Directed culturing of microorganisms using metatranscriptomics

L Bomar, M Maltz, S Colston, J Graf - MBio, 2011 - Am Soc Microbiol
The vast majority of bacterial species remain uncultured, and this severely limits the
investigation of their physiology, metabolic capabilities, and role in the environment. High …

[HTML][HTML] Metatranscriptomic analysis of diverse microbial communities reveals core metabolic pathways and microbiome-specific functionality

Y Jiang, X Xiong, J Danska, J Parkinson - Microbiome, 2016 - Springer
Background Metatranscriptomics is emerging as a powerful technology for the functional
characterization of complex microbial communities (microbiomes). Use of unbiased RNA …

[HTML][HTML] Opportunities and challenges of using metagenomic data to bring uncultured microbes into cultivation

S Liu, CD Moon, N Zheng, S Huws, S Zhao, J Wang - Microbiome, 2022 - Springer
Although there is now an extensive understanding of the diversity of microbial life on earth
through culture-independent metagenomic DNA sequence analyses, the isolation and …

Culture-independent characterization of the digestive-tract microbiota of the medicinal leech reveals a tripartite symbiosis

PL Worthen, CJ Gode, J Graf - Applied and environmental …, 2006 - Am Soc Microbiol
Culture-based studies of the microbial community within the gut of the medicinal leech have
typically been focused on various Aeromonas species, which were believed to be the sole …

Use of metatranscriptomics in microbiome research

S Bashiardes… - … and biology insights, 2016 - journals.sagepub.com
The human intestinal microbiome is a microbial ecosystem that expresses as many as 100
times more genes than the human host, thereby constituting an important component of the …

The future of microbial metagenomics (or is ignorance bliss?)

JA Gilbert, F Meyer, MJ Bailey - The ISME journal, 2011 - academic.oup.com
A recent explosion in the number of studies taking advantage of the power of next-
generation sequencing to explore metagenomic or 16S rRNA taxonomic diversity of …

Bioinformatics tools for quantitative and functional metagenome and metatranscriptome data analysis in microbes

SY Niu, J Yang, A McDermaid, J Zhao… - Briefings in …, 2018 - academic.oup.com
Metagenomic and metatranscriptomic sequencing approaches are more frequently being
used to link microbiota to important diseases and ecological changes. Many analyses have …

[HTML][HTML] Host matters: medicinal leech digestive-tract symbionts and their pathogenic potential

JN Marden, EA McClure, L Beka, J Graf - Frontiers in Microbiology, 2016 - frontiersin.org
Digestive-tract microbiota exert tremendous influence over host health. Host-symbiont model
systems are studied to investigate how symbioses are initiated and maintained, as well as to …

[HTML][HTML] Generation and analysis of a mouse intestinal metatranscriptome through Illumina based RNA-sequencing

X Xiong, DN Frank, CE Robertson, SS Hung, J Markle… - PloS one, 2012 - journals.plos.org
With the advent of high through-put sequencing (HTS), the emerging science of
metagenomics is transforming our understanding of the relationships of microbial …

To assemble or not to resemble—a validated comparative metatranscriptomics workflow (CoMW)

MZ Anwar, A Lanzen, T Bang-Andreasen… - …, 2019 - academic.oup.com
Background Metatranscriptomics has been used widely for investigation and quantification
of microbial communities' activity in response to external stimuli. By assessing the genes …