Literature DB >> 33398098

Quantitative image analysis of microbial communities with BiofilmQ.

Raimo Hartmann1, Hannah Jeckel1,2, Eric Jelli1,2, Praveen K Singh1, Sanika Vaidya1, Miriam Bayer1, Daniel K H Rode1,2, Lucia Vidakovic1, Francisco Díaz-Pascual1, Jiunn C N Fong3, Anna Dragoš4, Olga Lamprecht1,5, Janne G Thöming6,7, Niklas Netter1,2, Susanne Häussler6,7, Carey D Nadell8, Victor Sourjik1,9, Ákos T Kovács4, Fitnat H Yildiz3, Knut Drescher10,11,12.   

Abstract

Biofilms are microbial communities that represent a highly abundant form of microbial life on Earth. Inside biofilms, phenotypic and genotypic variations occur in three-dimensional space and time; microscopy and quantitative image analysis are therefore crucial for elucidating their functions. Here, we present BiofilmQ-a comprehensive image cytometry software tool for the automated and high-throughput quantification, analysis and visualization of numerous biofilm-internal and whole-biofilm properties in three-dimensional space and time.

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Mesh:

Year:  2021        PMID: 33398098      PMCID: PMC7840502          DOI: 10.1038/s41564-020-00817-4

Source DB:  PubMed          Journal:  Nat Microbiol        ISSN: 2058-5276            Impact factor:   17.745


  35 in total

1.  Single-objective high-resolution confocal light sheet fluorescence microscopy for standard biological sample geometries.

Authors:  Stoyan Yordanov; Konstantin Neuhaus; Raimo Hartmann; Francisco Díaz-Pascual; Lucia Vidakovic; Praveen K Singh; Knut Drescher
Journal:  Biomed Opt Express       Date:  2021-05-14       Impact factor: 3.732

2.  Differential Surface Competition and Biofilm Invasion Strategies of Pseudomonas aeruginosa PA14 and PAO1.

Authors:  Swetha Kasetty; Stefan Katharios-Lanwermeyer; George A O'Toole; Carey D Nadell
Journal:  J Bacteriol       Date:  2021-09-13       Impact factor: 3.490

3.  Complex extracellular biology drives surface competition during colony expansion in Bacillus subtilis.

Authors:  Theresa Jautzus; Jordi van Gestel; Ákos T Kovács
Journal:  ISME J       Date:  2022-07-05       Impact factor: 11.217

4.  Uropathogenic Escherichia coli subverts mitochondrial metabolism to enable intracellular bacterial pathogenesis in urinary tract infection.

Authors:  Connor J Beebout; Gabriella L Robertson; Bradley I Reinfeld; Alexandra M Blee; Grace H Morales; John R Brannon; Walter J Chazin; W Kimryn Rathmell; Jeffrey C Rathmell; Vivian Gama; Maria Hadjifrangiskou
Journal:  Nat Microbiol       Date:  2022-08-22       Impact factor: 30.964

Review 5.  Advances and challenges in programming pattern formation using living cells.

Authors:  Jia Lu; Emrah Şimşek; Anita Silver; Lingchong You
Journal:  Curr Opin Chem Biol       Date:  2022-04-23       Impact factor: 8.972

6.  Cryptic surface-associated multicellularity emerges through cell adhesion and its regulation.

Authors:  Jordi van Gestel; Andreas Wagner
Journal:  PLoS Biol       Date:  2021-05-13       Impact factor: 8.029

7.  A Thermodynamic Model for Water Activity and Redox Potential in Evolution and Development.

Authors:  Jeffrey M Dick
Journal:  J Mol Evol       Date:  2022-03-13       Impact factor: 2.395

Review 8.  Roadmap on emerging concepts in the physical biology of bacterial biofilms: from surface sensing to community formation.

Authors:  Gerard C L Wong; Jyot D Antani; Pushkar P Lele; Jing Chen; Beiyan Nan; Marco J Kühn; Alexandre Persat; Jean-Louis Bru; Nina Molin Høyland-Kroghsbo; Albert Siryaporn; Jacinta C Conrad; Francesco Carrara; Yutaka Yawata; Roman Stocker; Yves V Brun; Gregory B Whitfield; Calvin K Lee; Jaime de Anda; William C Schmidt; Ramin Golestanian; George A O'Toole; Kyle A Floyd; Fitnat H Yildiz; Shuai Yang; Fan Jin; Masanori Toyofuku; Leo Eberl; Nobuhiko Nomura; Lori A Zacharoff; Mohamed Y El-Naggar; Sibel Ebru Yalcin; Nikhil S Malvankar; Mauricio D Rojas-Andrade; Allon I Hochbaum; Jing Yan; Howard A Stone; Ned S Wingreen; Bonnie L Bassler; Yilin Wu; Haoran Xu; Knut Drescher; Jörn Dunkel
Journal:  Phys Biol       Date:  2021-06-23       Impact factor: 2.959

9.  Bacterial predation transforms the landscape and community assembly of biofilms.

Authors:  Benjamin R Wucher; Mennat Elsayed; James S Adelman; Daniel E Kadouri; Carey D Nadell
Journal:  Curr Biol       Date:  2021-04-06       Impact factor: 10.900

10.  A single system detects and protects the beneficial oral bacterium Streptococcus sp. A12 from a spectrum of antimicrobial peptides.

Authors:  Kyulim Lee; Justin R Kaspar; Gisela Rojas-Carreño; Alejandro R Walker; Robert A Burne
Journal:  Mol Microbiol       Date:  2021-02-25       Impact factor: 3.979

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