著者

Masayuki Horie

出版者

The Genetics Society of Japan

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

pp.18-00049, (Released:2019-06-29)

参考文献数

89

被引用文献数

6

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Riboviruses are viruses that have RNA genomes and replicate only via RNA intermediates. Although they do not require a DNA phase for replication and do not encode reverse transcriptase, the presence of DNA forms of riboviral sequences in ribovirus-infected cells has been reported since the 1970s. Additionally, heritable ribovirus-derived sequences, called riboviral endogenous viral elements (EVEs), have been found in the genomes of many eukaryotes. These are now thought to be formed by the reverse transcription machineries of retrotransposons within eukaryotic genomes sometimes referred to as selfish elements. Surprisingly, some reverse-transcribed riboviral DNAs (including EVEs) provide physiological functions for their hosts, suggesting the occurrence of novel interactions among eukaryotic genomes, retrotransposons and riboviruses, and opening the door to new avenues of investigation. Here I review current knowledge on these triangular interactions, and discuss future directions in this field.

著者

Miho Hirai Yoshihiro Takaki Fumie Kondo Masayuki Horie Syun-ichi Urayama Takuro Nunoura

出版者

Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles

雑誌

Microbes and Environments (ISSN:13426311)

巻号頁・発行日

vol.36, no.2, pp.ME20152, 2021 (Released:2021-05-01)

参考文献数

17

被引用文献数

16

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Fragmented and primer ligated dsRNA sequencing (FLDS) is a sequencing method applicable to long double-stranded RNA (dsRNA) that enables the complete genome sequencing of both double- and single-stranded RNA viruses. However, the application of this method on a low amount of dsRNA has been hindered by adaptor dimer formation during cDNA amplification and sequence library preparation. We herein developed FLDS ver. 3 by optimizing the terminal modification of an oligonucleotide adaptor and the conditions of adaptor ligation. We also examined the concentration of Mg2+ in the PCR reaction for cDNA amplification and the purification method of amplified cDNA. Fine sequence reads were successfully obtained from metagenomic shotgun sequencing libraries constructed from 10 and 100 pg dsRNA, and these libraries exhibited weaker detection sensitivity for low-abundance dsRNAs (viral genomes and genome segments) than that constructed from 1‍ ‍ng of dsRNA. We also report the utility of capillary electrophoresis for dsRNA quantification. The FLDS ver. 3 package expands the frontiers of our knowledge in RNA virus diversity and evolution.

著者

Masayuki Horie

出版者

The Genetics Society of Japan

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

vol.94, no.6, pp.253-267, 2019-12-01 (Released:2020-01-30)

参考文献数

89

被引用文献数

1 6

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Riboviruses are viruses that have RNA genomes and replicate only via RNA intermediates. Although they do not require a DNA phase for replication and do not encode reverse transcriptase, the presence of DNA forms of riboviral sequences in ribovirus-infected cells has been reported since the 1970s. Additionally, heritable ribovirus-derived sequences, called riboviral endogenous viral elements (EVEs), have been found in the genomes of many eukaryotes. These are now thought to be formed by the reverse transcription machineries of retrotransposons within eukaryotic genomes sometimes referred to as selfish elements. Surprisingly, some reverse-transcribed riboviral DNAs (including EVEs) provide physiological functions for their hosts, suggesting the occurrence of novel interactions among eukaryotic genomes, retrotransposons and riboviruses, and opening the door to new avenues of investigation. Here I review current knowledge on these triangular interactions, and discuss future directions in this field.

著者

Masayuki HORIE

出版者

JAPANESE SOCIETY OF VETERINARY SCIENCE

雑誌

Journal of Veterinary Medical Science (ISSN:09167250)

巻号頁・発行日

vol.83, no.9, pp.1485-1488, 2021 (Released:2021-09-27)

参考文献数

16

被引用文献数

5

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I performed metaviromic analysis of publicly available RNA-seq data from reptiles to understand the diversity of filoviruses (family Filoviridae). I identified a coding-complete sequence of a filovirus from the common lancehead (Bothrops atrox (Linnaeus, 1758)), tentatively named Tapajós virus (TAPV). Although the genome organization of TAPV is similar to mammalian filoviruses, our phylogenetic analysis showed that TAPV forms a cluster with a fish filovirus. However, TAPV is still distantly related to all the known filoviruses, suggesting that TAPV can be assigned as a species of a novel genus in Filoviridae. To our knowledge, this is the first report identifying a filovirus in reptiles, and thus contributes to a deeper understanding of the diversity and evolution of filoviruses.

著者

Yoshiyuki Suzuki Yuki Kobayashi Masayuki Horie Keizo Tomonaga

出版者

日本遺伝学会

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

vol.89, no.3, pp.143-148, 2014-06-01 (Released:2014-12-04)

参考文献数

46

被引用文献数

1 11

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Endogenous bornavirus-like nucleoprotein (EBLN) elements are nucleotide sequences homologous to the bornavirus N gene that have been identified in animal genomes. EBLN elements are considered to have been generated through reverse transcription of bornavirus N mRNA, mainly with the aid of long interspersed element-1 (LINE-1). The genome of thirteen-lined ground squirrels (Ictidomys tridecemlineatus) contains an EBLN element, itEBLN, which is thought to have been integrated less than 8.5 million years ago (MYA). However, it was also reported that the LINE-1 activity on this lineage was lost 4-5 MYA. Here, molecular evolutionary analyses were conducted to gain insights into the integration time of itEBLN. In a phylogenetic analysis of bornavirus N and itEBLN, using an EBLN element from cape golden moles (Chrysochloris asiatica) (caEBLN) as the outgroup, the integration time of itEBLN appeared to be close to the time of the most recent common ancestor (MRCA) for bornavirus N. From an analysis of genomic sequences for bornavirus strains isolated at different time points, the time of the MRCA for bornavirus N was estimated to be < 0.3 MYA. These results suggest that the integration time of itEBLN was much later than the loss of LINE-1 activity, supporting the non-LINE-1-mediated integration of itEBLN.