title: Two-component signal transduction in Agaricus bisporus: a comparative genomic analysis with other basidiomycetes through the web-based tool BASID2CS.
abstract: Two-component systems (TCSs) are signal transduction mechanisms present in many eukaryotes, including fungi that play essential roles in the regulation of several cellular functions and responses. In this study, we carry out a genomic analysis of the TCS proteins in two varieties of the white button mushroom Agaricus bisporus. The genomes of both A. bisporus varieties contain eight genes coding for TCS proteins, which include four hybrid Histidine Kinases (HKs), a single histidine-containing phosphotransfer (HPt) protein and three Response Regulators (RRs). Comparison of the TCS proteins among A. bisporus and the sequenced basidiomycetes showed a conserved core complement of five TCS proteins including the Tco1/Nik1 hybrid HK, HPt protein and Ssk1, Skn7 and Rim15-like RRs. In addition, Dual-HKs, unusual hybrid HKs with 2 HK and 2 RR domains, are absent in A. bisporus and are limited to various species of basidiomycetes. Differential expression analysis showed no significant up- or down-regulation of the Agaricus TCS genes in the conditions/tissue analyzed with the exception of the Skn7-like RR gene (Agabi_varbisH97_2|198669) that is significantly up-regulated on compost compared to cultured mycelia. Furthermore, the pipeline web server BASID2CS (http://bioinformatics.unavarra.es:1000/B2CS/BASID2CS.htm) has been specifically designed for the identification, classification and functional annotation of putative TCS proteins from any predicted proteome of basidiomycetes using a combination of several bioinformatic approaches.
authors.affiliation: Genetics and Microbiology Research Group, Departamento de Producción Agraria, Universidad Pública de Navarra, 31006 Pamplona, Spain.
authors.forename: José L
authors.initials: JL
authors.lastname: Lavín
authors.forename: Alberto
authors.initials: A
authors.lastname: García-Yoldi
authors.forename: Lucía
authors.initials: L
authors.lastname: Ramírez
authors.forename: Antonio G
authors.initials: AG
authors.lastname: Pisabarro
authors.forename: José A
authors.initials: JA
authors.lastname: Oguiza
mesh_terms: D000364:Agaricus / Q000235:genetics / Q000254:growth & development / Q000502:physiology*; D001487:Basidiomycota; D019295:Computational Biology / Q000379:methods*; D017124:Conserved Sequence; D005656:Fungal Proteins / Q000235:genetics; D020869:Gene Expression Profiling; D015966:Gene Expression Regulation, Fungal; D016681:Genome, Fungal; D023281:Genomics; D020407:Internet; D015398:Signal Transduction; D012988:Soil Microbiology
chemical_list: D005656:Fungal Proteins