Works Published in 2019
Displaying all 12 works
Sorted by most recent date added to the index first, which may not be the same as publication date order.
2019 article
CRATES: A one-step assembly method for Class 2 CRISPR arrays
TUMOR IMMUNOLOGY AND IMMUNOTHERAPY - MOLECULAR METHODS, Vol. 629, pp. 493–511.
MeSH headings : CRISPR-Cas Systems / genetics; Clustered Regularly Interspaced Short Palindromic Repeats / genetics; DNA Cleavage; Escherichia coli / genetics; Gene Editing / methods; Plasmids / genetics
TL;DR:
The cloning method CRATES (CRISPR Assembly through Trimmed Ends of Spacers) is reported, expected to simplify the study of natural CRISPR arrays and facilitate multiplexed targeting with programmable nucleases from Class 2 Cas nucleases across the myriad applications of CRISpr technologies.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: June 29, 2020
2019 journal article
An educational module to explore CRISPR technologies with a cell-free transcription-translation system
SYNTHETIC BIOLOGY, 4(1).
author keywords: CRISPR; Cas9; education modules; synthetic biology; TXTL
TL;DR:
Three educational modules intended to expose undergraduate students to CRISPR technologies using TXTL are described and are expected to allow students to experience the power and promise of CRISpr technologies in the classroom and to engage with their instructor and peers about the opportunities and potential risks for society.
(via Semantic Scholar)
academic.oup.com (publisher PDF)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: February 27, 2020
2019 journal article
Targeted transcriptional modulation with type I CRISPR-Cas systems in human cells
NATURE BIOTECHNOLOGY, 37(12), 1493-+.
MeSH headings : CRISPR-Cas Systems / genetics; Escherichia coli / genetics; Genetic Engineering / methods; HEK293 Cells; Humans; Listeria monocytogenes / genetics; RNA, Guide, Kinetoplastida / genetics; Transcription, Genetic / genetics
TL;DR:
This study repurposes type I variants of class 1 CRISPR–Cas systems from Escherichia coli and Listeria monocytogenes, which target DNA via a multi-component RNA-guided complex termed Cascade, and demonstrates the use of Cascade as a CRISpr-based technology for targeted eukaryotic gene regulation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: December 30, 2019
2019 journal article
Aerobic cometabolism of 1,4-dioxane by isobutane-utilizing microorganisms including Rhodococcus rhodochrous strain 21198 in aquifer microcosms: Experimental and modeling study
SCIENCE OF THE TOTAL ENVIRONMENT, 694.
author keywords: 1,4-dioxane; Cometabolism; Inhibition; Numerical modeling: Groundwater contamination
MeSH headings : Biodegradation, Environmental; Butanes / metabolism; Colorado; Dioxanes / metabolism; Ecosystem; Groundwater / chemistry; Groundwater / microbiology; Rhodococcus / metabolism; Water Microbiology; Water Pollutants, Chemical / analysis; Water Pollutants, Chemical / metabolism
TL;DR:
Results showed that, over time and with sufficient inorganic nutrients, biostimulation of native microorganisms with isobutane was just as effective as bioaugmentation with strain 21198 to achieve 1,4-D transformation in the microcosms.
(via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: December 9, 2019
2019 review
Barriers to genome editing with CRISPR in bacteria
[Review of ]. JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY, 46(9-10), 1327–1341.
author keywords: Bacteria; Nuclease; Genome editing; CRISPR; Recombineering
MeSH headings : Bacteria / genetics; Clustered Regularly Interspaced Short Palindromic Repeats; Gene Editing; Humans
TL;DR:
Existing barriers to implementing CRISPR-based editing across diverse bacterial species are analyzed and guidelines to help achieve and enhance editing in a wider range of bacterial species, including non-model strains are offered.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: October 28, 2019
2019 journal article
The Acidaminococcus sp. Cas12a nuclease recognizes GTTV and GCTV as non-canonical PAMs
FEMS MICROBIOLOGY LETTERS, 366(8).
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
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)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: September 9, 2019
2019 journal article
Modular one-pot assembly of CRISPR arrays enables library generation and reveals factors influencing crRNA biogenesis
NATURE COMMUNICATIONS, 10.
MeSH headings : Base Sequence; CRISPR-Associated Proteins / metabolism; Clustered Regularly Interspaced Short Palindromic Repeats / genetics; DNA / genetics; Endonucleases / metabolism; Gene Library; Genetic Techniques; HEK293 Cells; Humans; Nucleic Acid Conformation; Plasmids / metabolism; RNA / biosynthesis; RNA, Messenger / genetics; RNA, Messenger / metabolism; Saccharomyces cerevisiae / metabolism
TL;DR:
A modular, one-pot scheme called CRATES to construct CRISPR arrays and array libraries that can facilitate diverse multiplexing applications and help identify factors impacting crRNA biogenesis is presented.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: July 22, 2019
2019 journal article
The Francisella novicida Cas12a is sensitive to the structure downstream of the terminal repeat in CRISPR arrays
RNA BIOLOGY, 16(4), 404–412.
author keywords: Cpf1; CRISPR; RNA structure; terminator; TXTL
MeSH headings : CRISPR-Associated Proteins / metabolism; Clustered Regularly Interspaced Short Palindromic Repeats / genetics; DNA Cleavage; DNA, Intergenic / genetics; Francisella / genetics; Nucleic Acid Conformation; RNA Processing, Post-Transcriptional / genetics; RNA, Guide, Kinetoplastida / metabolism; Rho Factor / metabolism; Terminal Repeat Sequences / genetics; Transcription Termination, Genetic
TL;DR:
It is shown that a structured hairpin located immediately downstream of the 3ʹ repeat interferes with utilization of the adjacent encoded guide RNA by Francisella novicida (Fn)Cas12a, revealing that sequences surrounding a CRISPR array can interfere with the function of aCRISPR nuclease.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: May 20, 2019
2019 journal article
Distinct timescales of RNA regulators enable the construction of a genetic pulse generator
BIOTECHNOLOGY AND BIOENGINEERING, 116(5), 1139–1151.
author keywords: Bayesian methods; CRISPRi; model-guided design; RNA-based circuits; sRNA
MeSH headings : CRISPR-Cas Systems; Cell-Free System / chemistry; Cell-Free System / metabolism; Clustered Regularly Interspaced Short Palindromic Repeats; Models, Chemical; RNA / chemistry; RNA / metabolism; Transcription, Genetic; Transcriptional Activation
TL;DR:
This work individually characterize two modes of RNA-based transcriptional regulation, using small transcription activating RNAs (STARs) and CRISPR interference (CRISPRi), and shows how their distinct regulatory timescales can be used to engineer a composed feedforward loop that creates a pulse of gene expression.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: April 15, 2019
2019 journal article
Genome Editing with CRISPR-Cas9 in Lactobacillus plantarum Revealed That Editing Outcomes Can Vary Across Strains and Between Methods
BIOTECHNOLOGY JOURNAL, 14(3).
author keywords: genome editing; lactobacilli; recombineering; shuttle plasmids
MeSH headings : CRISPR-Cas Systems / genetics; Clustered Regularly Interspaced Short Palindromic Repeats / genetics; Gene Editing / methods; Lactobacillus plantarum / genetics; Plasmids / genetics; Recombinases / genetics; Recombination, Genetic / genetics
TL;DR:
Surprising differences for Cas9-mediated genome editing between methods and related strains are highlighted, arguing for the need for multiple, distinct methods when performing CRISPR-based editing in bacteria.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: March 18, 2019
2019 journal article
1,4-Dioxane in drinking water: Emerging for forty years and still unregulated
Current Opinion in Environmental Science & Health, 1.
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Sources: NC State University Libraries, NC State University Libraries
Added: February 5, 2019
2019 journal article
Nitrogen Gas Fixation and Conversion to Ammonium Using Microbial Electrolysis Cells
ACS Sustainable Chemistry & Engineering, 1.
author keywords: Nitrogen fixation; Ammonium production; Haber-Bosch; Microbial electrochemical technology; Geobacter
TL;DR:
This study explored the possibility of converting N2 into NH4+ using anaerobic, single-chamber microbial electrolysis cells (MECs) and found that the presence of NH4+, which can inhibit the activity of the nitrogenase enzyme, did not significantly reduce N2 fixation rates.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: February 5, 2019
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