Genome analysis of medicinal Ganoderma spp. with plant-pathogenic and saprotrophic life-styles

Ursula Kües, David Nelson, Chang Liu, Guo Jun Yu, Jianhui Zhang, Jianqin Li, Xin Cun Wang, Hui Sun

Research output: Contribution to journalArticle

17 Citations (Scopus)

Abstract

Ganoderma is a fungal genus belonging to the Ganodermataceae family and Polyporales order. Plant-pathogenic species in this genus can cause severe diseases (stem, butt, and root rot) in economically important trees and perennial crops, especially in tropical countries. Ganoderma species are white rot fungi and have ecological importance in the breakdown of woody plants for nutrient mobilization. They possess effective machineries of lignocellulose-decomposing enzymes useful for bioenergy production and bioremediation. In addition, the genus contains many important species that produce pharmacologically active compounds used in health food and medicine. With the rapid adoption of next-generation DNA sequencing technologies, whole genome sequencing and systematic transcriptome analyses become affordable approaches to identify an organism's genes. In the last few years, numerous projects have been initiated to identify the genetic contents of several Ganoderma species, particularly in different strains of Ganoderma lucidum. In November 2013, eleven whole genome sequencing projects for Ganoderma species were registered in international databases, three of which were already completed with genomes being assembled to high quality. In addition to the nuclear genome, two mitochondrial genomes for Ganoderma species have also been reported. Complementing genome analysis, four transcriptome studies on various developmental stages of Ganoderma species have been performed. Information obtained from these studies has laid the foundation for the identification of genes involved in biological pathways that are critical for understanding the biology of Ganoderma, such as the mechanism of pathogenesis, the biosynthesis of active components, life cycle and cellular development, etc. With abundant genetic information becoming available, a few centralized resources have been established to disseminate the knowledge and integrate relevant data to support comparative genomic analyses of Ganoderma species. The current review carries out a detailed comparison of the nuclear genomes, mitochondrial genomes and transcriptomes from several Ganoderma species. Genes involved in biosynthetic pathways such as CYP450 genes and in cellular development such as matA and matB genes are characterized and compared in detail, as examples to demonstrate the usefulness of comparative genomic analyses for the identification of critical genes. Resources needed for future data integration and exploitation are also discussed.

Original languageEnglish (US)
Pages (from-to)18-37
Number of pages20
JournalPhytochemistry
Volume114
DOIs
StatePublished - May 26 2015

Fingerprint

Ganoderma
lifestyle
Life Style
Genes
Genome
genome
transcriptome
Mitochondrial Genome
genes
Gene Expression Profiling
nuclear genome
Polyporales
Ganodermataceae
Reishi
genomics
Ganoderma lucidum
tropical and subtropical crops
Food
lignocellulose
white-rot fungi

All Science Journal Classification (ASJC) codes

  • Biochemistry
  • Molecular Biology
  • Plant Science
  • Horticulture

Cite this

Genome analysis of medicinal Ganoderma spp. with plant-pathogenic and saprotrophic life-styles. / Kües, Ursula; Nelson, David; Liu, Chang; Yu, Guo Jun; Zhang, Jianhui; Li, Jianqin; Wang, Xin Cun; Sun, Hui.

In: Phytochemistry, Vol. 114, 26.05.2015, p. 18-37.

Research output: Contribution to journalArticle

Kües, Ursula ; Nelson, David ; Liu, Chang ; Yu, Guo Jun ; Zhang, Jianhui ; Li, Jianqin ; Wang, Xin Cun ; Sun, Hui. / Genome analysis of medicinal Ganoderma spp. with plant-pathogenic and saprotrophic life-styles. In: Phytochemistry. 2015 ; Vol. 114. pp. 18-37.
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