Banner for LabNotes
From Lab Notes
Contact Information
Forest Products Laboratory
One Gifford Pinchot Drive
Madison, WI 53726-2398
Phone: (608) 231-9200
Fax: (608) 231-9592


You are here: FPL Home  / Information Products & Services  / Publications

Requested Product

Title: Prospects and challenges for fungal metatranscriptomics of complex communities

Source: Fungal Ecology, Corrected proof. 5p.

Author(s)Kuske, Cheryl R.; Hesse, Cedar N.; Challacombe, Jean F.; Cullen, Daniel; Herr, Joshua R.; Mueller, Rebecca C.; Tsang, Adrian; Vilgalys, Rytas

Publication Year: 2015  View PDF »

Category: Journal Articles
Associated Research Project(s):   FPL-4712-4B

Abstract: The ability to extract and purify messenger RNA directly from plants, decomposing organic matter and soil, followed by highthroughput sequencing of the pool of expressed genes, has spawned the emerging research area of metatranscriptomics. Each metatranscriptome provides a snapshot of the composition and relative abundance of actively transcribed genes, and thus provides an assessment of the interactions between soil microorganisms and plants, and collective microbial metabolic processes in many environments. We highlight current approaches for analysis of fungal transcriptome and metatranscriptome datasets across a gradient of community complexity, and note benefits and pitfalls associated with those approaches. We discuss knowledge gaps that limit our current ability to interpret metatranscriptome datasets and suggest future research directions that will require concerted efforts within the scientific community.

Keywords: Environmental RNA; Fungal metabolism; Fungal transcriptome; K-mer; Metatranscriptome; Sequence databases

Publication Review Process: Formally Refereed

File size: 494 kb(s)

Date posted: 02/11/2015

This publication is also viewable on Treesearch:  view
RITS Product ID: 72153
Current FPL Scientist associated with this product
Cullen, Daniel
Research Microbiologist

Additional items that might interest you
View the video celebrating FPL's 100 years of public service in 2010, from the producers of the Greatest Good....view

Research Highlights from FPL....view

Termite Eradication: A search for the Holy Grail.... view

Moisture Management in Residential Construction Series videos...view

Wood Floor Systems in Residential Construction Series videos....view
- FPL's Mission and Strategic Plan -

FPL's mission is to identify and conduct innovative wood and fiber utilization research that contributes to conservation and productivity of the forest resource, thereby sustaining forests, the economy, and quality of life. ... ..more »

- FPL Research Emphasis Areas -
Advanced Composites

As an integral part of the FPL mission, we improve the long-term sustainability of our Nation's forests by creating valuable composite products from biobased materials ... ..more »

Advanced Structures

The FPL has been in the forefront of wood-frame housing research since 1910 and has long been recognized as a world leader in such housing-related areas as engineered wood ... ..more »

Forest Biorefinery

We all know the compelling reasons that the United States needs to reduce its dependence on fossil fuels. Historically, the greatest increases in energy demand have been for transportation fuels ... ..more »


A leader in wood products research for over a century, the FPL is positioning itself to become the lead Federal research facility for the application of nanotechnology in forest products ... more »

Woody Biomass Utilization

Forests in the United States contain a substantial amount of small-diameter, overstocked, and underutilized material.FPL research projects are exploring the potential of the small-diameter ... ..more »