Literature DB >> 35263038

Preparation and Use of Cellular Reagents: A Low-resource Molecular Biology Reagent Platform.

Sanchita Bhadra1,2, Inyup Paik1,2, Jose-Angel Torres3,4, Stéphane Fadanka5, Chiara Gandini6,7, Harry Akligoh8, Jenny Molloy6, Andrew D Ellington1,2.   

Abstract

Protein reagents are indispensable for most molecular and synthetic biology procedures. Most conventional protocols rely on highly purified protein reagents that require considerable expertise, time, and infrastructure to produce. In consequence, most proteins are acquired from commercial sources, reagent expense is often high, and accessibility may be hampered by shipping delays, customs barriers, geopolitical constraints, and the need for a constant cold chain. Such limitations to the widespread availability of protein reagents, in turn, limit the expansion and adoption of molecular biology methods in research, education, and technology development and application. Here, we describe protocols for producing a low-resource and locally sustainable reagent delivery system, termed "cellular reagents," in which bacteria engineered to overexpress proteins of interest are dried and can then be used directly as reagent packets in numerous molecular biology reactions, without the need for protein purification or a constant cold chain. As an example of their application, we describe the execution of polymerase chain reaction (PCR) and loop-mediated isothermal amplification (LAMP) using cellular reagents, detailing how to replace pure protein reagents with optimal amounts of rehydrated cellular reagents. We additionally describe a do-it-yourself fluorescence visualization device for using these cellular reagents in common molecular biology applications. The methods presented in this article can be used for low-cost, on-site production of commonly used molecular biology reagents (including DNA and RNA polymerases, reverse transcriptases, and ligases) with minimal instrumentation and expertise, and without the need for protein purification. Consequently, these methods should generally make molecular biology reagents more affordable and accessible.
© 2022 Wiley Periodicals LLC. Basic Protocol 1: Preparation of cellular reagents Alternate Protocol 1: Preparation of lyophilized cellular reagents Alternate Protocol 2: Evaluation of bacterial culture growth via comparison to McFarland turbidity standards Support Protocol 1: SDS-PAGE for protein expression analysis of cellular reagents Basic Protocol 2: Using Taq DNA polymerase cellular reagents for PCR Basic Protocol 3: Using Br512 DNA polymerase cellular reagents for loop-mediated isothermal amplification (LAMP) Support Protocol 2: Building a fluorescence visualization device. © 2022 Wiley Periodicals LLC.

Entities:  

Keywords:  DIY equipment; cellular reagents; dried bacteria; local production of molecular reagents; low-cost molecular biology reagents; nucleic acid amplification reagents

Mesh:

Substances:

Year:  2022        PMID: 35263038      PMCID: PMC9094432          DOI: 10.1002/cpz1.387

Source DB:  PubMed          Journal:  Curr Protoc        ISSN: 2691-1299


  52 in total

1.  Real-time turbidimetry of LAMP reaction for quantifying template DNA.

Authors:  Yasuyoshi Mori; Masataka Kitao; Norihiro Tomita; Tsugunori Notomi
Journal:  J Biochem Biophys Methods       Date:  2004-05-31

2.  Cell-wide analysis of protein thermal unfolding reveals determinants of thermostability.

Authors:  Pascal Leuenberger; Stefan Ganscha; Abdullah Kahraman; Valentina Cappelletti; Paul J Boersema; Christian von Mering; Manfred Claassen; Paola Picotti
Journal:  Science       Date:  2017-02-24       Impact factor: 47.728

3.  Thermally-induced cell lysis in Escherichia coli K12.

Authors:  J Membrillo-Hernández; A Núñez-de la Mora; T del Rio-Albrechtsen; R Camacho-Carranza; M C Gomez-Eichelmann
Journal:  J Basic Microbiol       Date:  1995       Impact factor: 2.281

4.  PCR amplification of up to 35-kb DNA with high fidelity and high yield from lambda bacteriophage templates.

Authors:  W M Barnes
Journal:  Proc Natl Acad Sci U S A       Date:  1994-03-15       Impact factor: 11.205

5.  Improved Bst DNA Polymerase Variants Derived via a Machine Learning Approach.

Authors:  Inyup Paik; Phuoc H T Ngo; Raghav Shroff; Daniel J Diaz; Andre C Maranhao; David J F Walker; Sanchita Bhadra; Andrew D Ellington
Journal:  Biochemistry       Date:  2021-11-11       Impact factor: 3.321

6.  Cloning and complete sequence of the DNA polymerase-encoding gene (BstpolI) and characterisation of the Klenow-like fragment from Bacillus stearothermophilus.

Authors:  S M Phang; C Y Teo; E Lo; V W Wong
Journal:  Gene       Date:  1995-09-22       Impact factor: 3.688

7.  Production of recombinant proteins in Escherichia coli.

Authors:  E R LaVallie
Journal:  Curr Protoc Protein Sci       Date:  2001-05

8.  Cellular reagents for diagnostics and synthetic biology.

Authors:  Sanchita Bhadra; Arti Pothukuchy; Raghav Shroff; Austin W Cole; Michelle Byrom; Jared W Ellefson; Jimmy D Gollihar; Andrew D Ellington
Journal:  PLoS One       Date:  2018-08-15       Impact factor: 3.240

9.  Simultaneous Detection of Different Zika Virus Lineages via Molecular Computation in a Point-of-Care Assay.

Authors:  Sanchita Bhadra; Miguel A Saldaña; Hannah Grace Han; Grant L Hughes; Andrew D Ellington
Journal:  Viruses       Date:  2018-12-14       Impact factor: 5.048

10.  Implementation of genomics research in Africa: challenges and recommendations.

Authors:  Sally N Adebamowo; Veronica Francis; Ernest Tambo; Seybou H Diallo; Guida Landouré; Victoria Nembaware; Eileen Dareng; Babu Muhamed; Michael Odutola; Teniola Akeredolu; Barbara Nerima; Petronilla J Ozumba; Slee Mbhele; Anita Ghanash; Ablo P Wachinou; Nicholas Ngomi
Journal:  Glob Health Action       Date:  2018       Impact factor: 2.640

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  1 in total

1.  Specific Nucleic AcId Ligation for the detection of Schistosomes: SNAILS.

Authors:  Alexander James Webb; Fiona Allan; Richard J R Kelwick; Feleke Zewge Beshah; Safari Methusela Kinung'hi; Michael R Templeton; Aidan Mark Emery; Paul S Freemont
Journal:  PLoS Negl Trop Dis       Date:  2022-07-26
  1 in total

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