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Title: Development and evaluation of an agar capture system (ACS) for high-throughput screening of insoluble particulate substrates with bacterial growth and enzyme activity assays

Abstract

In this work, we describe a method for containing insoluble particulates for use as substrates in either bacterial growth or enzyme assays. This method was designed for high-throughput screening of environmental or engineered bacteria. Benchmarking this method with several model bacteria uncovered phenotypes not observable with the particulate substrates alone.

Authors:
 [1];  [1]
  1. Univ. of Maryland Baltimore County (UMBC), Baltimore, MD (United States)
Publication Date:
Research Org.:
Univ. of Maryland Baltimore County (UMBC), Baltimore, MD (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER); National Institutes of Health (NIH)
OSTI Identifier:
1834060
Alternate Identifier(s):
OSTI ID: 1823485
Grant/Contract Number:  
SC0014183; T32-GM066706
Resource Type:
Accepted Manuscript
Journal Name:
Journal of Microbiological Methods
Additional Journal Information:
Journal Volume: 190; Journal ID: ISSN 0167-7012
Publisher:
Elsevier
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Biomass containment device; Carbohydrate active enzyme; Cellulose; High-throughput screening; Polysaccharide degradation; Renewable fuels and chemicals

Citation Formats

Garcia, Cecelia A., and Gardner, Jeffrey G. Development and evaluation of an agar capture system (ACS) for high-throughput screening of insoluble particulate substrates with bacterial growth and enzyme activity assays. United States: N. p., 2021. Web. doi:10.1016/j.mimet.2021.106337.
Garcia, Cecelia A., & Gardner, Jeffrey G. Development and evaluation of an agar capture system (ACS) for high-throughput screening of insoluble particulate substrates with bacterial growth and enzyme activity assays. United States. https://doi.org/10.1016/j.mimet.2021.106337
Garcia, Cecelia A., and Gardner, Jeffrey G. Fri . "Development and evaluation of an agar capture system (ACS) for high-throughput screening of insoluble particulate substrates with bacterial growth and enzyme activity assays". United States. https://doi.org/10.1016/j.mimet.2021.106337. https://www.osti.gov/servlets/purl/1834060.
@article{osti_1834060,
title = {Development and evaluation of an agar capture system (ACS) for high-throughput screening of insoluble particulate substrates with bacterial growth and enzyme activity assays},
author = {Garcia, Cecelia A. and Gardner, Jeffrey G.},
abstractNote = {In this work, we describe a method for containing insoluble particulates for use as substrates in either bacterial growth or enzyme assays. This method was designed for high-throughput screening of environmental or engineered bacteria. Benchmarking this method with several model bacteria uncovered phenotypes not observable with the particulate substrates alone.},
doi = {10.1016/j.mimet.2021.106337},
journal = {Journal of Microbiological Methods},
number = ,
volume = 190,
place = {United States},
year = {Fri Sep 24 00:00:00 EDT 2021},
month = {Fri Sep 24 00:00:00 EDT 2021}
}

Works referenced in this record:

In-Frame Deletions Allow Functional Characterization of Complex Cellulose Degradation Phenotypes in Cellvibrio japonicus
journal, June 2015

  • Nelson, Cassandra E.; Gardner, Jeffrey G.
  • Applied and Environmental Microbiology, Vol. 81, Issue 17
  • DOI: 10.1128/AEM.00847-15

A simple and fast method for determining colony forming units
journal, October 2008


The complex physiology of Cellvibrio japonicus xylan degradation relies on a single cytoplasmic β-xylosidase for xylo-oligosaccharide utilization : Xylan degradation in
journal, January 2018

  • Blake, Andrew D.; Beri, Nina R.; Guttman, Hadassa S.
  • Molecular Microbiology, Vol. 107, Issue 5
  • DOI: 10.1111/mmi.13903

Hydrolytic pre-treatment methods for enhanced biobutanol production from agro-industrial wastes
journal, February 2018


Quantitative colorimetric measurement of cellulose degradation under microbial culture conditions
journal, March 2012

  • Haft, Rembrandt J. F.; Gardner, Jeffrey G.; Keating, David H.
  • Applied Microbiology and Biotechnology, Vol. 94, Issue 1
  • DOI: 10.1007/s00253-012-3968-5

Recent advances in the bioprospection and applications of chitinolytic bacteria for valorization of waste chitin
journal, March 2021

  • Dhole, Neeraja P.; Dar, Mudasir A.; Pandit, Radhakrishna S.
  • Archives of Microbiology, Vol. 203, Issue 5
  • DOI: 10.1007/s00203-021-02234-5

Chromatographic Assays for the Enzymatic Degradation of Chitin
journal, January 2021

  • Mekasha, Sophanit; Tuveng, Tina; Vaaje-Kolstad, Gustav
  • BIO-PROTOCOL, Vol. 11, Issue 9
  • DOI: 10.21769/BioProtoc.4014

A high-throughput solid phase screening method for identification of lignocellulose-degrading bacteria from environmental isolates
journal, September 2011

  • Gardner, Jeffrey G.; Zeitler, Laura A.; Wigstrom, Wendy Jo S.
  • Biotechnology Letters, Vol. 34, Issue 1
  • DOI: 10.1007/s10529-011-0742-1

Systems analysis of the glycoside hydrolase family 18 enzymes from Cellvibrio japonicus characterizes essential chitin degradation functions
journal, January 2018

  • Monge, Estela C.; Tuveng, Tina R.; Vaaje-Kolstad, Gustav
  • Journal of Biological Chemistry, Vol. 293, Issue 10
  • DOI: 10.1074/jbc.RA117.000849

Consolidated Bioprocessing: Synthetic Biology Routes to Fuels and Fine Chemicals
journal, May 2021


Complete genome sequence of Chitinophaga pinensis type strain (UQM 2034T)
journal, February 2010

  • Glavina Del Rio, Tijana; Abt, Birte; Spring, Stefan
  • Standards in Genomic Sciences, Vol. 2, Issue 1
  • DOI: 10.4056/sigs.661199

Probiotics, prebiotics and amelioration of diseases
journal, January 2019

  • Tsai, Yu-Ling; Lin, Tzu-Lung; Chang, Chih-Jung
  • Journal of Biomedical Science, Vol. 26, Issue 1
  • DOI: 10.1186/s12929-018-0493-6

Microbial regulation of the soil carbon cycle: evidence from gene–enzyme relationships
journal, May 2016

  • Trivedi, Pankaj; Delgado-Baquerizo, Manuel; Trivedi, Chanda
  • The ISME Journal, Vol. 10, Issue 11
  • DOI: 10.1038/ismej.2016.65

Maltose/Maltodextrin System of Escherichia coli: Transport, Metabolism, and Regulation
journal, March 1998


Strategies to improve solid state anaerobic bioconversion of lignocellulosic biomass: an overview
journal, July 2021


Custom fabrication of biomass containment devices using 3-D printing enables bacterial growth analyses with complex insoluble substrates
journal, November 2016

  • Nelson, Cassandra E.; Beri, Nina R.; Gardner, Jeffrey G.
  • Journal of Microbiological Methods, Vol. 130
  • DOI: 10.1016/j.mimet.2016.09.013

High-throughput screening of environmental polysaccharide-degrading bacteria using biomass containment and complex insoluble substrates
journal, February 2020

  • Monge, Estela C.; Levi, Marios; Forbin, Joseph N.
  • Applied Microbiology and Biotechnology, Vol. 104, Issue 8
  • DOI: 10.1007/s00253-020-10469-3

Enzymatic lignocellulose hydrolysis: Improved cellulase productivity by insoluble solids recycling
journal, January 2013

  • Weiss, Noah; Börjesson, Johan; Pedersen, Lars Saaby
  • Biotechnology for Biofuels, Vol. 6, Issue 1
  • DOI: 10.1186/1754-6834-6-5