; Nucleic Acid Conformation; Proof of Concept Study; RNA, Catalytic / genetics; RNA, Catalytic / physiology; RNA, Messenger / metabolism; Synthetic Biology / methods
topics (OpenAlex): RNA and protein synthesis mechanisms; Advanced biosensing and bioanalysis techniques; RNA Interference and Gene Delivery
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Source: Web Of Science
Added: June 22, 2020

2019 article

The Acidaminococcus sp. Cas12a nuclease recognizes GTTV and GCTV as non-canonical PAMs

Jacobsen, T., Liao, C., & Beisel, C. L. (2019, April 1). FEMS Microbiology Letters.

By: T. Jacobsen n, C. Liao * & C. Beisel n

author keywords: Cas nuclease; Cpf1; CRISPR-Cas systems; PAM; TIDE; TXTL
MeSH headings : Acidaminococcus / enzymology; Acidaminococcus / genetics; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; CRISPR-Associated Proteins / genetics; CRISPR-Associated Proteins / metabolism; CRISPR-Cas Systems; Catalytic Domain; DNA Cleavage; Endodeoxyribonucleases / genetics; Endodeoxyribonucleases / metabolism; Endonucleases / genetics; Endonucleases / metabolism; Escherichia coli / genetics; Gene Editing; HEK293 Cells; Humans; Nucleotide Motifs; Plasmids / genetics
topics (OpenAlex): CRISPR and Genetic Engineering; RNA and protein synthesis mechanisms; Plant Virus Research Studies; Insect symbiosis and bacterial influences
TL;DR: Results show that wild-type AsCas12a can recognize non-canonical GTTV and GCTV motifs and exemplify why the range of PAMs recognized by Cas nucleases are poorly captured with a consensus sequence. (via Semantic Scholar)
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Added: September 9, 2019

2018 article

Rapid and Scalable Characterization of CRISPR Technologies Using an E. coli Cell-Free Transcription-Translation System

Marshall, R., Maxwell, C. S., Collins, S. P., Jacobsen, T., Luo, M. L., Begemann, M. B., … Noireaux, V. (2018, January 1). Molecular Cell.

By: R. Marshall*, C. Maxwell  n, S. Collins n, T. Jacobsen n, M. Luo n, M. Begemann *, B. Gray*, E. January* ...

MeSH headings : CRISPR-Cas Systems / genetics; Cell-Free System / metabolism; Clustered Regularly Interspaced Short Palindromic Repeats / genetics; DNA, Bacterial / genetics; Endonucleases / metabolism; Escherichia coli / genetics; Genetic Engineering / methods; Oryza / genetics; Protein Biosynthesis / genetics; RNA, Guide, Kinetoplastida / genetics; Transcription, Genetic / genetics
topics (OpenAlex): CRISPR and Genetic Engineering; Innovation and Socioeconomic Development; Advanced biosensing and bioanalysis techniques
TL;DR: The use of E. coli cell-free transcription-translation (TXTL) systems are presented to vastly improve the speed and scalability of CRISPR characterization and validation. (via Semantic Scholar)
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Source: Web Of Science
Added: August 6, 2018

2017 article

A facilitated diffusion mechanism establishes the Drosophila Dorsal gradient

Carrell, S. N., O'Connell, M. D., Jacobsen, T., Allen, A. E., Smith, S. M., & Reeves, G. T. (2017, January 1). Development.

By: S. Carrell n, M. O'Connell n, T. Jacobsen n, A. Allen n, S. Smith  n & G. Reeves n

author keywords: Morphogen; Tissue patterning; Mathematical modeling; Dorsal; Cactus; Shuttling
MeSH headings : Animals; Animals, Genetically Modified; Biophysical Phenomena; Body Patterning / genetics; Body Patterning / physiology; Computer Simulation; DNA-Binding Proteins / genetics; DNA-Binding Proteins / physiology; Drosophila Proteins / genetics; Drosophila Proteins / physiology; Drosophila melanogaster / embryology; Drosophila melanogaster / genetics; Drosophila melanogaster / physiology; Facilitated Diffusion; Female; Models, Biological; Nuclear Proteins / genetics; Nuclear Proteins / physiology; Phosphoproteins / genetics; Phosphoproteins / physiology; Signal Transduction; Toll-Like Receptors / genetics; Toll-Like Receptors / physiology; Transcription Factors / genetics; Transcription Factors / physiology
topics (OpenAlex): Developmental Biology and Gene Regulation; Cellular Mechanics and Interactions; Bone Metabolism and Diseases
TL;DR: Dorsal, a transcription factor that patterns the Drosophila dorsal-ventral axis, accumulates at the embryo ventral midline, and model-guided experiments show that the inhibitor Cactus shuttles Dorsal to the ventral side. (via Semantic Scholar)
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Source: Web Of Science
Added: August 6, 2018

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