| |
|
|
| |
|
|
Research  |
|
|
|
| |
| |
Fungal plant cell wall-degrading enzyme database: a platform for comparative and evolutionary genomics in fungi and Oomycetes
|
|
|
|
|
|
| |
|
 Authours
|
Jaeyoung Choi, Ki-Tae Kim, Jongbum Jeon, Yong-Hwan Lee |
| Title |
Fungal plant cell wall-degrading enzyme database: a platform for comparative and evolutionary genomics in fungi and Oomycetes |
| Journal |
BMC GENOMICS, 2013 (14) ~ |
Abstract
|
Background: Plant cell wall-degrading enzymes (PCWDEs) play significant roles throughout the fungal life including
acquisition of nutrients and decomposition of plant cell walls. In addition, many of PCWDEs are also utilized by biofuel
and pulp industries. In order to develop a comparative genomics platform focused in fungal PCWDEs and provide a
resource for evolutionary studies, Fungal PCWDE Database (FPDB) is constructed (http://pcwde.riceblast.snu.ac.kr/).
Results: In order to archive fungal PCWDEs, 22 sequence profiles were constructed and searched on 328 genomes of
fungi, Oomycetes, plants and animals. A total of 6,682 putative genes encoding PCWDEs were predicted, showing
differential distribution by their life styles, host ranges and taxonomy. Genes known to be involved in fungal
pathogenicity, including polygalacturonase (PG) and pectin lyase, were enriched in plant pathogens. Furthermore, crop
pathogens had more PCWDEs than those of rot fungi, implying that the PCWDEs analysed in this study are more
needed for invading plant hosts than wood-decaying processes. Evolutionary analysis of PGs in 34 selected genomes
revealed that gene duplication and loss events were mainly driven by taxonomic divergence and partly contributed by
those events in species-level, especially in plant pathogens.
Conclusions: The FPDB would provide a fungi-specialized genomics platform, a resource for evolutionary studies
of PCWDE gene families and extended analysis option by implementing Favorite, which is a data exchange and
analysis hub built in Comparative Fungal Genomics Platform (CFGP 2.0; http://cfgp.snu.ac.kr/). |
Link
|
 |
|
|
| |
|
|
|
|
| |
|
|
|
|
