title: A specific type of cyclin-like F-box domain gene is involved in the cryogenic autolysis of Volvariella volvacea.
abstract: Cryogenic autolysis is a typical phenomenon of abnormal metabolism in Volvariella volvacea. Recent studies have identified 20 significantly up-regulated genes via high-throughput sequencing of the mRNAs expressed in the mycelia of V. volvacea after cold exposure. Among these significantly up-regulated genes, 15 annotated genes were used for functional annotation cluster analysis. Our results showed that the cyclin-like F-box domain (FBDC) formed the functional cluster with the lowest P-value. We also observed a significant expansion of FBDC families in V. volvacea. Among these, the FBDC3 family displayed the maximal gene expansion in V. volvacea. Gene expression profiling analysis revealed only one FBDC gene in V. volvacea (FBDV1) that was significantly up-regulated, which is located in the FBDC3 family. Comparative genomics analysis revealed the homologous sequences of FBDV1 with high similarity were clustered on the same scaffold. However, FBDV1 was located far from these clusters, indicating the divergence of duplicated genes. Relative time estimation and rate test provided evidence for the divergence of FBDV1 after recent duplications. Real-time RT-PCR analysis confirmed that the expression of the FBDV1 was significantly up-regulated (P < 0.001) after cold-treatment of V. volvacea for 4 h. These observations suggest that the FBDV1 is involved in the cryogenic autolysis of V. volvacea.
authors.affiliation: National Engineering Research Center of Edible Fungi, Ministry of Science and Technology; Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture; Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, P.R. China; Department of Computer Science, University of Nebraska at Omaha, Omaha, Nebraska 68182.
authors.forename: Ming
authors.initials: M
authors.lastname: Gong
authors.affiliation: National Engineering Research Center of Edible Fungi, Ministry of Science and Technology; Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture; Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, P.R. China.
authors.forename: Mingjie
authors.initials: M
authors.lastname: Chen
authors.affiliation: National Engineering Research Center of Edible Fungi, Ministry of Science and Technology; Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture; Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, P.R. China.
authors.forename: Hong
authors.initials: H
authors.lastname: Wang
authors.affiliation: Department of Computer Science, University of Nebraska at Omaha, Omaha, Nebraska 68182 qzhu@mail.unomaha tanqsaas@gmail.com.
authors.forename: Qiuming
authors.initials: Q
authors.lastname: Zhu
authors.affiliation: National Engineering Research Center of Edible Fungi, Ministry of Science and Technology; Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture; Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, P.R. China qzhu@mail.unomaha tanqsaas@gmail.com.
authors.forename: Qi
authors.initials: Q
authors.lastname: Tan
mesh_terms: D016213:Cyclins / Q000235:genetics* / Q000378:metabolism; D005656:Fungal Proteins / Q000235:genetics* / Q000378:metabolism; D010802:Phylogeny; D055367:Volvariella / Q000145:classification / Q000166:cytology* / Q000235:genetics* / Q000378:metabolism
chemical_list: D016213:Cyclins; D005656:Fungal Proteins
keywords: F-box domain; Volvariella volvacea; abnormal metabolism; autolysis; gene expansion