Keyword search (4,163 papers available)

"RNA-Seq" Keyword-tagged Publications:

Title Authors PubMed ID
1 Identification of Genes Involved in the Degradation of Lignocellulose Using Comparative Transcriptomics Gruninger RJ; Tsang A; McAllister TA; 37149538
CSFG
2 Transcriptional Profiling of the Candida albicans Response to the DNA Damage Agent Methyl Methanesulfonate Feng Y; Zhang Y; Li J; Omran RP; Whiteway M; Feng J; 35886903
BIOLOGY
3 Deletion of the Aspergillus niger Pro-Protein Processing Protease Gene kexB Results in a pH-Dependent Morphological Transition during Submerged Cultivations and Increases Cell Wall Chitin Content. van Leeuwe TM, Arentshorst M, Forn-Cuní G, Geoffrion N, Tsang A, Delvigne F, Meijer AH, Ram AFJ, Punt PJ 33276589
CSFG
4 Characterization of the Esi3/RCI2/PMP3 gene family in the Triticeae. Brunetti SC, Arseneault MKM, Gulick PJ 30537926
BIOLOGY
5 Transcriptome and exoproteome analysis of utilization of plant-derived biomass by Myceliophthora thermophila. Kolbusz MA, Di Falco M, Ishmael N, Marqueteau S, Moisan MC, Baptista CDS, Powlowski J, Tsang A 24881579
BIOLOGY
6 Identification of Genes Involved in the Degradation of Lignocellulose Using Comparative Transcriptomics. Gruninger RJ, Reid I, Forster RJ, Tsang A, McAllister TA 28417376
CSFG
7 Evaluating Programs for Predicting Genes and Transcripts with RNA-Seq Support in Fungal Genomes. Reid I 29876820
CSFG

 

Title:Identification of Genes Involved in the Degradation of Lignocellulose Using Comparative Transcriptomics.
Authors:Gruninger RJ,  Reid I,  Forster RJ,  Tsang A,  McAllister TA
Link:https://www.ncbi.nlm.nih.gov/pubmed/28417376?dopt=Abstract
DOI:10.1007/978-1-4939-6899-2_21
Publication:Methods in molecular biology (Clifton, N.J.)
Keywords:Carbohydrate active enzyme;  Fungi;  Neocallimastigomycota;  RNA-Seq;  Transcriptomics; 
PMID:28417376 Category:Methods Mol Biol Date Added:2019-06-07
Dept Affiliation: CSFG
1 Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, 5403 1st Ave. South, Lethbridge, AB, Canada, T1J 4B1. robert.gruninger@agr.gc.ca.
2 Centre for Structural and Functional Genomics, Concordia University, Montreal, QC, Canada.
3 Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, 5403 1st Ave. South, Lethbridge, AB, Canada, T1J 4B1.

Description:

Identification of Genes Involved in the Degradation of Lignocellulose Using Comparative Transcriptomics.

Methods Mol Biol. 2017;1588:279-298

Authors: Gruninger RJ, Reid I, Forster RJ, Tsang A, McAllister TA

Abstract

Lignocellulosic biomass represents an abundant, renewable resource that can be used to produce biofuels, low-cost livestock feed, and high-value chemicals. The potential of this resource has led to intensive research efforts to develop cost effective methods to breakdown lignocellulose. The efficiency with which the anaerobic fungi (phylum Neocallimastigomycota) degrade plant biomass is well recognized and in recent years has received renewed interest. Transcriptomics has been used to identify enzymes that are expressed by these fungi and are involved in the degradation of a range of lignocellulose feedstocks. The transcriptome is the entire complement of coding and noncoding RNA transcripts that are expressed by a cell under a particular set of conditions. Monitoring changes in gene expression can provide fundamental information about the biology of an organism. Here we outline a general methodology that will enable researchers to conduct comparative transcriptomic studies with the goal of identifying enzymes involved in the degradation of the plant cell wall. The method described here includes growth of fungal cultures, isolation and sequencing of RNA, and a basic description of data analysis for bioinformatic identification of differentially expressed transcripts.

PMID: 28417376 [PubMed - indexed for MEDLINE]




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