Dataset Information

Multiple conversion between the genes encoding bacterial class-I release factors.

ABSTRACT: Bacteria require two class-I release factors, RF1 and RF2, that recognize stop codons and promote peptide release from the ribosome. RF1 and RF2 were most likely established through gene duplication followed by altering their stop codon specificities in the common ancestor of extant bacteria. This scenario expects that the two RF gene families have taken independent evolutionary trajectories after the ancestral gene duplication event. However, we here report two independent cases of conversion between RF1 and RF2 genes (RF1-RF2 gene conversion), which were severely examined by procedures incorporating the maximum-likelihood phylogenetic method. In both cases, RF1-RF2 gene conversion was predicted to occur in the region encoding nearly entire domain 3, of which functions are common between RF paralogues. Nevertheless, the 'direction' of gene conversion appeared to be opposite from one another-from RF2 gene to RF1 gene in one case, while from RF1 gene to RF2 gene in the other. The two cases of RF1-RF2 gene conversion prompt us to propose two novel aspects in the evolution of bacterial class-I release factors: (i) domain 3 is interchangeable between RF paralogues, and (ii) RF1-RF2 gene conversion have occurred frequently in bacterial genome evolution.

SUBMITTER: Ishikawa SA

PROVIDER: S-EPMC4530459 | biostudies-literature | 2015 Aug

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Multiple conversion between the genes encoding bacterial class-I release factors.

Ishikawa Sohta A SA Kamikawa Ryoma R Inagaki Yuji Y

Scientific reports 20150810

Bacteria require two class-I release factors, RF1 and RF2, that recognize stop codons and promote peptide release from the ribosome. RF1 and RF2 were most likely established through gene duplication followed by altering their stop codon specificities in the common ancestor of extant bacteria. This scenario expects that the two RF gene families have taken independent evolutionary trajectories after the ancestral gene duplication event. However, we here report two independent cases of conversion b ...[more]

PMID: 26257102

Similar Datasets

Project description:BACKGROUND:Many studies have proven the importance of SnRK1 in the regulation of carbohydrate metabolism and plant development. Compared to Arabidopsis, much less is known about SnRK1 complexes in crop plants, and therefore, more work needs to be done to identify SnRK1 genes and to investigate their function in crop plants. METHODS:In this study we identified five SnRK1-related genes in potato by analyzing the potato genome through BLAST, which encode one ?-subunit isoform (stKIN), two ?-subunit isoforms (stKIN?1 and stKIN?2) and two ?-subunit isoforms (stKIN? and stKIN??). To investigate the functions of SnRK1 in the tuber development of potato, we further made overexpression and RNAi transgenic plants of these five genes. Based on these overexpression transgenic plants, the Fast protein liquid chromatography (FPLC) were employed to purify SnRK1 complexes, which were tracked by western-blot. RESULTS:Experiments in vivo and in vitro showed that these five proteins in potato are functional SNF1/AMPK/SnRK1-related proteins. The SnRK1 activity decreased by 60% in the RNAi transgenic lines of stKIN; the starch content increased by 25% in the overexpression transgenic lines of stKIN, compared to that in the wild-type lines, whereas there is no significant difference in SnRK1 activity and starch content in the RNAi transgenic or overexpression lines of stKIN?1, stKIN?2, stKIN? and stKIN??. In addition, we found that a few different SnRK1 complexes are present in potato by partially purifying SnRK1 complexes from these overexpression transgenic plants. CONCLUSIONS:Five functional SnRK1-related genes were identified in potato, including three novel genes, which encode one ?-subunit isoform (stKIN), two ?-subunit isoforms (stKIN?1 and stKIN?2) and two ?-subunit isoforms (stKIN? and stKIN??). We found that a few SnRK1 related genes are present in potato tuber, which form several different SnRK1 isoenzymes. We found that stKIN is the primary ? subunit of SnRK1 in potato tuber and plays important roles in the development of potato tubers.

Dataset Information

Multiple conversion between the genes encoding bacterial class-I release factors.

Publications

Multiple conversion between the genes encoding bacterial class-I release factors.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets