A newly discovered ubiquitin-conjugating enzyme E2 correlated with the cryogenic autolysis of Volvariella volvacea

Ming Gong, Hong Wang, Mingjie Chen, Dapeng Bao, Qiuming Zhu, Qi Tan

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

In Volvariella volvacea, a species of edible mushroom, cryogenic autolysis is a typical part of abnormal metabolism. Previous functional annotation cluster analyses of cold-induced gene expression profiles have shown that the ubiquitin-conjugating enzyme E2 (UBE2), rather than the cyclin-like F-box domain alone, forms the functional cluster. In this study, analysis of gene expression profiling showed that only one type of UBE2 in V. volvacea (UBEV2) was significantly up-regulated. Further quantitative real-time PCR analysis confirmed that the expression of UBEV2 was significantly up-regulated (P < 0.05) after cold-treatment lasting 4, 6, and 8 h. This provided evidence that UBEV2 was closely correlated with cryogenic autolysis. The specific distribution of UBEV2 in recently diverged herb decay fungi indicated that UBEV2 was not evolutionarily correlated with early diverging fungi. Phylogenetic analysis indicated that UBEV2 was generated by horizontal gene transfer (HGT) from the ancestry of Selaginella moellendorffii UBE2. Further relative time estimation and detection of natural selection showed that there has been recent positive selection after HGT in UBEV2. Molecular modeling and logo analysis showed that the cysteine-cysteine motif is the characteristic of the UBEV2 family. These observations indicate that UBEV2 is a new type of UBE2 correlated with the cryogenic autolysis of V. volvacea.

Original languageEnglish (US)
Pages (from-to)58-63
Number of pages6
JournalGene
Volume583
Issue number1
DOIs
StatePublished - Jan 1 2016

Fingerprint

Volvariella
Ubiquitin-Conjugating Enzymes
Autolysis
Horizontal Gene Transfer
Cysteine
Selaginellaceae
Fungi
Cyclins
Genetic Selection
Agaricales
Gene Expression Profiling
Transcriptome
Cluster Analysis
Real-Time Polymerase Chain Reaction

Keywords

  • Abnormal metabolism
  • Autolysis
  • Horizontal gene transfer
  • Ubiquitin-conjugating enzyme E2
  • Volvariella volvacea

ASJC Scopus subject areas

  • Genetics

Cite this

A newly discovered ubiquitin-conjugating enzyme E2 correlated with the cryogenic autolysis of Volvariella volvacea. / Gong, Ming; Wang, Hong; Chen, Mingjie; Bao, Dapeng; Zhu, Qiuming; Tan, Qi.

In: Gene, Vol. 583, No. 1, 01.01.2016, p. 58-63.

Research output: Contribution to journalArticle

Gong, Ming ; Wang, Hong ; Chen, Mingjie ; Bao, Dapeng ; Zhu, Qiuming ; Tan, Qi. / A newly discovered ubiquitin-conjugating enzyme E2 correlated with the cryogenic autolysis of Volvariella volvacea. In: Gene. 2016 ; Vol. 583, No. 1. pp. 58-63.
@article{87278afeb911431e92d93da4863744d5,
title = "A newly discovered ubiquitin-conjugating enzyme E2 correlated with the cryogenic autolysis of Volvariella volvacea",
abstract = "In Volvariella volvacea, a species of edible mushroom, cryogenic autolysis is a typical part of abnormal metabolism. Previous functional annotation cluster analyses of cold-induced gene expression profiles have shown that the ubiquitin-conjugating enzyme E2 (UBE2), rather than the cyclin-like F-box domain alone, forms the functional cluster. In this study, analysis of gene expression profiling showed that only one type of UBE2 in V. volvacea (UBEV2) was significantly up-regulated. Further quantitative real-time PCR analysis confirmed that the expression of UBEV2 was significantly up-regulated (P < 0.05) after cold-treatment lasting 4, 6, and 8 h. This provided evidence that UBEV2 was closely correlated with cryogenic autolysis. The specific distribution of UBEV2 in recently diverged herb decay fungi indicated that UBEV2 was not evolutionarily correlated with early diverging fungi. Phylogenetic analysis indicated that UBEV2 was generated by horizontal gene transfer (HGT) from the ancestry of Selaginella moellendorffii UBE2. Further relative time estimation and detection of natural selection showed that there has been recent positive selection after HGT in UBEV2. Molecular modeling and logo analysis showed that the cysteine-cysteine motif is the characteristic of the UBEV2 family. These observations indicate that UBEV2 is a new type of UBE2 correlated with the cryogenic autolysis of V. volvacea.",
keywords = "Abnormal metabolism, Autolysis, Horizontal gene transfer, Ubiquitin-conjugating enzyme E2, Volvariella volvacea",
author = "Ming Gong and Hong Wang and Mingjie Chen and Dapeng Bao and Qiuming Zhu and Qi Tan",
year = "2016",
month = "1",
day = "1",
doi = "10.1016/j.gene.2016.02.038",
language = "English (US)",
volume = "583",
pages = "58--63",
journal = "Gene",
issn = "0378-1119",
publisher = "Elsevier",
number = "1",

}

TY - JOUR

T1 - A newly discovered ubiquitin-conjugating enzyme E2 correlated with the cryogenic autolysis of Volvariella volvacea

AU - Gong, Ming

AU - Wang, Hong

AU - Chen, Mingjie

AU - Bao, Dapeng

AU - Zhu, Qiuming

AU - Tan, Qi

PY - 2016/1/1

Y1 - 2016/1/1

N2 - In Volvariella volvacea, a species of edible mushroom, cryogenic autolysis is a typical part of abnormal metabolism. Previous functional annotation cluster analyses of cold-induced gene expression profiles have shown that the ubiquitin-conjugating enzyme E2 (UBE2), rather than the cyclin-like F-box domain alone, forms the functional cluster. In this study, analysis of gene expression profiling showed that only one type of UBE2 in V. volvacea (UBEV2) was significantly up-regulated. Further quantitative real-time PCR analysis confirmed that the expression of UBEV2 was significantly up-regulated (P < 0.05) after cold-treatment lasting 4, 6, and 8 h. This provided evidence that UBEV2 was closely correlated with cryogenic autolysis. The specific distribution of UBEV2 in recently diverged herb decay fungi indicated that UBEV2 was not evolutionarily correlated with early diverging fungi. Phylogenetic analysis indicated that UBEV2 was generated by horizontal gene transfer (HGT) from the ancestry of Selaginella moellendorffii UBE2. Further relative time estimation and detection of natural selection showed that there has been recent positive selection after HGT in UBEV2. Molecular modeling and logo analysis showed that the cysteine-cysteine motif is the characteristic of the UBEV2 family. These observations indicate that UBEV2 is a new type of UBE2 correlated with the cryogenic autolysis of V. volvacea.

AB - In Volvariella volvacea, a species of edible mushroom, cryogenic autolysis is a typical part of abnormal metabolism. Previous functional annotation cluster analyses of cold-induced gene expression profiles have shown that the ubiquitin-conjugating enzyme E2 (UBE2), rather than the cyclin-like F-box domain alone, forms the functional cluster. In this study, analysis of gene expression profiling showed that only one type of UBE2 in V. volvacea (UBEV2) was significantly up-regulated. Further quantitative real-time PCR analysis confirmed that the expression of UBEV2 was significantly up-regulated (P < 0.05) after cold-treatment lasting 4, 6, and 8 h. This provided evidence that UBEV2 was closely correlated with cryogenic autolysis. The specific distribution of UBEV2 in recently diverged herb decay fungi indicated that UBEV2 was not evolutionarily correlated with early diverging fungi. Phylogenetic analysis indicated that UBEV2 was generated by horizontal gene transfer (HGT) from the ancestry of Selaginella moellendorffii UBE2. Further relative time estimation and detection of natural selection showed that there has been recent positive selection after HGT in UBEV2. Molecular modeling and logo analysis showed that the cysteine-cysteine motif is the characteristic of the UBEV2 family. These observations indicate that UBEV2 is a new type of UBE2 correlated with the cryogenic autolysis of V. volvacea.

KW - Abnormal metabolism

KW - Autolysis

KW - Horizontal gene transfer

KW - Ubiquitin-conjugating enzyme E2

KW - Volvariella volvacea

UR - http://www.scopus.com/inward/record.url?scp=84963682458&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84963682458&partnerID=8YFLogxK

U2 - 10.1016/j.gene.2016.02.038

DO - 10.1016/j.gene.2016.02.038

M3 - Article

C2 - 26927519

AN - SCOPUS:84963682458

VL - 583

SP - 58

EP - 63

JO - Gene

JF - Gene

SN - 0378-1119

IS - 1

ER -