Scott Collins

Works (12)

Updated: April 25th, 2025 19:05

2024 article

Expanding the flexibility of base editing for high-throughput genetic screens in bacteria

Gawlitt, S., Collins, S. P., Yu, Y., Blackman, S. A., Barquist, L., & Beisel, C. L. (2024, March 18). Nucleic Acids Research.

By: S. Gawlitt*, S. Collins n, Y. Yu *, S. Blackman n, L. Barquist * & C. Beisel*

MeSH headings : Gene Editing / methods; CRISPR-Cas Systems; Escherichia coli / genetics; High-Throughput Screening Assays / methods; Genome, Bacterial / genetics; CRISPR-Associated Protein 9 / genetics; CRISPR-Associated Protein 9 / metabolism; Streptococcus / genetics; Streptococcus pyogenes / genetics; Streptococcus pyogenes / enzymology; Machine Learning; RNA, Guide, CRISPR-Cas Systems / genetics
topics (OpenAlex): CRISPR and Genetic Engineering; RNA and protein synthesis mechanisms; Bacterial Genetics and Biotechnology
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: April 1, 2024

2024 journal article

Inhibiting methanogenesis by targeting thermodynamics and enzymatic reactions in mixed cultures of rumen microbes in vitro

Frontiers in Microbiology, 15.

By: K. Tanaka n, S. Collins n, K. Polkoff n & V. Fellner n 

author keywords: methane mitigation; rumen microbiome; anaerobic fermentation; methanogenesis; thermodynamics; enzymatic reactions
topics (OpenAlex): Ruminant Nutrition and Digestive Physiology; Anaerobic Digestion and Biogas Production; Microbial Metabolic Engineering and Bioproduction
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: September 9, 2024

2023 article

Interrogating two extensively self-targeting Type I CRISPR-Cas systems in Xanthomonas albilineans reveals distinct anti-CRISPR proteins that block DNA degradation

Wimmer, F., Englert, F., Wandera, K. G., Alkhnbashi, O. S., Collins, S. P., Backofen, R., & Beisel, C. L. (2023, November 28). Nucleic Acids Research.

By: F. Wimmer *, F. Englert*, K. Wandera *, O. Alkhnbashi *, S. Collins n, R. Backofen *, C. Beisel n

MeSH headings : CRISPR-Cas Systems; Escherichia coli / genetics; Escherichia coli / metabolism; Xanthomonas / genetics; DNA / genetics; CRISPR-Associated Proteins / metabolism
topics (OpenAlex): CRISPR and Genetic Engineering; Insect symbiosis and bacterial influences; Plant Virus Research Studies
TL;DR: Investigation of extensive self-targeting by two CRISPR-Cas systems encoding 24 self-targeting spacers in the plant pathogen Xanthomonas albilineans shows that the native I-C and I-F1 systems are actively expressed and that CRISPR RNAs are properly processed. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: December 18, 2023

2022 article

A target expression threshold dictates invader defense and prevents autoimmunity by CRISPR-Cas13

Vialetto, E., Yu, Y., Collins, S. P., Wandera, K. G., Barquist, L., & Beisel, C. L. (2022, June 10). Cell Host & Microbe.

By: E. Vialetto *, Y. Yu *, S. Collins n, K. Wandera *, L. Barquist * & C. Beisel n

MeSH headings : Autoimmunity / genetics; Bacteriophages / genetics; CRISPR-Cas Systems; Plasmids; RNA
topics (OpenAlex): CRISPR and Genetic Engineering; Innovation and Socioeconomic Development; Evolution and Genetic Dynamics
TL;DR: It was found that endogenous non-essential transcripts targeted by crRNAs rarely elicited autoimmunity, and target expression levels were established as an additional criterion for immune defense by RNA-targeting CRISPR-Cas systems, preventing autoIMmunity and distinguishing pathogenic and benign invaders. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: November 21, 2022

2021 article

In Situ Biomanufacturing of Small Molecules in the Mammalian Gut by Probiotic Saccharomyces boulardii

Durmusoglu, D., Al’Abri, I. S., Collins, S. P., Cheng, J., Eroglu, A., Beisel, C. L., & Crook, N. (2021, April 12). ACS Synthetic Biology, Vol. 10, pp. 1039–1052.

By: D. Durmusoglu n, I. Al’Abri n, S. Collins n, J. Cheng n, A. Eroglu n , C. Beisel n, N. Crook n 

author keywords: Saccharomyces boulardii; probiotic engineering; metabolic engineering; colonization profile; in situ production; beta-carotene
MeSH headings : Animals; Antineoplastic Agents / metabolism; CRISPR-Cas Systems; Feces / chemistry; Female; Gastrointestinal Microbiome; Gastrointestinal Tract / metabolism; Gastrointestinal Tract / microbiology; Gene Editing / methods; Gene Expression; Indoles / metabolism; Male; Metabolic Engineering / methods; Mice; Mice, Inbred C57BL; Microorganisms, Genetically-Modified; Multigene Family; Plasmids / genetics; Probiotics / metabolism; Promoter Regions, Genetic; Provitamins / biosynthesis; Saccharomyces boulardii / genetics; Saccharomyces boulardii / metabolism; Saccharomyces cerevisiae / genetics; beta Carotene / biosynthesis
topics (OpenAlex): Microbial Metabolism and Applications; Probiotics and Fermented Foods; CRISPR and Genetic Engineering
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID, NC State University Libraries
Added: May 6, 2021

2021 article

Sequence-independent RNA sensing and DNA targeting by a split domain CRISPR–Cas12a gRNA switch

Collins, S. P., Rostain, W., Liao, C., & Beisel, C. L. (2021, February 5). Nucleic Acids Research.

By: S. Collins n, W. Rostain *, C. Liao * & C. Beisel n

MeSH headings : CRISPR-Associated Proteins / metabolism; CRISPR-Cas Systems; DNA / chemistry; Endodeoxyribonucleases / metabolism; Escherichia coli / genetics; Phosphotransferases (Alcohol Group Acceptor) / genetics; Protein Biosynthesis; RNA / chemistry; RNA / metabolism; RNA, Messenger / metabolism; Transcription, Genetic
topics (OpenAlex): CRISPR and Genetic Engineering; RNA and protein synthesis mechanisms; Advanced biosensing and bioanalysis techniques
TL;DR: The design framework thus further enables tethering of CRISPR activities to cellular states and could be designed to sense endogenous RNAs expressed only under specific growth conditions, rendering Cas12a targeting activity dependent on cellular metabolism and stress. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: June 10, 2021

2020 article

A positive, growth-based PAM screen identifies noncanonical motifs recognized by the S. pyogenes Cas9

Collias, D., Leenay, R. T., Slotkowski, R. A., Zuo, Z., Collins, S. P., McGirr, B. A., … Beisel, C. L. (2020, July 15). Science Advances.

By: D. Collias n, R. Leenay n, R. Slotkowski n, Z. Zuo, S. Collins n, B. McGirr n, J. Liu, C. Beisel n

topics (OpenAlex): CRISPR and Genetic Engineering; Transgenic Plants and Applications; RNA and protein synthesis mechanisms
TL;DR: It is reported that SpyCas9 also recognizes sequences within an N(A/C/T)GG motif, which could have implications for precise editing, off-target predictions, and CRISPR-based immunity. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 10, 2020

2020 article

Your Base Editor Might Be Flirting with Single (Stranded) DNA: Faithful On-Target CRISPR Base Editing without Promiscuous Deamination

Collins, S. P., & Beisel, C. L. (2020, September 1). Molecular Cell.

By: S. Collins n & C. Beisel n

MeSH headings : CRISPR-Cas Systems; Clustered Regularly Interspaced Short Palindromic Repeats; Cytosine; DNA, Single-Stranded; Deamination; Gene Editing
topics (OpenAlex): CRISPR and Genetic Engineering; Innovation and Socioeconomic Development
TL;DR: Jin et al. (2020) engineered new variants of CRISPR base editors that make precise genomic edits in rice protoplasts while minimizing untargeted mutagenesis. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Source: Web Of Science
Added: October 12, 2020

2019 article

An educational module to explore CRISPR technologies with a cell-free transcription-translation system

Collias, D., Marshall, R., Collins, S. P., Beisel, C. L., & Noireaux, V. (2019, January 1). Synthetic Biology.

By: D. Collias n, R. Marshall*, S. Collins n, C. Beisel* & V. Noireaux *

author keywords: CRISPR; Cas9; education modules; synthetic biology; TXTL
topics (OpenAlex): CRISPR and Genetic Engineering; Innovation and Socioeconomic Development; CAR-T cell therapy research
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)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: February 27, 2020

2019 article

An enhanced assay to characterize anti-CRISPR proteins using a cell-free transcription-translation system

Wandera, K. G., Collins, S. P., Wimmer, F., Marshall, R., Noireaux, V., & Beisel, C. L. (2019, May 20). Methods.

By: K. Wandera *, S. Collins n, F. Wimmer *, R. Marshall*, V. Noireaux * & C. Beisel n

author keywords: Anti-CRISPR proteins; Cas9; Genome editing; sgRNA; TXTL
MeSH headings : Bacteriophages / metabolism; CRISPR-Associated Protein 9 / antagonists & inhibitors; CRISPR-Associated Protein 9 / metabolism; CRISPR-Cas Systems / genetics; Enzyme Assays / instrumentation; Enzyme Assays / methods; Escherichia coli / enzymology; Escherichia coli / genetics; Escherichia coli / immunology; Escherichia coli / virology; Escherichia coli Proteins / antagonists & inhibitors; Escherichia coli Proteins / metabolism; Fluorescence; Gene Editing / methods; Genes, Reporter / genetics; Green Fluorescent Proteins / chemistry; Green Fluorescent Proteins / genetics; Host-Pathogen Interactions / genetics; Host-Pathogen Interactions / immunology; Protein Biosynthesis; Transcription, Genetic; Viral Proteins / metabolism
topics (OpenAlex): CRISPR and Genetic Engineering; Insect symbiosis and bacterial influences; Plant Virus Research Studies
TL;DR: This work reports a rapid and scalable method for characterizing putative Acrs against Cas nucleases using an E. coli-derived cell-free transcription-translation system and demonstrates how the method can be used to measure the inhibitory activity of individual Acrs in under two days. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: April 6, 2020

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)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2017 article

Short DNA containing χ sites enhances DNA stability and gene expression in E. coli cell‐free transcription–translation systems

Marshall, R., Maxwell, C. S., Collins, S. P., Beisel, C. L., & Noireaux, V. (2017, May 5). Biotechnology and Bioengineering.

By: R. Marshall*, C. Maxwell n, S. Collins n, C. Beisel n & V. Noireaux *

author keywords: Escherichia coli; gene circuits; prototyping; RecBCD; synthetic biology; TXTL
MeSH headings : Cell-Free System / physiology; DNA, Bacterial / genetics; Escherichia coli / genetics; Exodeoxyribonuclease V / genetics; Gene Expression Regulation, Bacterial / genetics; Genetic Engineering / methods; Protein Biosynthesis / genetics; Transcription, Genetic / genetics
topics (OpenAlex): CRISPR and Genetic Engineering; RNA and protein synthesis mechanisms; Advanced biosensing and bioanalysis techniques
TL;DR: It is shown that double-stranded DNA encoding χ sites-eight base-pair sequences preferentially bound by the RecBCD recombination machinery-stabilizes linear DNA and greatly enhances the TXTL-based expression and activity of a fluorescent reporter gene, simple regulatory cascades, and T7 bacteriophage particles. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

Citation Index includes data from a number of different sources. If you have questions about the sources of data in the Citation Index or need a set of data which is free to re-distribute, please contact us.

Certain data included herein are derived from the Web of Science© and InCites© (2026) of Clarivate Analytics. All rights reserved. You may not copy or re-distribute this material in whole or in part without the prior written consent of Clarivate Analytics.